Pathogen diversity, host specificity and virulence

Lead Research Organisation: University of Edinburgh
Department Name: The Roslin Institute

Abstract

This project will examine the diversity of pathogen populations and identify factors that contribute to virulence and host tropism, define their mode of action and use this knowledge to develop strategies to detect, treat and prevent infections.

Organisations

People

ORCID iD

David Lawrence Gally (Principal Investigator)
Sarah Mills Brown (Co-Investigator)
Samantha Lycett (Co-Investigator) orcid http://orcid.org/0000-0003-3159-596X
Nikki Smith (Co-Investigator)
Tanja Opriessnig (Co-Investigator)
Adrian Muwonge (Co-Investigator)
Gerry McLachlan (Co-Investigator) orcid http://orcid.org/0000-0001-5362-9804
Mark Bronsvoort (Co-Investigator)
Philippa Beard (Co-Investigator)
Eleanor Fiona Houston (Co-Investigator) orcid http://orcid.org/0000-0002-4082-2274
Neil Andrew Mabbott (Co-Investigator) orcid http://orcid.org/0000-0001-7395-1796
Ross Fitzgerald (Co-Investigator)
Tom Charles Freeman (Co-Investigator)
Abigail Diack (Co-Investigator) orcid http://orcid.org/0000-0002-4293-3437
Liam James Morrison (Co-Investigator)
Christine Tait-Burkard (Co-Investigator)
TAHAR AIT-ALI (Co-Investigator)
Elizabeth Glass (Co-Investigator) orcid http://orcid.org/0000-0002-6183-0185
Robert Dalziel (Co-Investigator)
Michael T Cheeseman (Co-Investigator)
Finn Grey (Co-Investigator)
Michael Bryan Watson (Co-Investigator) orcid http://orcid.org/0000-0003-4211-0358
K Salamat (Co-Investigator)
Rowland Raymond Kao (Co-Investigator)
Nick Sparks (Co-Investigator) orcid http://orcid.org/0000-0002-2879-2762
Musa Abdul Hassan (Co-Investigator) orcid http://orcid.org/0000-0002-0371-3300
Rona Barron (Co-Investigator)
Andrew Christopher Gill (Co-Investigator) orcid http://orcid.org/0000-0001-5201-9473
Lonneke Vervelde (Co-Investigator)
Tim Regan (Co-Investigator) orcid http://orcid.org/0000-0002-0979-7875
Wilfred Goldmann (Co-Investigator)
Helen Sang (Co-Investigator)
Andrea Beate Doeschl-Wilson (Co-Investigator)
Joanne Marie Stevens (Co-Investigator)
Jacqueline Smith (Co-Investigator) orcid http://orcid.org/0000-0002-2813-7872
Clare Pridans (Co-Investigator)
Bernadette Mary Dutia (Co-Investigator)
Deborah Hoyle (Co-Investigator)
Jean Manson (Co-Investigator)
Mark Paul Stevens (Co-Investigator)
David Arthur Hume (Co-Investigator)
Paul Digard (Co-Investigator)

Publications

10 25 50

publication icon
Boyle A (2017) Strain Typing of Prion Diseases Using In Vivo Mouse Models. in Methods in molecular biology (Clifton, N.J.)

 
Description In this theme we utilise genome-wide studies of pathogens combined with detailed research on mechanisms to understand variation in microbial pathogens and infection outcomes in food production species. The work contributes to development of novel diagnostics and intervention strategies.
Bacterial pathogens: we have developed a novel 3R approach to quantify the entry and persistence of diverse Salmonella serovars in the bovine lymphatic system by massively-parallel sequencing of polymorphic alleles of strains screened in pools. The approach has much potential to reduce animal use in screening strain phenotypes or evaluating cross-protective efficacy of vaccines or treatments. We have also retrospectively applied transposon-directed insertion-site sequencing to a library of Salmonella Typhimurium mutants screened for their ability to colonise the intestines of calves. The study independently validated the role of c. 3000 Salmonella genes in a key natural animal host using archived lymph node tissue without any further animal use. As such it also represents an advance of 3R principles.
Our ISP funding has placed us at the forefront of using machine-learning and quantitative genetic approaches to predict the host-specificity, virulence and zoonotic potential of bacterial pathogens. Machine-learning has also been applied to predict bacteriophage resistance, supported by high-density mutagenesis strategies to identify phage resistance genes, toward the selection of bacteriophage therapies for chronic bacterial infections.
We have described the evolutionary history of host-switching by S. aureus including the identification of genetic signatures of host-adaptation, as recently publicised by BBSRC. Our findings are consistent with domestication, intensive farming and globalization having a major influence on S. aureus evolution including the acquisition of antimicrobial resistance. The study highlights humans as a major hub for the transmission of S. aureus to livestock but also the emergence of new human clones from a bovine reservoir. These data point to key biological pathways that are important for host-adaptation and may therefore represent novel therapeutic targets. Related work has identified super-antigen SElX as a bifunctional toxin that inhibits neutrophil function and influences host-adaptation. Related to these findings, we have recently published a paper in Science that defines a novel mechanism of phage transduction known as lateral transduction that plays a central role in horizontal gene transfer among S. aureus strains. Lateral transduction involves in situ prophage replication followed by headful packaging of flanking bacterial chromosomal DNA and transfer of up to several hundred kb in length with very high efficiency. Our work revealed the impact of lateral transduction on bacterial genome structure and evolution supporting a key role in the adaptation of S. aureus to different host-species including livestock.
Our research has found that different M. bovis clones induce distinct transcriptional profiles, cytokines and cell death responses in bovine macrophages that may impact the effectiveness of bTB diagnostics and interventions. There is now significant activity at the institute studying the epidemiology of M. bovis infection in the UK and LMIC countries with a focus on better diagnostics and interventions. For example, the epidemiology of bovine tuberculosis in Cameroon based on abattoir sampling of 2346 cattle identified 255 M. bovis isolates in 97 unique genotypes. This represents the most diverse M. bovis population reported in Africa to date. The patterns of diversity are also different between regions possibly reflecting livestock movement networks and cross-border trade introducing a large number of new genotypes. This correlates with a separate analysis of the livestock trade network which shows a large interconnected network of trade in Northern Cameroon compared to a much more isolated trade network in the NW Region. The work is generating a better understanding of how this disease is transmitted between hosts in order to develop guidelines for stakeholders that should help reduce such transmission
By sequencing strains of varying virulence, we have also made good progress in understanding neglected pig pathogens. For Lawsonia intracellularis, we have determined 25 full genomes from isolates and generated the first phylogenetic tree. We continue to expand the number of genomes obtained by sequence capture. We have successfully cultured L. intracellularis in vitro and begun to dissect early molecular interactions. We have discovered and exploited novel DIVA markers to assess the efficacy of vaccination in herds. For Erysipelothrix rhusiopathiae, we have sequenced 40 serotype 2 strains and compared those to the current vaccine strain. Current serotyping appears of little value for disease prediction and we are examining variation in surface protective antigen (Spa) as a more definitive marker. We continue to develop our understanding of virulence regulation in E. coli O157, specifically regulatory control of the Type 3 secretion system that allows colonisation of cattle and is an important target for vaccines.
Viral pathogens: In relation to IAV, we found that mutations affecting expression or activity of the PA-X accessory protein impair virulence of an H9N2 virus in chickens (in collaboration with Pirbright). A specific mutation of PA-X was patent protected as a means of improving the yield of human IAV vaccines from embryonated eggs (UK patent 1602535.5). We are complementing this approach by modulating CpG or UpA dinucleotide frequencies, for which an ISP-supported researcher (Dr Elly Gaunt) was recently awarded a Wellcome Trust Sir Henry Dale Fellowship at Roslin. We have determined that the filamentous versus spherical shape of IAV particles influences their shedding and virulence in chickens. We also showed that a swine-derived pandemic H1N1 strain of IAV expresses a variant of the viral nucleoprotein that influences virulence in mice and pigs, and assigned a new function to the IAV NS1 protein in mRNA transport. In conjunction with colleagues at the Pirbright Institute, we have shown that avian influenza A virus strain-dependent differences in the virulence factor PB1-F2 affects viral control of innate immune responses.
Application and continued development of bioinformatic and phylodynamic tools to integrate movement networks and cross host species transmission has been applied to avian influenza and foot-and-mouth viral sequence data to define factors affecting transmission and evolution international. We also analysed transmission clusters using the phylodynamic methods from the Scottish Government EPIC III Bovine Viral Diarrhoea sequencing project to inform the Scottish eradication programme. Additionally, we were able to apply the phylodynamic methods to improve the understanding of FMDV and PRRSV evolution, including observation of rapidly diversifying strains (in Africa and Europe respectively) which may be a signal of additional selective pressures in these populations, one possible cause of this would be viral escape from incomplete vaccination protection.
Protozoal pathogens:, We have identified and characterised a Trypanosome small RNA as a potential diagnostic for animal and human African trypanosomiasis, which our data indicates is an accurate marker of infection, being specific (including having the properties that enable the development of a test that can differentiate between the three causative species of Animal African Trypanosomiasis), sensitive, and importantly rapidly declining upon successful treatment. This combination of properties would represent a better option for diagnosis than is currently available, and a patent has been filed on the basis of this finding. PacBio sequencing of trypanosome variant surface glycoprotein has revealed unpredecented diversity of the types expressed.
Prions: we have found that prion neuroinvasion after oral exposure occurs independently of gut microbiota, or the level of PrPC expression in intestinal epithelial cells, and involves delivery of prions to follicular dendritic cells by CXCR5-expressing DCs.
Organoid development for studying host pathogen interactions: We have generated and characterised bovine enteroid "mini gut" cultures. These provide a unique 3Rs system in which to study host-pathogen interactions in the bovine gut epithelium. There is a major drive within the institute to develop similar organoid models from different livestock species and specific tissues and these will prove invaluable for dissecting host-pathogens interactions. For example, cattle enteroids have been applied to understand the significance of Shiga toxin production by E. coli O157 with evidence for inhibition of cellular proliferation which to promote colonisation and persistence of this bacterium on the rectal epithelium of cattle. Organoid cultures are currently being used to investigate influenza, Cryptosporidium, Salmonella and Map pathogenesis.
Exploitation Route Impact from our ISP-funded research frequently involves partnerships with animal breeding and health companies. Our five strategic alliances are advancing ISP-supported research to commercialisation, in particular PRRS-resistant pigs via Genus Plc., fish resistant to aquatic diseases via Hendrix Genetics and WorldFish, and research to dissect the architecture of Eimeria resistance and edit chickens for influenza resistance with Cobb. We have also worked with Zoetis and Boehringer on vaccines for PCV, PRRSV and Lawsonia in pigs. We expect industry interactions to grow via our role in nascent Agri-Tech Centres (CIEL & Agri-EPI), the recent formation of Roslin Technologies Ltd with £10m private equity funding, and the opening of the adjacent Roslin Innovation Centre in August 2017 which now has 14 tenants.
I terms of specific examples:
1. A roadmap to combat Zoonotic Tuberculosis was launched in 2017 at the Union World Conference on Lung Health in Mexico. Zoonotic Tuberculosis (TB) is a form of tuberculosis in people caused by Mycobacterium bovis, which is often transmitted to humans through contact with infected animals, mainly cattle, and consumption of infected products. Ending the global TB epidemic is part of the goals set by the United Nations, aiming at inclusive, multidisciplinary approaches to improving health throughout the world by 2030. Dr Adrian Muwonge chairs the Zoonotic TB section at the International Union Against Tuberculosis and Lung Disease (The Union) that has been key to developing the roadmap which defines 10 key priority areas for limiting the impact of this disease on humans and their livestock and calls on stakeholders such as government, donors, academia, non-governmental organisations and private partnerships to action. The roadmap advises stakeholders to prioritise: (i) Mitigation of risk of transmission of zoonotic TB; (ii) Strengthening diagnostic capability; (iii) Access to timely diagnosis and effective treatment; (iv) Fostering inter-sectoral collaboration.
2. In Northern Tanzania our preliminary data indicates the same farmer-led control having an impact upon tsetse population and trypanosome prevalence, as well as examining the sustainability of this approach in terms of insecticide use and trypanocide resistance. Findings are being disseminated through regular meetings with stakeholders, including both farmers, policy-level individuals in Tanzania and those involved in developing new control methods (GALVmed), in order to feed findings back and try to influence future sustainability of control.
Sectors Agriculture, Food and Drink,Education,Healthcare

URL https://www.ed.ac.uk/roslin/research/isp
 
Description Our proposed outputs for this theme of the programme are: (1) New experimental models for pathogens in relevant hosts, including genome-edited cell lines and animals; (2) markers for improved diagnostics and risk analysis; (3) bioinformatic tools for assembling and analysing pathogen genomes and for modelling pathogen transmission on local and global scales; (4) new antigens and attenuated mutants as candidate vaccines; (5) novel targets for anti-infective agents and alternatives to antibiotics; (6) training in vulnerable capacities, in particular in vivo skills and bioinformatics. Specific non academic impacts to date include: 1. The first ever global Zoonotic TB roadmap. Zoonotic Tuberculosis (TB) is a form of tuberculosis in people caused by Mycobacterium bovis, which is often transmitted to humans through contact with infected animals, mainly cattle, and consumption of infected products. Ending the global TB epidemic is part of the goals set by the United Nations, aiming at inclusive, multidisciplinary approaches to improving health throughout the world by 2030. The roadmap defines 10 key priority areas for limiting the impact of this disease on humans and their livestock and calls on stakeholders such as government, donors, academia, non-governmental organisations and private partnerships to action. The roadmap advises stakeholders to prioritise: (i) Mitigation of risk of transmission of zoonotic TB; (ii) Strengthening diagnostic capability; (iii) Access to timely diagnosis and effective treatment; (iv) Fostering inter-sectoral collaboration. 2. Development of genome wide association and machine-learning approaches to dissect bacterial host adaptation and predict risk. Improved bioinformatics tools and sequence data are being used outbreak investigations with Public Health England and the Scottish E. coli reference laboratory. The tools are also defining specific targets for diagnostics and vaccine development. 3. Phylodynamic tools to integrate movement networks and cross host species transmission to quantify transmission patterns and strain evolution. This work has contributed to the Scottish Government EPIC III Bovine Viral Diarrhoea (BVD) sequencing project towards the Scottish eradication programme for BVD. 4. Building on our identification of PA-X mutants in influenza virus, it is apparent that such strains yield higher levels of the critical antigens for protection and a patent has been filed with interest in how this can be used commercially to improve flu vaccine production levels.
First Year Of Impact 2017
Sector Agriculture, Food and Drink,Healthcare,Pharmaceuticals and Medical Biotechnology
Impact Types Economic,Policy & public services

 
Description Member of Defra's Science Advisory Council
Geographic Reach National 
Policy Influence Type Participation in a advisory committee
Impact As a member of Defra's Science Advisory Council, I provide comments on a wide variety of Defra science-related policies and draw upon both my personal research experience, but also the broader research community at the Roslin Institute
URL https://www.gov.uk/government/organisations/science-advisory-council/about/our-governance#members
 
Description Presentation to the Advisory Committee on Dangerous Pathogens TSE subgroup on chronic wasting disease in deer
Geographic Reach National 
Policy Influence Type Participation in a advisory committee
 
Description World health Organisation global zoonotic tuberculosis road map
Geographic Reach Multiple continents/international 
Policy Influence Type Implementation circular/rapid advice/letter to e.g. Ministry of Health
URL http://www.who.int/tb/publications/2017/zoonotic_TB/en/
 
Description Alberta Prion Research Institute's Explorations Program Round VI
Amount $493,700 (CAD)
Funding ID PEX17009 
Organisation Alberta Prion Research Institute 
Start 07/2017 
End 06/2020
 
Description BBSRC Future Leader Fellowship
Amount £304,886 (GBP)
Funding ID BB/P007767/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 05/2017 
End 03/2019
 
Description BBSRC-A strategic approach to identifying and combating porcine reproductive and respiratory syndrome virus outbreaks and other porcine viral diseases
Amount £983,771 (GBP)
Funding ID BB/R013187/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2018 
End 03/2021
 
Description BBSRC-SFI-Tackling a multi-host pathogen problem - phylodynamic analyses of the epidemiology of M. bovis in Britain and Ireland
Amount £448,073 (GBP)
Funding ID BB/P010598/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2017 
End 09/2020
 
Description BBSRC_Understanding the CD163 - PRRS virus interaction to improve genetic engineering for resistance
Amount £674,353 (GBP)
Funding ID BB/R004463/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2017 
End 11/2020
 
Description Boehringer Ingelheim The PCV2 European Research Award
Amount € 25,000 (EUR)
Organisation Boehringer Ingelheim 
Department Boehringer Ingelheim
Sector Private
Country Canada
Start 02/2017 
End 04/2018
 
Description Carnegie Research Incentive Grant
Amount £9,886 (GBP)
Organisation Carnegie Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 02/2018 
End 07/2018
 
Description Carnegie Trust Research Incentive Grant
Amount £9,740 (GBP)
Organisation Carnegie Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 06/2018 
End 05/2019
 
Description Center for Tropical Livestock Health and Genetics
Amount £15,000,000 (GBP)
Organisation Bill and Melinda Gates Foundation 
Sector Charity/Non Profit
Country United States
Start 02/2017 
End 03/2020
 
Description Collaborative Award - Liam Morrison for RI - Challenging trypanosome antigenic variation paradigms using natural systems
Amount £2,070,288 (GBP)
Funding ID 206815/Z/17/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 04/2018 
End 04/2022
 
Description Collaborative Award - Rold Kao - Thinking forward through the past: Linking science, social science and the humanities to inform the sustainable reduction of disease in British livestock farming
Amount £218,525 (GBP)
Funding ID 209818/C/17/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 11/2018 
End 11/2022
 
Description Determining the role of CSF1R-dependent macrophages in of Paneth cells and the
Amount £520,952 (GBP)
Funding ID MR/S000763/1 
Organisation Medical Research Council (MRC) 
Sector Academic/University
Country United Kingdom
Start 11/2018 
End 10/2021
 
Description Dissecting the molecular pathways of MDV oncoprotein Meq for understanding pathogenesis and aid vaccine development
Amount £384,966 (GBP)
Funding ID BB/R007632/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2018 
End 03/2021
 
Description EU-Dynamics of avian influenza in a changing world
Amount £403,373 (GBP)
Funding ID 727922 
Organisation European Commission 
Sector Public
Country European Union (EU)
Start 08/2017 
End 09/2021
 
Description Fleming fellowship fund for Uganda
Amount £510,000 (GBP)
Organisation Mott Macdonald UK Ltd 
Sector Private
Country United Kingdom
Start 01/2019 
End 08/2020
 
Description Food Standards Scotland Open Tender
Amount £120,000 (GBP)
Funding ID CRF:MRI/104/17 
Organisation Government of Scotland 
Department Food Standards Agency (FSA), Scotland
Sector Public
Country United Kingdom
Start 07/2017 
End 06/2019
 
Description GCRF Global Challenges Research Fund - Tim Connelley - International Veterinary Vaccinology Network
Amount £2,113,339 (GBP)
Funding ID MR/R005958/1 
Organisation Medical Research Council (MRC) 
Sector Academic/University
Country United Kingdom
Start 07/2017 
End 06/2021
 
Description General Scheme - Abigail Diack - A comparative platform for strain typing CWD
Amount £131,947 (GBP)
Funding ID RES0036432-S001 
Organisation Alberta Prion Research Institute 
Start 07/2017 
End 06/2020
 
Description General Scheme - Consortium funding - David Gally for RI - The risk of STEC (Shiga Toxin-Producing E. coli) contamination in Wild Venison
Amount £58,578 (GBP)
Funding ID MRI/104/17 
Organisation Scottish Parliament 
Sector Public
Country United Kingdom
Start 07/2017 
End 06/2019
 
Description General Scheme - Fiona houston - Investigating the susceptibility of British deer to chronic wasting disease
Amount £24,563 (GBP)
Organisation Department For Environment, Food And Rural Affairs (DEFRA) 
Sector Public
Country United Kingdom
Start 01/2017 
End 03/2017
 
Description General Scheme - Jacqueline Smith - Genetic characterisation of Avian Leukosis Virus (ALV)-like tumours identified in commercial chicken lines
Amount £8,896 (GBP)
Funding ID wt 5448961 
Organisation The Houghton Trust 
Sector Charity/Non Profit
Country Unknown
Start 10/2017 
End 09/2018
 
Description General Scheme - Ross Fitzgerald - Direct diagnostic genomics towards effective antimicrobial stewardship
Amount £242,381 (GBP)
Funding ID WT 5613240 
Organisation Dogs Trust 
Sector Charity/Non Profit
Country Unknown
Start 01/2019 
End 12/2021
 
Description General Scheme - Tim Connelley - MHCI genotyping in horses
Amount £5,800 (GBP)
Funding ID SPrj028 
Organisation Horserace Betting Levy Board 
Sector Charity/Non Profit
Country United Kingdom
Start 06/2018 
End 02/2019
 
Description H2020
Amount € 5,500,000 (EUR)
Funding ID DELTA-FLU 
Organisation European Commission H2020 
Sector Public
Country Belgium
Start 05/2017 
End 04/2022
 
Description Horizon H2020 - Fast Track to Innovation - Lonneke Vervelde - Dynamics of avian influenza in a changing world
Amount £403,373 (GBP)
Funding ID 727922 
Organisation European Commission 
Sector Public
Country European Union (EU)
Start 06/2017 
End 05/2022
 
Description Industry Partnership Award (TR) - Liam Morrison - An integrated approach to tackling drug resistance in livestock trypanosomes.
Amount £660,569 (GBP)
Funding ID BB/S00243X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2019 
End 12/2021
 
Description International Veterinary Vaccinology Network
Amount £600,000 (GBP)
Funding ID MC_PC_17219 
Organisation Medical Research Council (MRC) 
Sector Academic/University
Country United Kingdom
Start 03/2018 
End 03/2019
 
Description Machine-learning to predict and understand the zoonotic threat of E. coli O157 isolates
Amount £421,490 (GBP)
Funding ID BB/P02095X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2017 
End 09/2020
 
Description Newton fund - Christine Tait-Burkard - A strategic approach to identifying and combating porcine reproductive and respiratory syndrome virus outbreaks and other porcine viral diseases
Amount £983,771 (GBP)
Funding ID BB/R013187/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2018 
End 03/2021
 
Description Policy Research Programme - Abigail Diack for RI - Consortium Funding - Assessing and defining pre-clinical vCJD infectivity using transmission and protein aggregation models
Amount £1,553,441 (GBP)
Funding ID PR-R17-0916-23001 
Organisation Department of Health (DH) 
Sector Public
Country United Kingdom
Start 11/2017 
End 12/2020
 
Description Policy Research Programme - Fiona Houston - Comparative evaluation of the performance of proposed diagnostic tests for vCJD in preclinical blood samples
Amount £882,178 (GBP)
Funding ID 3782585 
Organisation Department of Health (DH) 
Sector Public
Country United Kingdom
Start 12/2017 
End 02/2021
 
Description Research Grant - Paul Digard - Tylvalosin as a porcine antiviral compound
Amount £90,833 (GBP)
Funding ID Roslin 1840 
Organisation Eco Animal Health Ltd 
Start 03/2017 
End 09/2018
 
Description Research Grant - Ross Houston - Investigating genetic resistance to Bonamia in European flat oyster
Amount £165,026 (GBP)
Organisation Blue Marine Foundation 
Sector Charity/Non Profit
Country United Kingdom
Start 07/2018 
End 06/2020
 
Description Research Incentive Grants - Liam Morrison - Unravelling the epidemiology of tropical theileriosis
Amount £9,740 (GBP)
Funding ID RIG007514 
Organisation Carnegie Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 06/2018 
End 06/2019
 
Description Research Incentive Grants - Robin Cassidy - Cloning, expression and characterisation of lymphostatin-like molecules from Chlamydia spp.
Amount £9,886 (GBP)
Funding ID RIG007401 
Organisation Carnegie Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2018 
End 02/2019
 
Description Responsive Mode - David Gally - Machine-learning to predict and understand the zoonotic threat of E. coli O157 isolates
Amount £535,103 (GBP)
Funding ID BB/P02095X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2017 
End 09/2021
 
Description Responsive Mode - Finn Grey - Identification of interferon stimulated genes that restrict cross-species transmission of influenza A virus.
Amount £768,377 (GBP)
Funding ID BB/S00114X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2018 
End 09/2021
 
Description Responsive Mode - Kellie Watson - The role of interleukin-10 (IL-10) in the regulation of innate immunity in the domestic chicken.
Amount £801,119 (GBP)
Funding ID BB/P022049/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2017 
End 11/2020
 
Description Responsive Mode - Mick Watson - Dissecting the molecular pathways of MDV oncoprotein Meq for understanding pathogenesis and aid vaccine development
Amount £391,146 (GBP)
Funding ID BB/R007632/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 06/2018 
End 05/2021
 
Description Responsive Mode - Neil Mabbott - Role of distinct mononuclear phagocyte subsets in oral prion disease pathogenesis
Amount £558,982 (GBP)
Funding ID BB/S005471/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 07/2018 
End 11/2021
 
Description Responsive Mode - Rowland Kao - Joint estimation of epidemiological and genetic processes for Mycobacterium bovis transmission dynamics in cattle and badgers
Amount £302,174 (GBP)
Funding ID BB/L010569/2 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2017 
End 06/2018
 
Description Responsive Mode - Rowland Kao Bilateral BBSRC-SF1: Tackling a multi-host pathogen problem - phylodynamic analyses of the epidemiology of M. bovis in Britain and Ireland
Amount £560,091 (GBP)
Funding ID BB/P010598/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2017 
End 09/2020
 
Description Resposive Mode - Mike McGrew - Investigating the role of ANP32A in the replication of avain influenza virus
Amount £520,795 (GBP)
Funding ID BB/S006796/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2019 
End 12/2021
 
Description Sir Henry Dale Fellowship - Eleanor Gaunt - The role of CpG dinucleotides in regulating virus replication kinetics
Amount £1,025,674 (GBP)
Funding ID 211222/Z/18/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 10/2018 
End 09/2023
 
Description Small Grants - Rowland Kao - US-UK Collab: Mycobacterial Transmission Dynamics in Agricultural Systems: Integrating Phylogenetics, Epidemiology, Ecology and Economics
Amount £137,328 (GBP)
Funding ID BB/M01262X/2 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2017 
End 08/2019
 
Description Studentship - Fiona Houston - Modelling the susceptibility of British deer to chronic wasting disease
Amount £26,782 (GBP)
Funding ID RES2017FH 
Organisation British Deer Society 
Sector Charity/Non Profit
Country United Kingdom
Start 07/2017 
End 06/2018
 
Description Sub-award from BBSRC Flexible Talent Mobility Award (BB/R506564/1). Professor Lonneke Vervelde & Dr Sam Ellis. 'Identification of protective epitopes for control of avian influenza virus'.
Amount £14,138 (GBP)
Funding ID BB/R506564/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 11/2017 
End 03/2019
 
Description Sub-award from BBSRC Impact Accelerator Account BB/S506722/1. Professor David Gally 'Using bacteriophage to remove Escherichia coli O157:H7 from cattle colonised at the terminal rectum'
Amount £33,439 (GBP)
Funding ID BB/S506722/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2018 
End 03/2021
 
Description Sub-award from ISCF Transforming Food Production Seeding Award (ISCF-TFP-SA-Edinburgh). Dr Thibauld Porphyre 'Developing an online cost-estimator to support breeding and disease management decisions in the pig industry'
Amount £15,744 (GBP)
Funding ID ISCF-TFP-SA-Edinburgh 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2018 
End 02/2019
 
Description Vacation Scholarship - Paul Digard - Mechanisms of antiviral drug resistance in influenza A virus
Amount £2,000 (GBP)
Funding ID 208707/Z/17/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 07/2017 
End 08/2017
 
Description Wellcome Trust Collaborative Award
Amount £2,021,766 (GBP)
Funding ID 206815/Z/17/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 04/2018 
End 03/2022
 
Description Wellcome Trust Pathfinder Award
Amount £129,709 (GBP)
Funding ID 204521/Z/16/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 05/2017 
End 11/2018
 
Title ELISpot for PRRSV 
Description An ELISpot for PRRSV was developed to investigate cellular immune responses in vaccine development studies. 
Type Of Material Technology assay or reagent 
Year Produced 2018 
Provided To Others? No  
Impact The tool is essential to do vaccine efficacy studies. 
 
Title ELispot for PCV2 
Description The assay is able to detect a cellular immune response to PCV2. 
Type Of Material Technology assay or reagent 
Year Produced 2017 
Provided To Others? No  
Impact Improvement of vaccine efficacy assessment. 
 
Title Strategy for quantifying individual bacterial strains during mixed infections 
Description We devised a novel strategy to follow the fate of individual bacterial strains during mixed infections. Specifically, we wished to follow the fate of multiple Salmonella enterica serovars during colonisation of the bovine host. These are indistinguishable by culture, and while they can be specifically detected by serology, quantification of numbers of each serovar during mixed infection would involve analysis of many hundreds or thousands of individual colonies. We devised a method based on massively-parallel sequencing of a polymorphic allele (rpoB), whereby sequence reads can be used to identify the strain present (based on single nucleotide polymorphisms specific to each strain) and the number of sequence reads can be taken as a measure of the abundance of the cognate strain. Using this method we were able to simultaneously define the fate of 12 different S. enterica strains during infection of cattle, including as they colonised the gut over time and spread from the gut to the lymphatic system and other tissues. This 3R approach should allow phenotypes to be derived with reduced use of animals in experiments and could, for example, be used to see if vaccine-induced responses are effective in control of all the different members of a bacterial population present - in this case toward a pan-serovar cross-protective vaccine. A manuscript reporting these findings was published in late 2017 (Vohra et al). Though a direct output of BBSRC responsive-mode funding, the project was underpinned by core-strategic grants from 2012 and 2017 (e.g. via the involvement of core-funded staff in animal studies) and a BBSRC US-UK partnering award, where the ideas for following serovars based on massively-parallel sequencing of rpoB and ileS were jointly developed. 
Type Of Material Technology assay or reagent 
Year Produced 2017 
Provided To Others? Yes  
Impact Too early to say, but the method has the potential to reduce animal use in evaluating the cross-protective efficacy of vaccines or treatments as it enables many strains to be tested at once in a single animal rather than in separate groups that each receive a single strain. 
 
Title Avianbase: a community resource for bird genomics 
Description The Avianbase Project is an initiative led by the Roslin Institute in collaboration with the Avian Phylogenomics Consortium and Ensembl to make the initial sequence and annotation available for 48 bird species within the Ensembl framework. The Avianbase Project is using the Ensembl infrastructure to share data brought together by the Avian Phylogenomics Consortium (as part of the Avian Genome Consortium) for 48 birds. Giving access to sequence and annotation data for genome assemblies is important because, while facilitating research, it places both assembly and annotation quality under scrutiny, resulting in improvements to both. Therefore we announce Avianbase, a resource for bird genomics, which provides access to data released by the Avian Phylogenomics Consortium. 
Type Of Material Database/Collection of data 
Year Produced 2015 
Provided To Others? Yes  
Impact The Avianbase project was overviewed in the paper of 2015 (Lél Eöry, M Thomas P Gilbert, Cai Li, Bo Li, Alan Archibald, Bronwen L Aken, Guojie Zhang, Erich Jarvis, Paul Flicek and David W Burt (2015) Avianbase: a community resource for bird genomics. Genome Biology 16:21) which has been sited by over 18 times. It provides a valuable one-stop-shop to access a wealth of Avian genomic information to allow easy interrogation of genotype across species. 
URL http://avianbase.narf.ac.uk/index.html
 
Title Comparative ribosome profiling uncovers a dominant role for translational control in Toxoplasma gondii 
Description We deposited in ToxoDB, which is a database of Apicomplexan parasite genome and genomic data (such as RNA-seq, DNA-seq, proteomics, etc), whole genome ribosome profiling and RNA-sequencing data of intracellular and extracellular parasites to facilitate the identification of parasite genes that are essential for intercellular transmission. 
Type Of Material Database/Collection of data 
Year Produced 2017 
Provided To Others? Yes  
Impact This is the first genome-wide ribosome profiling data on any strain of Toxoplasma and is helping research understand the role of translational regulation in the parasites's lifecycle. IT has informed current ongoing research in various aspects of Toxoplasma biology in many labs. 
 
Description Canadian Big data centre University of Laval 
Organisation University of Laval
Country Canada 
Sector Academic/University 
PI Contribution I am currently working with the Jacques Corbiel's group at the University of Laval. His group is providing capacity and training for me with regards to analysing big data. We are the fore collaborating on methodology as i contribute a rare insight into metagenomic dynamics in a resource limited setting.
Collaborator Contribution The have given me access to one of Canada's super computer for my computing component.
Impact None as yet
Start Year 2017
 
Description Centre for Tropical Livestock Genetics and Health (CTLGH) 
Organisation International Livestock Research Institute (ILRI)
Country Kenya 
Sector Charity/Non Profit 
PI Contribution Research contribution to the CTLGH result framework.
Collaborator Contribution Research links and collaboration with its member partners in the UK and Africa.
Impact No output to report yet.
Start Year 2017
 
Description Centre for tropical livestock genetics and health (CTLGH) 
Organisation International Livestock Research Institute (ILRI)
Country Kenya 
Sector Charity/Non Profit 
PI Contribution Mick Watson is co-leading programme 5 (informatics and bioresources) programme of CTLGH which aims to collect data on genotype and phenotype into a central database which can subsequently be mined for useful associations. So far we have ensured that scientists have access to the latest high performance computing environment for research, we have analysed and continue to analyse hundreds of farm animal genomes from LMIC countries, and we have built the data portal (http://data.ctlgh.org)
Collaborator Contribution The partners are involved in all programmes, which include:Program 1: Harnessing genetic variability among indigenous and exotic breeds of cattle (as well as their crosses) to develop genetic and genomic tools that will be used to improve productivity under harsh tropical conditions and to mitigate the impact of cattle on climate change. Program 2: Harnessing genetic variability in tropical productivity and adaptation among various breeds of Chickens. Program 3: Development and application of precision breeding (through novel reproductive and germplasm technologies) to achieve step changes in livestock genetic improvement. Program 4: Understanding the genetic and molecular mechanisms underlying the tolerance of certain cattle and poultry breeds to tropical diseases and pests. Program 5: A shared global data and biological sample resource to support continued research and development on tropical livestock genetics and health.
Impact The data portal so far: http://data.ctlgh.org The collaboration is multi-disciplinary, bringing together geneticists, parasitologists, virologists, epidemiologists and data scientists together.
Start Year 2016
 
Description Centre for tropical livestock genetics and health (CTLGH) 
Organisation Scotland's Rural College
Country United Kingdom 
Sector Academic/University 
PI Contribution Mick Watson is co-leading programme 5 (informatics and bioresources) programme of CTLGH which aims to collect data on genotype and phenotype into a central database which can subsequently be mined for useful associations. So far we have ensured that scientists have access to the latest high performance computing environment for research, we have analysed and continue to analyse hundreds of farm animal genomes from LMIC countries, and we have built the data portal (http://data.ctlgh.org)
Collaborator Contribution The partners are involved in all programmes, which include:Program 1: Harnessing genetic variability among indigenous and exotic breeds of cattle (as well as their crosses) to develop genetic and genomic tools that will be used to improve productivity under harsh tropical conditions and to mitigate the impact of cattle on climate change. Program 2: Harnessing genetic variability in tropical productivity and adaptation among various breeds of Chickens. Program 3: Development and application of precision breeding (through novel reproductive and germplasm technologies) to achieve step changes in livestock genetic improvement. Program 4: Understanding the genetic and molecular mechanisms underlying the tolerance of certain cattle and poultry breeds to tropical diseases and pests. Program 5: A shared global data and biological sample resource to support continued research and development on tropical livestock genetics and health.
Impact The data portal so far: http://data.ctlgh.org The collaboration is multi-disciplinary, bringing together geneticists, parasitologists, virologists, epidemiologists and data scientists together.
Start Year 2016
 
Description Charoen Pokphand (CP) group 
Organisation Charoen Pokphand Group
PI Contribution Charoen Pokphand (CP) group are a large Asian conglomerate with an interest in farming, food production and feed additives. They have placed one of their staff members with me for PhD training, fully funded by them. We are training the staff member in laboratory and bioinformatics techniques related to microbiome research in chickens.
Collaborator Contribution CP provide access to large chicken flocks both in at their farms and in their production facility. This enables us to study chicken breeds in the actual environments in which they live throughout Asia.
Impact This is a multi-disciplinary project involving both laboratory and computational techniques. The major outcome so far include a review paper (http://aem.asm.org/content/early/2018/01/29/AEM.02627-17.abstract) and the technology transfer from our group into the commercial partner.
Start Year 2017
 
Description Collaboration with AB Vista 
Organisation AB Vista
Country United Kingdom 
Sector Private 
PI Contribution We are researching the activity of ovodefensins, naturally-occurring egg peptides with antimicrobial properties. With BBSRC LINK funding we are exploring the activity of diverse ovodefensins from multiple avian species, dissecting their structure and mode of action, and exploring their capacity to act as growth promoters and novel therapeutics.
Collaborator Contribution AB Vista have made a substantial cash contribution to the LINK project (c. £460k) and also provide access to natural populations of broilers for feed trials using diets supplemented (or not) with Trichoderma-expressed ovodefensins. They also support analysis of the impact of such diets on intestinal microbiota and metabolites.
Impact Commercially sensitive and to be disclosed following scrutiny for Intellectual Property.
Start Year 2012
 
Description Collaboration with Boehringer Ingelheim 
Organisation Boehringer Ingelheim
Country Germany 
Sector Private 
PI Contribution The collaboration is to advance diagnostics in relation to specific bacterial infections in pigs. We are carrying out basic science investigating antigens and immune responses
Collaborator Contribution The company is providing reagents and expertise in this subject area
Impact Part-funded PhD studentship
Start Year 2017
 
Description Collaboration with Public Health England 
Organisation Public Health England
Country United Kingdom 
Sector Public 
PI Contribution Provision of animal and human STEC for sequencing, working with PHE to analyse strain phylogeny and epidemiology. We have contributed through further analysis of long read strain sequences to understand changes in strains that occur during outbreaks. We have co-upervised 2 PhD students on STEC bioinformatics projects.
Collaborator Contribution Reduced rate sequencing of STEC, analysis of data, provision of metadata. Co-publication
Impact Publications as in main list
Start Year 2013
 
Description Collaboration with Texas Tech University 
Organisation Texas Tech University
Country United States 
Sector Academic/University 
PI Contribution Partner in this BBSRC US-UK Partnering Award related to Salmonella and E. coli infections in food-producing animals.
Collaborator Contribution We hosted a visiting postdoctoral research fellow (Marie Bugarel from TTU) in 2015 and provided training in methods to study the basis of Salmonella virulence (inc. mutagenesis, cell-based assays & in vivo models). Drs Bugarel and Loneragan were co-authors on our manuscript describing the use of massively-parallel sequencing of polymorphic alleles to track the fate of Salmonella enterica serovars following inoculation of cattle.
Impact A manuscript relating to a novel method to follow the fate of Salmonella enterica serovars during mixed infections was published in Applied and Environmental Microbiology in late 2017. This arose, in part, from the collaboration funded by a BBSRC US-UK partnering award (see tools), with resources from BBSRC- and Zoetis-funded project (BB/K015524/1) and core strategic grants to the Roslin Institute awarded in 2012 and 2017.
Start Year 2014
 
Description Collaboration with USDA Nebraska 
Organisation U.S. Department of Agriculture USDA
Country United States 
Sector Public 
PI Contribution Exchange of STEC sequence information. Analysis of PacBio long read sequencing of human and cattle isolates
Collaborator Contribution Exchange of STEC sequence information. Carrying out of PacBio sequencing. Discussion of feedlot trials for E. coli O157 vaccine
Impact Publications are provided in main list
Start Year 2014
 
Description Collaboration with the Quadram Institute 
Organisation Quadram Institute Bioscience
Country United Kingdom 
Sector Academic/University 
PI Contribution This is a joint project with the Quadram Institute, where the lead Principal Investigator is Dr Rob Kingsley. The BBSRC contribution to our component of the project is £123,594. It is envisaged that we will evaluate the virulence of variants of Salmonella enterica serovar Typhimurium in porcine models, both to quantify the magnitude and duration of intestinal colonisation in orally challenged pigs and the ability of strains to induce secretory and inflammatory responses in a porcine surgical model.
Collaborator Contribution The Quadram Institute will select Salmonella strains for testing in vivo, based on analysis of their genome sequences, transcriptomes and the phenotypes of the strains in cell-based assays.
Impact None at this stage. We await strains for testing.
Start Year 2015
 
Description EPIC Consortium 
Organisation Biomathematics and Statistics Scotland (BioSS)
Country United Kingdom 
Sector Public 
PI Contribution Roslin Institute leads on improving veterinary surveillance (Prof Mark Bronsvoort, Dr Sam Lycett), analyses of disease control options (Dr Thibaud Porphyre) and horizon scanning for disease threats (Dr Paul Bessell). Through EPIC, Roslin staff will be providing expertise and the scientific evidence to policy makers, including during animal disease emergencies (should one occur).
Collaborator Contribution The EPIC consortium delivers advice about livestock diseases to the Scottish Government under 5 themes: Topic 1 - Preparedness, Topic 2 - Risk, Topic 3 - Surveillance, Topic 4 - Control, Topic 5 - Futures. All Topics are co-lead with different combinations of partners from the collaborating institutes: Glasgow, Moredun, Roslin, James Hutton, BioSS, SRUC.
Impact Multi-institution, multi-disciplinary collaboration
Start Year 2016
 
Description EPIC Consortium 
Organisation James Hutton Institute
Country United Kingdom 
Sector Public 
PI Contribution Roslin Institute leads on improving veterinary surveillance (Prof Mark Bronsvoort, Dr Sam Lycett), analyses of disease control options (Dr Thibaud Porphyre) and horizon scanning for disease threats (Dr Paul Bessell). Through EPIC, Roslin staff will be providing expertise and the scientific evidence to policy makers, including during animal disease emergencies (should one occur).
Collaborator Contribution The EPIC consortium delivers advice about livestock diseases to the Scottish Government under 5 themes: Topic 1 - Preparedness, Topic 2 - Risk, Topic 3 - Surveillance, Topic 4 - Control, Topic 5 - Futures. All Topics are co-lead with different combinations of partners from the collaborating institutes: Glasgow, Moredun, Roslin, James Hutton, BioSS, SRUC.
Impact Multi-institution, multi-disciplinary collaboration
Start Year 2016
 
Description EPIC Consortium 
Organisation Moredun Research Institute
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution Roslin Institute leads on improving veterinary surveillance (Prof Mark Bronsvoort, Dr Sam Lycett), analyses of disease control options (Dr Thibaud Porphyre) and horizon scanning for disease threats (Dr Paul Bessell). Through EPIC, Roslin staff will be providing expertise and the scientific evidence to policy makers, including during animal disease emergencies (should one occur).
Collaborator Contribution The EPIC consortium delivers advice about livestock diseases to the Scottish Government under 5 themes: Topic 1 - Preparedness, Topic 2 - Risk, Topic 3 - Surveillance, Topic 4 - Control, Topic 5 - Futures. All Topics are co-lead with different combinations of partners from the collaborating institutes: Glasgow, Moredun, Roslin, James Hutton, BioSS, SRUC.
Impact Multi-institution, multi-disciplinary collaboration
Start Year 2016
 
Description EPIC Consortium 
Organisation Scotland's Rural College
Country United Kingdom 
Sector Academic/University 
PI Contribution Roslin Institute leads on improving veterinary surveillance (Prof Mark Bronsvoort, Dr Sam Lycett), analyses of disease control options (Dr Thibaud Porphyre) and horizon scanning for disease threats (Dr Paul Bessell). Through EPIC, Roslin staff will be providing expertise and the scientific evidence to policy makers, including during animal disease emergencies (should one occur).
Collaborator Contribution The EPIC consortium delivers advice about livestock diseases to the Scottish Government under 5 themes: Topic 1 - Preparedness, Topic 2 - Risk, Topic 3 - Surveillance, Topic 4 - Control, Topic 5 - Futures. All Topics are co-lead with different combinations of partners from the collaborating institutes: Glasgow, Moredun, Roslin, James Hutton, BioSS, SRUC.
Impact Multi-institution, multi-disciplinary collaboration
Start Year 2016
 
Description EPIC Consortium 
Organisation University of Glasgow
Country United Kingdom 
Sector Academic/University 
PI Contribution Roslin Institute leads on improving veterinary surveillance (Prof Mark Bronsvoort, Dr Sam Lycett), analyses of disease control options (Dr Thibaud Porphyre) and horizon scanning for disease threats (Dr Paul Bessell). Through EPIC, Roslin staff will be providing expertise and the scientific evidence to policy makers, including during animal disease emergencies (should one occur).
Collaborator Contribution The EPIC consortium delivers advice about livestock diseases to the Scottish Government under 5 themes: Topic 1 - Preparedness, Topic 2 - Risk, Topic 3 - Surveillance, Topic 4 - Control, Topic 5 - Futures. All Topics are co-lead with different combinations of partners from the collaborating institutes: Glasgow, Moredun, Roslin, James Hutton, BioSS, SRUC.
Impact Multi-institution, multi-disciplinary collaboration
Start Year 2016
 
Description Flemings AMR training programme Uganda 
Organisation University of Edinburgh
Department Edinburgh Infectious Diseases
Country United Kingdom 
Sector Academic/University 
PI Contribution I am co-PI on an application to the Fleming's fund administered by Mott MacDonald on behalf of the UK department of Health and social care. This grant is for training AMR stakeholders in Uganda. This application is developed directly on the basis of my fellowship in Uganda
Collaborator Contribution Edinburgh Infectious disease is the umbrella through which the University of Edinburgh applied to become a host institution for the Fleming's fund country training programme. The mentors for the training programme for the AMR stakeholders from Uganda(Mentees) are chose from the pool of experts in the Edinburgh infectious disease umbrella
Impact We organised a fellow's workshop in Kampala in January this year to kick start the training activities https://www.ed.ac.uk/edinburgh-infectious-diseases/news/news/edinburgh-host-fleming-fund-fellows
Start Year 2018
 
Description In vivo challenge of genome edited deltaSRCR5 pigs with PRRSV-1 
Organisation Genus plc
Country United Kingdom 
Sector Private 
PI Contribution Following the successful generation of pigs lacking domain 5 (SRCR5) of the CD163 and the promising in vitro results, showing primary cells of these pigs to be resistant against PRRSV infection we obtained further funding from Genus plc. to conduct an in vivo study. 4 delta SRCR5 pigs and 4 wild type pigs were challenged with PRRSV-1. We conducted the study and analysed the outcomes.
Collaborator Contribution Genus plc contributed funding to conduct the in vivo study to assess infectability of delta SRCR5 pigs with PRRSV-1
Impact We published the results of this study in a scientific publication, disseminated the results in a press release package, as well as presented the work at various scientific conferences and public engagement events.
Start Year 2016
 
Description Industrial partnership with Zoetis Animal Health 
Organisation Zoetis
Country United States 
Sector Private 
PI Contribution Identification of conserved antigens expressed during infection which represent candidate vaccine components
Collaborator Contribution Cash funding and challenge experiments in dairy cows
Impact Subject to confidentiality agreement
Start Year 2013
 
Description Scotland's Rural College, Epidemiology Unit 
Organisation Scotland's Rural College
Department Inverness Veterinary Centre
Country United Kingdom 
Sector Academic/University 
PI Contribution Data/results sharing.
Collaborator Contribution Sample provision and data sharing
Impact No outputs yet.
Start Year 2015
 
Description Scottish Escherichia coli Reference Laboratory (SERL) 
Organisation Scottish National Reference Laboratories
Country United Kingdom 
Sector Public 
PI Contribution Sample and data analysis sharing.
Collaborator Contribution Staff training, sample and data analysis sharing.
Impact No outcomes yet.
Start Year 2015
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Animal Health Research Institute
Country Taiwan, Province of China 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Animal Health Service
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Animal and Plant Health Agency
Country United Kingdom 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Animal and Plant Quarantine Agency
Country Korea, Republic of 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Centers for Disease Control and Prevention (CDC)
Country United States 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Chinese Academy of Agricultural Sciences
Department Harbin Veterinary Research Institute (HVRI)
Country China 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Erasmus University Medical Center
Department Department of Viroscience
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Experimental Zooprophylactic Institute of the Venezie
Country Italy 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Fonds de la Recherche Scientifique
Country Belgium 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Friedrich Loeffler Institute
Country Germany 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Government of Canada
Department Canadian Food Inspection Agency (CFIA)
Country Canada 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Government of Canada
Department Canadian Food Inspection Agency (CFIA)
Country Canada 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Hokkaido University
Department Graduate School of Veterinary Medicine
Country Japan 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Hokkaido University
Department Research Center for Zoonosis Control
Country Japan 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Hungarian Academy of Sciences (MTA)
Country Hungary 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation International Livestock Research Institute (ILRI)
Country Kenya 
Sector Charity/Non Profit 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Konkuk University
Country Korea, Republic of 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation National Food Chain Safety Office
Department Veterinary Diagnostic Directorate
Country Hungary 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation National Veterinary Institute
Country Sweden 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation U.S. Department of Agriculture USDA
Department National Wildlife Research Center
Country United States 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation U.S. Department of Agriculture USDA
Department Southeast Poultry Research Laboratory
Country Georgia 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation U.S. Department of Agriculture USDA
Country United States 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation US Geological Survey
Country United States 
Sector Public 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation University Libre Bruxelles (Université Libre de Bruxelles ULB)
Department Spatial Epidemiology Laboratory
Country Belgium 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation University of Oxford
Department Centre for Tropical Medicine and Global Health
Country United Kingdom 
Sector Hospitals 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation University of Oxford
Department Department of Zoology
Country United Kingdom 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation University of Wageningen
Country Netherlands 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Utrecht University
Department Department of Farm Animal Health
Country Netherlands 
Sector Academic/University 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Description The Global Consortium for H5N8 and Related Influenza Viruses 
Organisation Wellcome Trust
Department Wellcome Trust Major Overseas Programme in Ho Chi Minh City Vietnam
Country Viet Nam 
Sector Charity/Non Profit 
PI Contribution I performed phylogeographic analysis on avian influenza sequence data from the 2014/2015 highly pathogenic bird flu outbreaks supplied by the collaborators, resulting in a paper in Science. Since then I have also been performing analysis on the 2016/2017 outbreaks and investigating the generation of reassortments by phylodynamic (computational) methods.
Collaborator Contribution The partners contributed sequence data from avian influenza cases, other avian influenza case data and expertise relating to bird migration. This collaboration was mediated through GISAID http://platform.gisaid.org/epi3/frontend The main collaborators are Erasmus Medical Centre, University of Utrecht and Friedrich Loeffler Institute.
Impact Paper: "Role for migratory wild birds in the global spread of avian influenza H5N8" The Global Consortium for H5N8 and Related Influenza Viruses: S Lycett, R Bodewes, (many others), .. M Woolhouse, T Kuiken Science 14 Oct 2016: Vol. 354, Issue 6309, pp. 213-217 DOI: 10.1126/science.aaf8852
Start Year 2014
 
Title PULpy 
Description Polysaccharide utilisation loci (PUL) are regions within bacterial genomes that encode all the necessary machinery for the cleavage of particular carbohydrates. For the Bacteroidetes phylum, prediction of PUL from genomic data alone involves the identification of carbohydrate-active enzymes (CAZymes) co-localised with susCD gene pairs. Here we present the open prediction of PUL in 5414 public Bacteroidetes genomes, and an open-source pipeline to reproduce or extend the results. 
Type Of Technology Software 
Year Produced 2018 
Open Source License? Yes  
Impact We use this software in our metagenomics and microbiome research 
URL https://github.com/WatsonLab/PULpy
 
Description Campus Open Day- Midlothian Science Festival 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact The Roslin Institute and Easter Bush Campus Open Day was an event undertaken within the Midlothian Science Festivals. Hands on public activities lead by scientists under "Pathogen diversity, host specificity and virulence" included Science is for Everyone
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/easter-bush-campus/science-outreach-centre
 
Description Annual Roslin Institute Open Doors Day 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact The annual Roslin Institute Open Doors day was held on 14 October 2017 and was attended by 491 people. It involved 81 members of staff and students and showcased a wide range of research arising from BBSRC strategic investment, including (but not limited to), food safety, influenza, genetic improvement, DNA, imaging and the ethical treatment of animals in research.
Year(s) Of Engagement Activity 2017
 
Description Annual Roslin Institute Open Doors Day 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact The annual Roslin Institute Open Doors day was held on 14 October 2017 and was attended by 491 people. It involved 81 members of staff and students and showcased a wide range of research arising from BBSRC strategic investment, including (but not limited to), food safety, influenza, genetic improvement, DNA, imaging and the ethical treatment of animals in research.
Year(s) Of Engagement Activity 2017
 
Description Artificial Intelligence (AI) workshop at Earlham 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact Inter-institute workshop that discussed main applications of AI in their fields and potential for further research collaboration
Year(s) Of Engagement Activity 2018
 
Description Aviagen / CP workshop 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Industry/Business
Results and Impact I presented our work on functional microbiome analysis during a one-day workshop which I set up and organised at The Roslin Institute. In attendance were employees of CP (a large Asian conglomerate) and Aviagen (one of the world's largest chicken breeding companies). The focus of the workshop was animal genetics and microbiome.
Year(s) Of Engagement Activity 2010,2017
 
Description BBC Countryfile film related to the work of the Centre for Tropical Livestock Genetics & Health at Roslin 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Bill Gates was interviewed by BBC Countryfile on 26 January 2018 in relation to work funded by the Gates Foundation involving Roslin Institute scientists towards the genetic improvement of farmed animals in low- and middle-income countries. The programme aired on 11 February 2018 and reached an estimated audience in excess of 5 million. The interview took place on the same day as the launch of the Global Academy of Agriculture & Food Security, which was attended by the Secretary of State for the Department for International Development the Rt Hon Penny Mordaunt (see separate activity) and generated significant press interest, featuring on BBC Scotland news. Particular emphasis was placed on the work of Roslin scientists to understand the genetic make-up of African diary cattle and chickens and to understand how this relates to performance traits in order to guide breeding decisions.
Year(s) Of Engagement Activity 2018
 
Description BBSRC Animal Health Research Club Final Dissemination Event 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Industry/Business
Results and Impact A final presentation was given on the BBSRC Animal Health Research Club project on "Genetics of host responses to Porcine Reproductive and Respiratory Syndrome virus (PRRSV) was given followed by discussion of the results. There was also a wider discussion on the challenges of studying the genetics of host responses to infection in pigs - challenge experiments in animal research facilities lack the power as the numbers that can be studied are too small on the one hand, but field data from natural exposure to disease can be noisy and logistically challenge to acquire.
Year(s) Of Engagement Activity 2018
 
Description British Science Festival Hull 2018: "From lab to farmyard: genome editing our livestock" 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact A talk on genome editing and it's potential impact on livestock breeding was presented to the general public at the British Science Festival in Hull in 2018. Around 50-100 people attended the talk. Publicity around the event, including blogging, press releases etc. reached a much larger public.
Year(s) Of Engagement Activity 2018
URL https://www.britishsciencefestival.org/event/from-lab-to-farmyard-genome-editing-our-livestock/
 
Description CLSU "Updates on Swine Diagnostics" 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Undergraduate students
Results and Impact A presentation on the benefits of new pen-side diagnostics and how they could help decision making by farmers and veterinary professionals. The audience were Veterinary students from Central Luzon State University (The Philippines).
Year(s) Of Engagement Activity 2018
 
Description Careers event for S4 secondary pupils 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Opportunity for S4 pupils to interact with professionals across a range of areas including STEM. Aim was to give pupils information on careers in biological research prior to choosing final year subjects and University degrees.
Year(s) Of Engagement Activity 2015,2016,2017
 
Description EBSOC Led Engagement Activities- Talks/Discussions 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact The Easter Bush Science Outreach Centre (EBSOC) which opened in January 2018 is the first of its kind in Scotland. EBSOC is a unique, purpose-built laboratory space where visitors, including primary and secondary pupils and their teachers, engage with real-life science. Supported by scientists from "Pathogen diversity, host specificity and virulence", EBSOC's schools workshops enable pupils to meet scientists from The Roslin Institute. As well as supporting scientist-lead workshops both to National and International audiences, scientists undertaking research within "Pathogen diversity, host specificity and virulence"undertake discussions and talks within these activities on research undertaken within this theme for example antimicrobial resistance
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/easter-bush-campus/science-outreach-centre
 
Description EBSOC PCR Masterclass: A Question of Taste 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Regional high school pupils (25) attended a full day PCR workshop to learn about the PCR techniques we can use in the lab to explore genetic differences between individuals and how these impact on characteristics such as ability to taste certain flavours. There was opportunity for discussion about careers in science and the pupils reported increased interest in the subject area afterwards and felt there perception of science accessibility had improved.
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/easter-bush-campus/science-outreach-centre
 
Description Farm detectives 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Pupils attended for a school visit to carry out hands-on science workshops. This led to questions and awareness of what jobs are available in science and what they entail
Year(s) Of Engagement Activity 2018
 
Description Host and convenor of the joint SAPHIR and VET-VAC workshop, Roslin, UK, May 2018 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact The Roslin Institute hosted the 2nd International Veterinary Vaccinology workshop with the goal to provide scientists and practicioners integrated and up-to-date knowledge on the challenges facing the development of effective veterinary vaccines
Year(s) Of Engagement Activity 2018
URL http://www.vetvaccnet.ac.uk/events/european-veterinary-vaccinology-workshop-2018
 
Description International PRRSV symposium - South Korea 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact 60-100 practitioners met to learn about advances in PRRSV including control and diagnostics.
Year(s) Of Engagement Activity 2018
 
Description International workshop on Shiga toxin-producing Escherichia coli at The Roslin Institute 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact A two-day international workshop was held at The Roslin Institute on Shiga toxin-producing Escherichia coli (STEC), funded partly by this award (for travel of US collaborators) and partly by the Food Standards Agency of Scotland via a £2m award for collaborative research by a consortium led by Professor Gally. The workshop attracted leading academics working on E. coli O157 and other STEC from the US (Jim Bono, Guy Loneragan, Tom Edrington), Canada (Tim McAllister, Kim Stanford), Germany (Christian Menge), Belgium (Eric Cox), Sweden (Erik Eriksson, Lena-Mari Tamminen, Robert Soderlund) and the United Kingdom (Claire Jenkins, Tim Dallman, Dominic Mellor, Norval Strachan [Chief Scientific Advisor for FSA Scotland]). The workshop shared the latest advances in understanding of the biology of E. coli O157 and other STEC, including epidemiology, genomics, virulence, super-shedding and control strategies.
Year(s) Of Engagement Activity 2017
 
Description Introduction to the Research of the Roslin Institute - Royal Society of Biology Scottish Branch Annual Symposium 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Professional Practitioners
Results and Impact Professor Stevens provided an overview of the research of The Roslin Institute to members of the public and the Royal Society of Biology, who convened for the annual symposium of the RSB Scottish Branch on 14 October 2017 at Roslin. The event coincided with the annual Roslin 'Open Doors' day and featured BBSRC-funded research.
Year(s) Of Engagement Activity 2017
 
Description Invited speaker - Avian Genetics and Immunity Symposium 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Research on Avian Genetics and Immunity (RAGI) has been established to strengthen global partnerships and links between academic researchers, students and the poultry professionals working on the genetics of avian immunity. The purpose of the symposium was to provide a forum for discussion and exchange of ideas around the single theme of exploiting available opportunities in ultimately dealing emerging and existing infectious avian diseases in poultry production systems and to safeguard food supplies and human health.
The purpose of KW talk was to overview the current situation in industry for breeding for disease resistance and introduce the NARF. The overview of NARF included a review of facilities, lines available and current work being carried out using NARF avian lines. The presentation stimulated significant discussion.
Year(s) Of Engagement Activity 2017
URL http://geneticsandimmunity.com/
 
Description Invited talk European Veterinary Vaccinology Workshop 2018 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Talk on career opportunities in academia for young scientists
Year(s) Of Engagement Activity 2018
URL https://www.youtube.com/watch?v=hTujbImUCcI
 
Description Kick Start Summer Widening Participation- DNA profiling The Great Escape Workshop 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Workshop for schoolchildren who may not have had exposure to science and were from disadvantaged backgrounds
Year(s) Of Engagement Activity 2018
 
Description Media comments on identification of case of BSE in a cow on an Aberdeenshire farm 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Media (as a channel to the public)
Results and Impact I was contacted by the media to provide my professional expertise and opinion on the identification of a case of bovine spongiform encephalopathy (BSE) on a Scottish farm in 2018. I provided a press statement with some information, as well as a detailed Q&A document. These were used by the media in both print and on-line articles. For example, The Herald, Daily Telegraph, Daily Mail, etc.
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/roslin/news-events/latest-news/comment-on-bse-case-aberdeenshire
 
Description Media interviews for Nature Ecol evol paper 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Talking to various media including print and radio regarding our Nature Ecology and Evolution publication
Year(s) Of Engagement Activity 2018
 
Description Newspaper article on infection threat from unpasteurised milk products 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact The article was written by myself and Dr Deborah Hoyle in response to an outbreak of E.coli O157 for which the epidemiology strongly pointed to the source being an unpasteurised soft cheese from a local producer, the outbreak resulted in the death of a three year old girl. The causative organism was not found in the company's product and the article discussed key issues around unpasteurised and minimally processed food, especially with an increase in artisan food producers, what are the risks and how should they be controlled, or not?
Year(s) Of Engagement Activity 2017
URL http://www.heraldscotland.com/news/health/15565022.Health_warnings_on_unpasteurised_cheese__should_b...
 
Description One Health Models of Infectious Disease. University of Edinburgh. 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Professional Practitioners
Results and Impact Presenting our work on generation of genome wide CRISPR Cas9 libraries for pig and chicken. The meeting was aimed at establishing a Wellcome Trust studentship program at the Roslin Institute.
Year(s) Of Engagement Activity 2018
 
Description Open lecture on African trypanosomes in cattle to Royal Society of Biology Scottish Branch 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Professional Practitioners
Results and Impact Dr Liam provided an overview of his research on African trypanosomes in cattle to members of the public and the Royal Society of Biology, who convened for the annual symposium of the RSB Scottish Branch on 14 October 2017 at Roslin. The event coincided with the annual Roslin 'Open Doors' day and featured BBSRC-funded research.
Year(s) Of Engagement Activity 2017
 
Description PCR Masterclass: A Question of Taste 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Pupils attended for a school visit to carry out hands-on science workshops. This led to questions and awareness of what jobs are available in science and what they entail
Year(s) Of Engagement Activity 2018
 
Description Panel interview for Chinese media 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Under the framework of the Newton Swine and Poultry Workshop in Beijing, China, a panel interview with selected grant holders of the "UK-China-Philippines-Thailand Swine and Poultry Research Initiative" was held at China Agricultrual University. Chinese and China-based international press was in attendance (amongst others, Reuters) and reported on the initiative, developing new antiviral strategies, diagnostics and on other developments in the pig- and poultry industry in China and related research.
Year(s) Of Engagement Activity 2018
 
Description Pig practitioner workshop - Germany 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Update on Erysipelothrix due to outbreaks in pigs and chickens
Year(s) Of Engagement Activity 2019
 
Description Presentation to the BBSRC executive committee "Bringing high throughput approaches to livestock species" 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Policymakers/politicians
Results and Impact The BBSRC executive were visiting Roslin Institute to review on going research programs as part of the ISP funding.
Year(s) Of Engagement Activity 2018
 
Description Press release on Denton et al 2019-J Exp Med: Lung tissue forms immune cell hubs when needed 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact A press statement was issued describing our study published in the Journal of Experimental Medicine: Denton et al. 2019 J Exp Med; PMID: 30723095
Year(s) Of Engagement Activity 2019
URL https://www.ed.ac.uk/roslin/news-events/latest-news/lung-tissue-immune-cell-hubs?platform=hootsuite&...
 
Description Press release on the development of a method to simultanoeusly analyse multiple Salmonella strains in animals 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Press release on work arising from this US-UK collaboration to understand the risk to food safety and animal welfare posed by Salmonella enterica serovars in cattle.
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/roslin/news-events/latest-news/novel-sequencing-study-salmonella-cattle
 
Description Public lecture - Inaugural Lecture of Professor Tanja Opriessnig 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Professor Opriessnig delivered her Inaugual Lecture on 'From 'circus virus' to mostly commonly used swine vaccine on 24 April 2017, relating to her BBSRC-funded research on porcine viral diseases and strategies to detect and control them. The event was attended by children from local schools, members of the public and students of the University of Edinburgh.
Year(s) Of Engagement Activity 2017
 
Description Public lecture entitled Confronting the Microbial Menace in Our Food'. Professor Mark Stevens 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact The inaugural lecture of Professor Mark Stevens was held on 30 October 2017 on his BBSRC-funded research to identify bacterial and host factors influencing the ability of Salmonella, Campylobacter and E. coli to colonise farm animals and cause disease. It was attended by children from local schools, members of the public, students at The Roslin Institute and wider University of Edinburgh and posted online.
Year(s) Of Engagement Activity 2017,2018
URL https://media.ed.ac.uk/media/Inaugural+lectureA+Confronting+the+microbial+menace+in+our+food/1_x5k5e...
 
Description Public lecture on microbes and antimicorbial resistance by Professor David Gally, U3A event Centre for Life, Newcastle 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact Professor David Gally delivered a public lecture at the Centre for Life, Newcastle, organised by the University of the Third Age for their Microbes and Antibiotics Day on 9 October 2017. BBSRC-funded research at the Roslin Institute featured in his presentation.
Year(s) Of Engagement Activity 2017
 
Description Publish or Perish: Ethical Issues Facing Researchers. 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Postgraduate students
Results and Impact The workshop addressed ethical issues from study design to publication and was aimed at postgraduate students and early career researchers. This sparked debate over ethical issues in research and the questions over the practicalities of the issues involved.
Year(s) Of Engagement Activity 2017
 
Description Regulation of splicing by the host ubiquitin segregase, VCP/p97, is essential for human cytomegalovirus replication 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact invited seminar at Glasgow Virology Workshop, University of Glasgow .
Year(s) Of Engagement Activity 2016
 
Description School Workshop- ELISA- Flu Fighters 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact This workshop was run three times at the Easter Bush Science Outreach Centre to pupils studying Advanced Higher Biology attended this hands-on, researcher-supported workshop, which is based around an ELISA as well as other laboratory techniques from the curriculum, with a research-linked storyline about flu infection in wild birds and chickens. Pupils and teachers reported an improved understanding of the techniques used, after taking part in the workshop as well as an increased interest in immunology and infectious diseases after meeting researchers working in these areas.
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/easter-bush-campus/science-outreach-centre
 
Description School Workshop- Gene Editing: Cows, Coughs and CRISPR 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact This newly developed workshop was developed in collaboration with the Easter Bush Science Outreach Centre, where it was also run. Advanced Higher Biology pupils from disadvantaged schools in North Lanarkshire (40-50% of pupils in SIMD1&2) took part in this hands-on workshop based on current research at the Roslin Institute, which was developed and co-delivered by the research team. They really enjoyed the challenge of using real laboratory equipment and reagents and the chance to find out about current research from the scientists doing the work. Pupils and teachers also learned about the scientific method in action and reported an increased interest in science and further study after the workshop
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/easter-bush-campus/science-outreach-centre
 
Description School visit (KIngsland primary) 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact Outreach activity at local primary school
Year(s) Of Engagement Activity 2018
 
Description Science Insights "Pathogen diversity, host specificity and virulence" 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact Developed and run through EBSOC at Easter Bush Campus, Science Insights is on-going work experience programme designed to give 5th year high school pupils a real insight into the work and life of research scientists. Science taster sessions delivered under "Pathogen diversity, host specificity and virulence" included "Measuring flu infectious particles"
Year(s) Of Engagement Activity 2018
URL https://www.ed.ac.uk/medicine-vet-medicine/outreach/science-insights
 
Description Science Insights work experience for S5 school pupils 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact We ran our Science Insights work experience programme for local school pupils on 24-28 July 2017. 38 S5 pupils attended, 20 of whom worked in the Roslin Institute for 2 days alongside BBSRC-supported researchers from this ISP, including our core-funded staff scientists. All 38 students also had a tour of the Langhill farm and attended a presentation and debate about the use of animals in research. Students also had the opportunity to discuss career paths and what it is like to work as a research scientist.
Year(s) Of Engagement Activity 2017
URL https://www.ed.ac.uk/roslin/working/opportunities/young-people/science-insights
 
Description Stand at the Royal Highland Show, including the BBSRC-funded Flu Fighters exhibit. 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Roslin Institute stand at the Royal Highland Show 22-25 June 2017. Approximately 25 Roslin Institute staff and students were involved. Exhibits of relevance to this ISP include the BBSRC-funded Flu Fighters exhibit, highlighting the problem of influenza and our research to combat it.
Year(s) Of Engagement Activity 2017
 
Description Swine Practitioner workship - Vietnam 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact 150 practitioners attended a workshop to learn about new strategies on virus control in pigs.
Year(s) Of Engagement Activity 2018
 
Description Swine Practitioner workshop 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact Practitioner meeting in France to inform them on new insights on vaccination protocols.
Year(s) Of Engagement Activity 2017
 
Description Swine Practitioner workshop - Brazil 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact 200 pig vets attended a workshop on updates on current pig diseases.
Year(s) Of Engagement Activity 2018
 
Description Swine Practitioner workshop - China 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Professional Practitioners
Results and Impact Practitioners met to learn about advances in PCV2 research including control and diagnostics.
Year(s) Of Engagement Activity 2018
 
Description Swine Practitioner workshop - France 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Industry/Business
Results and Impact Key opinion leaders from Asia were invited to discuss advances in PCV2 research including control and diagnostics.
Year(s) Of Engagement Activity 2018
 
Description TEDx Talk by Professor Helen Sang on 'Why do we need GM chickens?' 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Professor Helen Sang delivered a Tedx Talk in Glasgow on 2 June 2017 on 'Why do we need GM chickens?'. The event was attended by approximately 1700 people and has been shared online with over 900 views. It highlighted the challenge of achieving global food security and the potential of BBSRC-funded research to improve poultry, including via genetic alteration. Examples for ongoing research using GM poultry in this programme were shared.
Year(s) Of Engagement Activity 2017
URL https://www.youtube.com/watch?v=DUbqrh5otWs
 
Description The Human Body activities at a BBC-sponsored Edinburgh Festival event 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact Researchers from The Roslin Institute joined colleagues from across the University's College of Medicine and Veterinary Medicine in the grounds of George Heriot's School in central Edinburgh to deliver family-friendly activities about 'The Human Body' on 15 August 2017. The event was part of a series of science-themed activities hosted by the BBC at the Edinburgh Festivals to support BBC Learning's 'Terrific Scientific' campaign, which aims to inspire children and young people to engage with science. Our staff and Ph.D students ran interactive activities about their research on lungs and skin, including inflating and examining real pig lungs, comparing healthy and diseased organs, and a chance for visitors to use their craft skills to make a model of their skin. Other activities at the event included anatomy face and body painting and a chance to see dissections of animal brains and hearts close-up. An estimated 1,400 family visitors were engaged, with great questions about our research and what it's like to work as a scientist.
Year(s) Of Engagement Activity 2017
URL https://www.ed.ac.uk/roslin/community-engagement/public-events/events-archive/the-human-body-bbc-at-...
 
Description Union University Insight to Roslin Research and Public Engagement Activity 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Undergraduate students
Results and Impact Discussion over what science I do and how I got into science, tailored to the students home country (USA)
Year(s) Of Engagement Activity 2018
 
Description VGTI, Portland Oregon. ""Discovering novel host-pathogen interactions using systematic approaches" 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Was invited to give a presentation at Portland VGTI on our work on Human cytomegalovirus.
Year(s) Of Engagement Activity 2018
 
Description Visit by Bill Gates and the Secretary of State for the Department of International Development 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Bill Gates and the Secretary of State for the Department of International Development (DfID; Rt Hon Penny Mordaunt) visited The Roslin Institute on 26 January 2018. This involved separate sessions with the Gates Foundation and DfID to learn about the research undertaken by the Centre for Tropical Livestock Genetics & Health (CTLGH), in which the Roslin Institute is a major partner and researchers in the Institute Strategic Programmes are heavily involved. DfID announced £4m of funding for the CTLGH, adding to £10m already received from the Gates Foundation. In the presence of the Principal of the University of Edinburgh, Bill Gates and the Rt Hon Penny Mordaunt formally opened the Global Academy for Agriculture & Food Security which will provide undergraduate and postgraduate training in sustainable agriculture. The event took place in the new Campus Innovation Building (which received BBSRC strategic funding). The University of Edinburgh press office tracked the following activity related to the visit, in which many participants in the ISPs were involved:

• 109 individual articles and broadcast pieces that mentioned the University with regards to the visit, with an estimated potential reach of more than 7 million people.

• Of these, more than half of the coverage mentioned one of more of the Global Academy of Agriculture & Food Security, the Centre for Tropical Livestock Genetics & Health, SEBI, the Royal (Dick) School of Veterinary Studies, Roslin or the Easter Bush Campus in addition to name checking the University.

• In addition to the UK, we also attracted press coverage in the USA, France, New Zealand, China, Zimbabwe, South Africa, Botswana, Taiwan and Egypt.

• Across social media, we reached more than 1.4 million people with 14k+ engagements (likes, shares, retweets etc). Of these, 99.8% were positive.

• The Facebook Live streaming alone reached more than 100k people. More than 18k people have watched the video.

• Our news videos have garnered more than 35k views across platforms.

• We tracked a spike in traffic to the Global Academy website on the day of the visit - 1405 visits (11 times the average for the previous month).
Year(s) Of Engagement Activity 2018
 
Description Visit to Iowa State University to give talk and discuss my research 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact On October 8th 2018 I gave a talk to approx. 100 post-graduate students at Iowa State University in the Immunology and Neurobiology research programmes. I also attended small workshop group sessions with the students to discuss my science and also give career advice etc.
Year(s) Of Engagement Activity 2018
 
Description article around gene study pinpointing superbug link between people and animals 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact article and press release around a gene study pinpointing superbug link between people and animals. appeared on Roslin Institute webpaes plus various industry, medical and veterinary publications plus local and national press
Year(s) Of Engagement Activity 2018
URL https://doi.org/10.1038/s41559-018-0617-0
 
Description article around higher rates of human Ecoli in Scotland 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Industry/Business
Results and Impact article around higher rates in Scotland of human E coli infection, appearing in the Roslin Institute webpages, departmental University of Edinburgh webpages and various industry publications and Scottish daily newspapers
Year(s) Of Engagement Activity 2018
 
Description article around scientific breakthrough to potentiallly explain how superbugs evolve 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact article about a scientific breakthrough which could explain rapid evolution of superbugs (appeared in Roslin Institute webpages plus press release to general public)
Year(s) Of Engagement Activity 2018
 
Description article around superbug discovery renewing hope for antibiotic treatment 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact article and press release announcing superbug discovery renewing hope for antibiotic treatment appeared on national television and various medical and food industry publications
Year(s) Of Engagement Activity 2018
URL https://doi.org/10.1371/journal.pgen.1007525
 
Description comment by Roslin Scientist on BSE case in Aberdeenshire for national and international press 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact comment from a Roslin Scientist about BSE case in Aberdeenshire which appeared in the national and international press
Year(s) Of Engagement Activity 2018
 
Description dissecting the interferon response to human cytomegalovirus 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Professional Practitioners
Results and Impact Invited seminar to the Edinburgh infectious disease symposium.
Year(s) Of Engagement Activity 2018