A synthetic biology approach to develop durable disease resistance in crops

Lead Research Organisation: University of Dundee
Department Name: School of Life Sciences

Abstract

A billion people alive today are undernourished. Crop losses due to pests and diseases are a major obstacle towards achieving global food security. In developing countries, pests and diseases account for up to half of crop losses. In developed countries, the use of pesticides, fungicides, and other chemicals for agriculture are heavily restricted due to EU directives. New, durable, sustainable, 'green' control measures are urgently needed.
Plants in the field are often under simultaneous attack from many different types of pathogens. Some of these are from above ground (i.e. the potato late blight pathogen Phytophthora infestans), and some are from below ground (i.e. microscopic nematode worms that parasitise plant roots). Both types of pathogens 'inject' proteins into the plant to hi-jack plant machinery to benefit themselves and help spread infection. These proteins (known as effectors) often interact with normal crop proteins, and in some way modify them to help the pathogen. The key research questions remain:

1) How do effectors modify host proteins to promote infection?
2) Do different types of pathogens target the same host proteins?
3) Can our understanding of the molecular interaction allow us to disrupt it, favouring plant immunity?

I aim to determine how pathogen effectors physically interact with plant proteins in order to direct changes to the latter so that the pathogens can no-longer manipulate them. To accomplish this I propose a collaboration between the University of Dundee in Scotland and the John Innes Centre in Norwich. The University of Dundee Division of Plant sciences, together with the James Hutton Institute, aim to apply aspects of plant breeding, pathology and ecology to allow fundamental research to be readily translated to end-users. The John Innes Centre has extensive experience of structural biology, in particular in the area of plant-pathogen interactions. Bringing together these complementary institutes is vital to achieve the aims.

Potential applications and benefits:
The proposed work will provide a new understanding of how pathogens can manipulate and infect their host. With this understanding, the informed re-design of specific plant proteins so they can no-longer be targeted by pathogens will undermine and prevent infection. Proteins targeted by multiple pathogens are likely to be very important to successful infection. Modifying these by editing the plant DNA will help to create a durable 'green' solution to the use of pesticides against multiple different pathogens. This could help to ensure food production and security in developing and developed countries.

Technical Summary

Multiple phylogenetically diverse pathogens that have co-evolved with the same host, and that require similar manipulations of that host, are likely to have targeted the same pathways and proteins. This proposal will analyse the structural basis of the interactions between effectors and host targets with the aim of using synthetic biology to design modified targets that evade disruption by effectors. The main aims will be:

1. Identification of potato host proteins that are common targets of Phytophthora infestans and potato cyst nematode effectors by Y2H, using known P. infestans effector targets to identify corresponding nematode effectors. Subsequent validation in planta by Bimolecular fluorescence complementation and co-immunoprecipitation will be performed.

2. Determine the three-dimensional structures of host targets in effector-bound and effector-unbound states.

3. Elucidate the biology of effector-target interactions using a combination of biophysical and molecular biological analytical techniques. Provide high-throughput bioassays that will monitor the effectiveness of perturbing these molecular interactions.

4. Use knowledge of structure-function relationships between effectors and their targets to re-design target proteins to undermine effector binding/activity yet retain endogenous function.
Understanding the structural basis of how an effector-bound target functions differently to promote pathogen success, with sufficient detail to undermine the interaction, can be applied directly to crop species using synthetic biology genome editing tools.

Planned Impact

In addition to the numerous and diverse academic beneficiaries detailed in the appropriate section, the proposed work will generate data with strong translational potential that meets societal needs of relevance to the Food Security Strategic Priority area of the BBSRC.

Although a challenging aim, the long-term goal of the research is to develop approaches with the potential to reduce pesticide use and increase agricultural stability. This may benefit commercial farmers by limiting the need for repeated spraying of pesticides, as well as subsistence farming where growers do not have access to means of chemical disease control. Consistent agricultural production in the UK is critical to maintain a position of economic competitiveness, particularly in light of recent reductions of pesticide use by EU legislation (91/414/EEC). In addition, the substantial gross value added to the economy for every pound invested in JIC science represents the wide indirect benefit of the research.

The economic and farming impact will need to be realised through industry. Biotechnology industry will benefit from the research, and the UK is well positioned to ensure effective exploitation. This will be carried out through the extensive network of industrial partners associated with the host institution and group.
Realising the potential impact of the proposal will rely on the extensive public engagement activities detailed in the pathways to impact. In summary, taking advantage of the resources available at two geographically distinct locations, with exceptional track records of public engagement, will ensure the broadest possible impact. Through engagement with schools, the education sector has the potential to benefit from the research through knowledge exchange. Especially relevant is the long-term potential of the research to contribute to food security, global sustainability (limiting potentially damaging chemical inputs into the environment) and to enthusing the next generation of scientists. Synthetic biology in particular is in its infancy. Promoting this discipline to the public, starting at a young age, will allow the UK to make the most of the opportunities it provides. Promoting doctors in science in local schools, with an emphasis on gender equality, will aim to address some of the general issues in science.

Publications

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Eves-Van Den Akker S (2018) Sex: Not all that it's cracked up to be? in PLoS genetics

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Kikuchi T (2017) Genome Evolution of Plant-Parasitic Nematodes. in Annual review of phytopathology

 
Description Plant-parasitic nematodes precisely coordinate the infection process using a suite of "molecular tools", termed effectors. Such effectors are delivered directly into the plant through a needle-like stylet to suppress plant immunity, and are central in dictating the outcome of infection. A high impact output from 2016 was the discovery of a "parasitism promoter" in the plant-parasitic nematode G. rostochiensis. This motif, termed the "DOG box", is associated with, and thus can be used to predict, Effectors. For the first time, we are able to predict effectors in silico and have massively expanded the known effector repertoire for a number of related species. This discovery was critically important for progression through the objectives: nematode effectors are the main focus of the fellowship, and identification thereof is rate limiting to progress.
Exploitation Route The ability to predict effectors in silico will expedite research into a number of economically important plant pathogens in the UK and abroad. Further, the presence of one motif that unifies hundreds of sequence-unrelated effectors implies the existence of a master regulator that binds this motif, and thus orchestrates the parasitism process. In a spotlight article highlighting the implications of the DOG box, the existence of such a "single point of failure" was predicted and named (DOG Master-Regulator (DOGMR)), with the aim of providing a high-value focal point for future research.
Sectors Agriculture, Food and Drink,Chemicals,Environment

URL https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0985-1
 
Description The key findings have been highlighted in a white paper entitled: "Foundational and translational research opportunities to improve plant health." to be presented to research councils in the UK and the US to influence funding policy.
First Year Of Impact 2017
Sector Agriculture, Food and Drink
Impact Types Policy & public services

 
Description UK-US plant health workshop and white paper (currently under revision).
Geographic Reach Multiple continents/international 
Policy Influence Type Membership of a guideline committee
 
Description BBSRC International Worksop
Amount £9,527 (GBP)
Funding ID BB/N021908/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 08/2016 
End 12/2016
 
Description BSPP Undergraduate Vacation Bursary Fund
Amount £2,500 (GBP)
Organisation British Society of Plant Pathoogy 
Sector Learned Society
Country Unknown
Start 05/2016 
End 08/2016
 
Description David Phillips Fellowship
Amount £979,232 (GBP)
Funding ID BB/R011311/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 05/2018 
End 05/2023
 
Description Institutional Strategic Support Fund
Amount £10,000 (GBP)
Organisation University of Dundee 
Sector Academic/University
Country United Kingdom
Start 03/2017 
End 04/2017
 
Description Research Incentive Grant
Amount £7,466 (GBP)
Funding ID 70741 
Organisation Carnegie Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 07/2017 
End 01/2018
 
Title DOG box prediction 
Description The ability to identify plant-parasitic nematode effectors by association with a promoter motif. For the first time we are able to predict nematode effector in silico, rapidly expediting one of the major rate limiting steps in progress. 
Type Of Material Biological samples 
Year Produced 2016 
Provided To Others? Yes  
Impact A spotlight article highlighting the various implications of this method followed the primary publication, and has lead to a number of novel research directions and collaborations. 
URL https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0985-1
 
Title G. rostochiensis genome 
Description Genome and transcriptome sequence for potato cyst nematode Globodera rostochiensis. all scripts (https://github.com/DRL/GenomeBiology2016_globodera_rostochiensis), raw data (PRJNA305631), and crucially all analysed data (http://dx.doi.org/10.5061/dryad.4s5r6), were made available to the scientific community. 
Type Of Material Database/Collection of data 
Year Produced 2016 
Provided To Others? Yes  
Impact N/A 
URL http://datadryad.org/resource/doi:10.5061/dryad.4s5r6
 
Description BBSRC-AFLF: UoD-JIC 
Organisation John Innes Centre
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution Proteins of interest and in vivo studies
Collaborator Contribution Crystallisation platform and in vitro studies
Impact Still active. Multi disciplinary: Cell biology Biochemistry/structural biology Plant pathology
Start Year 2015
 
Description Metagenetics of G. pallida 
Organisation James Hutton Institute
Country United Kingdom 
Sector Public 
PI Contribution Coordinating the project and carrying out the research
Collaborator Contribution Leeds: equipment and financial SASA: samples JHI: equipment UoE: sequencing
Impact Publication attracted media attention from 11 media outlets: www.farminguk.com Researchers make technological breakthrough against potato cyst nematode http://www.farminguk.com/News/Researchers-make-technological-breakthrough-against-potato-cyst-nematode_37583.html www.dundeeandanguschamber.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.dundeeandanguschamber.co.uk/news/James-Hutton-News_0_3067.html phys.org Researchers make technological breakthrough against potato cyst nematode http://phys.org/news/2015-11-technological-breakthrough-potato-cyst-nematode.html www.hortweek.com Match potato varieties to local nematode populations, say researchers http://www.hortweek.com/match-potato-varieties-local-nematode-populations-say-researchers/edibles/article/1370971 www.agcc.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.agcc.co.uk/news-article/researchers-make-technological-breakthrough-against-potato-cyst-nematode www.stackyard.com Breakthrough against potato cyst nematode http://www.stackyard.com/news/2015/11/crop/01_james_hutton_pcn.html www.fwi.co.uk Scientists make breakthrough in potato pest control http://www.fwi.co.uk/arable/scientists-make-breakthrough-in-potato-pest-control.htm The Courier (Main Edition) Researchers breaking new ground with G pallida fight The Courier (Dundee Edition) Researchers breaking new ground with G pallida fight www.farmingfutures.org.uk Breakthrough against potato cyst nematode http://www.farmingfutures.org.uk/blog/breakthrough-against-potato-cyst-nematode Farmers Guardian Research breakthrough in the battle against PCN
Start Year 2014
 
Description Metagenetics of G. pallida 
Organisation Science and Advice for Scottish Agriculture
Country United Kingdom 
Sector Public 
PI Contribution Coordinating the project and carrying out the research
Collaborator Contribution Leeds: equipment and financial SASA: samples JHI: equipment UoE: sequencing
Impact Publication attracted media attention from 11 media outlets: www.farminguk.com Researchers make technological breakthrough against potato cyst nematode http://www.farminguk.com/News/Researchers-make-technological-breakthrough-against-potato-cyst-nematode_37583.html www.dundeeandanguschamber.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.dundeeandanguschamber.co.uk/news/James-Hutton-News_0_3067.html phys.org Researchers make technological breakthrough against potato cyst nematode http://phys.org/news/2015-11-technological-breakthrough-potato-cyst-nematode.html www.hortweek.com Match potato varieties to local nematode populations, say researchers http://www.hortweek.com/match-potato-varieties-local-nematode-populations-say-researchers/edibles/article/1370971 www.agcc.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.agcc.co.uk/news-article/researchers-make-technological-breakthrough-against-potato-cyst-nematode www.stackyard.com Breakthrough against potato cyst nematode http://www.stackyard.com/news/2015/11/crop/01_james_hutton_pcn.html www.fwi.co.uk Scientists make breakthrough in potato pest control http://www.fwi.co.uk/arable/scientists-make-breakthrough-in-potato-pest-control.htm The Courier (Main Edition) Researchers breaking new ground with G pallida fight The Courier (Dundee Edition) Researchers breaking new ground with G pallida fight www.farmingfutures.org.uk Breakthrough against potato cyst nematode http://www.farmingfutures.org.uk/blog/breakthrough-against-potato-cyst-nematode Farmers Guardian Research breakthrough in the battle against PCN
Start Year 2014
 
Description Metagenetics of G. pallida 
Organisation University of Edinburgh
Country United Kingdom 
Sector Academic/University 
PI Contribution Coordinating the project and carrying out the research
Collaborator Contribution Leeds: equipment and financial SASA: samples JHI: equipment UoE: sequencing
Impact Publication attracted media attention from 11 media outlets: www.farminguk.com Researchers make technological breakthrough against potato cyst nematode http://www.farminguk.com/News/Researchers-make-technological-breakthrough-against-potato-cyst-nematode_37583.html www.dundeeandanguschamber.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.dundeeandanguschamber.co.uk/news/James-Hutton-News_0_3067.html phys.org Researchers make technological breakthrough against potato cyst nematode http://phys.org/news/2015-11-technological-breakthrough-potato-cyst-nematode.html www.hortweek.com Match potato varieties to local nematode populations, say researchers http://www.hortweek.com/match-potato-varieties-local-nematode-populations-say-researchers/edibles/article/1370971 www.agcc.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.agcc.co.uk/news-article/researchers-make-technological-breakthrough-against-potato-cyst-nematode www.stackyard.com Breakthrough against potato cyst nematode http://www.stackyard.com/news/2015/11/crop/01_james_hutton_pcn.html www.fwi.co.uk Scientists make breakthrough in potato pest control http://www.fwi.co.uk/arable/scientists-make-breakthrough-in-potato-pest-control.htm The Courier (Main Edition) Researchers breaking new ground with G pallida fight The Courier (Dundee Edition) Researchers breaking new ground with G pallida fight www.farmingfutures.org.uk Breakthrough against potato cyst nematode http://www.farmingfutures.org.uk/blog/breakthrough-against-potato-cyst-nematode Farmers Guardian Research breakthrough in the battle against PCN
Start Year 2014
 
Description Metagenetics of G. pallida 
Organisation University of Leeds
Country United Kingdom 
Sector Academic/University 
PI Contribution Coordinating the project and carrying out the research
Collaborator Contribution Leeds: equipment and financial SASA: samples JHI: equipment UoE: sequencing
Impact Publication attracted media attention from 11 media outlets: www.farminguk.com Researchers make technological breakthrough against potato cyst nematode http://www.farminguk.com/News/Researchers-make-technological-breakthrough-against-potato-cyst-nematode_37583.html www.dundeeandanguschamber.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.dundeeandanguschamber.co.uk/news/James-Hutton-News_0_3067.html phys.org Researchers make technological breakthrough against potato cyst nematode http://phys.org/news/2015-11-technological-breakthrough-potato-cyst-nematode.html www.hortweek.com Match potato varieties to local nematode populations, say researchers http://www.hortweek.com/match-potato-varieties-local-nematode-populations-say-researchers/edibles/article/1370971 www.agcc.co.uk Researchers make technological breakthrough against potato cyst nematode http://www.agcc.co.uk/news-article/researchers-make-technological-breakthrough-against-potato-cyst-nematode www.stackyard.com Breakthrough against potato cyst nematode http://www.stackyard.com/news/2015/11/crop/01_james_hutton_pcn.html www.fwi.co.uk Scientists make breakthrough in potato pest control http://www.fwi.co.uk/arable/scientists-make-breakthrough-in-potato-pest-control.htm The Courier (Main Edition) Researchers breaking new ground with G pallida fight The Courier (Dundee Edition) Researchers breaking new ground with G pallida fight www.farmingfutures.org.uk Breakthrough against potato cyst nematode http://www.farmingfutures.org.uk/blog/breakthrough-against-potato-cyst-nematode Farmers Guardian Research breakthrough in the battle against PCN
Start Year 2014
 
Description The G. rostochiensis genome consortium 
Organisation Agriculture and Agri-Food Canada
Country Canada 
Sector Public 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation French National Institute of Agricultural Research
Department INRA Rennes Centre
Country France 
Sector Public 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation French National Institute of Agricultural Research
Department INRA Sophia Antipolis
Country France 
Sector Public 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation Government of Canada
Department Canadian Food Inspection Agency (CFIA)
Country Canada 
Sector Public 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation James Hutton Institute
Country United Kingdom 
Sector Public 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation King Abdulaziz University
Country Saudi Arabia 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation National Center for Scientific Research (Centre National de la Recherche Scientifique CNRS)
Department Centre National de la Recherche Scientifique Marseille
Country France 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation The Wellcome Trust Sanger Institute
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation U.S. Department of Agriculture USDA
Department Horticultural Crops Research Laboratory
Country United States 
Sector Public 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation University of Edinburgh
Country United Kingdom 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation University of Hull
Country United Kingdom 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation University of Leeds
Country United Kingdom 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation University of St Andrews
Country United Kingdom 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The G. rostochiensis genome consortium 
Organisation University of Wageningen
Country Netherlands 
Sector Academic/University 
PI Contribution Leading the consortium
Collaborator Contribution Genome annotation and various other analyses specific to each partners area/s of expertise.
Impact Eves-van den Akker, S., Laetsch, D. R., Thorpe, P., Lilley, C. J., Danchin, E. G., Da Rocha, M., ... & Grenier, E. (2016). The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome biology, 17(1), 124.
Start Year 2013
 
Description The P. penetrans transcriptome 
Organisation U.S. Department of Agriculture USDA
Country United States 
Sector Public 
PI Contribution Differential expression analyses
Collaborator Contribution Transcriptome sequencing and RNAi
Impact Vieira, Paulo, et al. "The Pratylenchus penetrans Transcriptome as a Source for the Development of Alternative Control Strategies: Mining for Putative Genes Involved in Parasitism and Evaluation of in planta RNAi." PloS one 10.12 (2015): e0144674.
Start Year 2014
 
Description The genome of the soybean cyst nematode Heterodera glycines 
Organisation Iowa State University
Department Department of Plant Pathology and Microbiology
Country United States 
Sector Academic/University 
PI Contribution Explore effector regulation and regulatory motifs.
Collaborator Contribution Genome sequencing, transcriptome sequencing (temporal and spatially separated)
Impact Publication R. Masonbrink, T.R. Maier, U. Muppirala, A.S. Seetharam, E. Lord, P.S. Juvale, J. Schmutz, N.T. Johnson, D. Korkin, M.G. Mitchum, B. Mimee, S. Eves-van den Akker, M. Hudson, A.J. Severin, T.J. Baum. (2019). The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes (2019) BMC Genomics 20 (1), 119.
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation French National Institute of Agricultural Research
Country France 
Sector Public 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation Iowa State University
Department Department of Plant Pathology and Microbiology
Country United States 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation James Hutton Institute
Country United Kingdom 
Sector Public 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation North Carolina State University
Department Plants for Human Health Institute
Country United States 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Bristol
Country United Kingdom 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of California, Davis
Department Department of Entomology and Nematology
Country United States 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Cambridge
Department Gurdon Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Ghent
Country Belgium 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Illinois
Country United States 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Leeds
Country United Kingdom 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Wageningen
Country Netherlands 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Transformation of Plant Parasitic Nematodes Consortium 
Organisation University of Warwick
Country United Kingdom 
Sector Academic/University 
PI Contribution Organisation of first workshop. Acquired seed corn funding. Lead of consortium.
Collaborator Contribution Attending workshop, developing and implementing strategies.
Impact None yet
Start Year 2016
 
Description Address to agronomists on potato cyst nematodes - youtube broadcast 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Industry/Business
Results and Impact Invited to address a group of several hundred agronomists on the importance of monitoring potato cyst nematodes in their fields. Talk was live streamed, and permanently hosted, on youtube for increased engagement with third partied after the event.
Year(s) Of Engagement Activity 2016
URL https://www.youtube.com/watch?v=OMCWA21Y1rM
 
Description Media engagement for Genome biology publication - and subsequent spotlight article 
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 around the completion of the G. rostochiensis genome consortium publication (see partnertships and collaboration section). Implications highlighted by various national and international media outlets.

http://www.soci.org/news/horticulture/potato-parasite-toolkit-sebastian-eves-van-der-akker

http://www.thenational.scot/news/14903470.Scientists_prepare_to_use_DNA_of_potato_killing_worm_against_it_to_save_crops_worth_billions/

https://potatonewstoday.com/2016/06/14/scientists-prepare-to-use-dna-of-pcn-against-it-to-save-crops/

http://www.farmassist.com/Alerts/AlertDetail.aspx?alertId=199041&AlertType=64&AlertTypeName=GPN%20News&type=FA_AGNEWSALL

http://merid.org/en/Content/News_Services/Food_Security_and_AgBiotech_News/Articles/2016/Jun/16/potato.aspx
Year(s) Of Engagement Activity 2016
URL https://www.dundee.ac.uk/news/2016/potato-parasites-toolkit-revealed.php
 
Description Plant Power Day - University of Dundee Botanical Gardens 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Worked with local artist Rhoda Ellis (https://rhodaellis.wordpress.com/) to provide an exhibition for plant power day (http://www.hutton.ac.uk/events/plant-power-day-2016) involving felting different flower forms. Designed to increase awareness of how form follows function in nature.
Year(s) Of Engagement Activity 2016
URL http://www.hutton.ac.uk/events/plant-power-day-2016
 
Description Press release for Award of Peter Massalski Prize 
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 around the award of the Peter Massalski prize for research excellence.
Year(s) Of Engagement Activity 2016
URL https://www.pressreader.com/uk/the-courier-advertiser-dundee-edition/20160514/282604557067617
 
Description Press release for Transformation workshop 
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 Press release following the transformation workshop. Since have had numerous requests for other to be involved in the consortium.
Year(s) Of Engagement Activity 2016
URL http://www.lifesci.dundee.ac.uk/news/2016/sep/19/dundee-investigator-leads-expert-discussion-transfo...
 
Description Street Food public engagement 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact As part of the Dundee Science Festival, the School of Life Sciences houses a fabulous indoor Street for perfect pairings of scientists and food makers. The event, "Street Food" aimed to explore links between science and food. Plant Scientists from the University of Dundee and the James Hutton Institute exhibited some of our work on potato resistance genes, and soft fruit production. The event consisted of a raft of food stalls and live science demonstrations.
Year(s) Of Engagement Activity 2017
 
Description media interest (metagenetics study) 
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 Publication was picked up by 11 media outlets, both national and international, with a potential audience of 7,571,958

Media response sparked further enquiries, including press representatives associated with Syngenta for the potato review.
Year(s) Of Engagement Activity 2015