The Contribution of Phytophthora effectors to host range and non-host resistance
Lead Research Organisation:
James Hutton Institute
Department Name: Cell & Molecular Sciences
Abstract
Abstracts are not currently available in GtR for all funded research. This is normally because the abstract was not required at the time of proposal submission, but may be because it included sensitive information such as personal details.
Technical Summary
Effector recognition by NB-LRR proteins has been proposed to be a major determinant of non-host resistance (NHR) in plant species that are closely related to a pathogen's natural hosts. In contrast, evidence exists that inducible NHR in plant species that are distantly related to the pathogen's natural host(s) is often based upon the inability of effectors to appropriately target and disable PTI (Schultze-Lefert and Panstruga 2011).This proposal aims to understand the molecular constraints governing host range of two economically important pathogens of Solanaceae crops, and thus the molecular basis of non-host resistance (NHR). . More specifically, we will test: 1) whether RXLR effectors from Phytophthora infestans and P. capsici can interact with/modify their plant targets and suppress PTI in non-host Solanaceae; 2) whether non-host resistance within the Solanaceae is thus largely based upon detection of effectors by NB-LRR immune receptors to activate ETI; and 3) whether a breakdown in effector-target interaction, or a failure to appropriately manipulate its target results in NHR in distantly-related plant species, such as Arabidopsis. The work will provide a knowledge platform that will direct future searches for naturally occurring nonhost NB-LRRs that protect against these key pathogens. Specifically, transfers of these immune receptors, singly or in combination, from non-host to host solanaceous crops could provide broad-spectrum resistance against economically important pathogens such as P. infestans or P. capsici. If based on PTI, approaches making use of intended targets that escape effector activity but retain their function in activating PTI in Solanaceous hosts, should enable the generation of durably resistant crops.
Planned Impact
Solanaceous crops form an essential component of the world's food supply with potato ranking as the most important global non-cereal food crop. Pests and diseases are a major constraint to achieving food security. Up to 50% of crop losses in developing nations are due to pests and diseases. New, durable and sustainable means of combating crop disease therefore offer an opportunity to make a significant impact on food security across the world. The proposed research is expected to benefit a) growers worldwide, especially those in developing countries, b) consumers, c) biotechnology and industry, d) researchers investigating crop diseases and disease resistance and e) the environment by reducing the amount of chemical sprays required for crop protection.
Historically, growers in Europe have relied on pesticides to produce most of their crops in the face of pressure from pests and diseases. Recent EU directives however, have prohibited or restricted the use of many active ingredients. Thus, growers now face diseases which are difficult to control. Breeding offers an environmentally benign method of controlling diseases by intogression of resistance genes but is inefficient to deal with rapidly changing virulent pathogens. Furthermore, resistances are often not readily deployable into cultivars.
Non-host resistance underlies the inability of a pathogen to cause disease in all plants outside its host range and is thus, by definition, durable. This proposal aims to understand the molecular constraints governing host ranges of distantly related pathogens/pests of Solanaceae crops, and thus the basis of non-host resistance between closely-related species in the Solanaceae. Understanding the molecular basis of non-host resistance offers the prospect of durable resistance against damaging pathogens and thereby a reduction of chemical inputs (including fungicides) and economic losses to growers. This allows sustainable use and management of ecosystem resources; a key aims of the LWEC programme. In addition to addressing food security, resistance transferred from non-host plants offers the prospect of sustainable pathogen management and crop production. This will be of great benefit to consumers, especially in the developing world where food is scarce. Importantly, this proposal aims to translate conceptual advances emerging from fundamental research on both Solanaceae models and Arabidopsis thaliana to important crops. The outcomes of this proposed research will impact the biotechnology industry. Critically, this is an IPA proposal, with the companies Simplot and Syngenta directly investing in the research as Industrial Partners. They aim to assess and exploit the potential of disease resistance-associated genes arising from this work to achieve durable resistance in Solanaceous crops, with Simplot focussing on potato late blight, and Syngenta focussing on Phytophthora diseases of tomato and pepper.
The work described in this proposal is timely as it will exploit genome information for 2 economically important oomycete pathogens, and the recently completed potato, tomato, pepper and N. benthamiana genome sequences. Outcomes of the project will have a high impact on the research community and raise the profile of research staff involved through peer-reviewed publications and invitations to conferences. This project will provide excellent training and career development opportunities for two PDRAs, and exposure directly to commercial exploitation of their research.
We will engage with the public and stakeholders at regular, institute organized events such as Potatoes in Practice, open days and school visits. We will involve our biotechnology industry partners Simplot and Syngenta in the direction and progress of the research, seeking to accelerate the use of resistance-associated genes from nonhost plants in economically important Solanaceous crops.
Historically, growers in Europe have relied on pesticides to produce most of their crops in the face of pressure from pests and diseases. Recent EU directives however, have prohibited or restricted the use of many active ingredients. Thus, growers now face diseases which are difficult to control. Breeding offers an environmentally benign method of controlling diseases by intogression of resistance genes but is inefficient to deal with rapidly changing virulent pathogens. Furthermore, resistances are often not readily deployable into cultivars.
Non-host resistance underlies the inability of a pathogen to cause disease in all plants outside its host range and is thus, by definition, durable. This proposal aims to understand the molecular constraints governing host ranges of distantly related pathogens/pests of Solanaceae crops, and thus the basis of non-host resistance between closely-related species in the Solanaceae. Understanding the molecular basis of non-host resistance offers the prospect of durable resistance against damaging pathogens and thereby a reduction of chemical inputs (including fungicides) and economic losses to growers. This allows sustainable use and management of ecosystem resources; a key aims of the LWEC programme. In addition to addressing food security, resistance transferred from non-host plants offers the prospect of sustainable pathogen management and crop production. This will be of great benefit to consumers, especially in the developing world where food is scarce. Importantly, this proposal aims to translate conceptual advances emerging from fundamental research on both Solanaceae models and Arabidopsis thaliana to important crops. The outcomes of this proposed research will impact the biotechnology industry. Critically, this is an IPA proposal, with the companies Simplot and Syngenta directly investing in the research as Industrial Partners. They aim to assess and exploit the potential of disease resistance-associated genes arising from this work to achieve durable resistance in Solanaceous crops, with Simplot focussing on potato late blight, and Syngenta focussing on Phytophthora diseases of tomato and pepper.
The work described in this proposal is timely as it will exploit genome information for 2 economically important oomycete pathogens, and the recently completed potato, tomato, pepper and N. benthamiana genome sequences. Outcomes of the project will have a high impact on the research community and raise the profile of research staff involved through peer-reviewed publications and invitations to conferences. This project will provide excellent training and career development opportunities for two PDRAs, and exposure directly to commercial exploitation of their research.
We will engage with the public and stakeholders at regular, institute organized events such as Potatoes in Practice, open days and school visits. We will involve our biotechnology industry partners Simplot and Syngenta in the direction and progress of the research, seeking to accelerate the use of resistance-associated genes from nonhost plants in economically important Solanaceous crops.
Organisations
- James Hutton Institute (Lead Research Organisation)
- Scottish Government (Co-funder)
- N. I. Vavilov All-Russian Institute of Plant Genetic Resources (Collaboration)
- University of Medellin (Collaboration)
- University of St Andrews (Collaboration)
- China Agricultural University (CAU) (Collaboration)
- International Potato Center (Collaboration)
- UNIVERSITY OF CAMBRIDGE (Collaboration)
- French National Institute of Agricultural Research (Collaboration)
- Chinese Academy of Agricultural Sciences (Collaboration)
- Administrative Department of Science, Technology and Innovation (Colciencias) (Collaboration)
- Julius Kuhn Institute (Collaboration)
- University of Ljubljana (Collaboration)
- UNIVERSITY OF PRETORIA (Collaboration)
- National Institute of Crop Science (Collaboration)
- Cornell University (Collaboration)
- Huazhong Agricultural University (Collaboration)
- Wageningen University & Research (Collaboration)
Publications
Volk H
(2019)
Chitin-Binding Protein of Verticillium nonalfalfae Disguises Fungus from Plant Chitinases and Suppresses Chitin-Triggered Host Immunity.
in Molecular plant-microbe interactions : MPMI
Duan Y
(2020)
Comparative Transcriptome Profiling Reveals Compatible and Incompatible Patterns of Potato Toward Phytophthora infestans.
in G3 (Bethesda, Md.)
Torrance L
(2020)
Natural resistance to Potato virus Y in Solanum tuberosum Group Phureja.
in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
Lin X
(2020)
RLP/K enrichment sequencing; a novel method to identify receptor-like protein (RLP) and receptor-like kinase (RLK) genes.
in The New phytologist
Lin X
(2020)
Identification of Avramr1 from Phytophthora infestans using long read and cDNA pathogen-enrichment sequencing (PenSeq).
in Molecular plant pathology
Bartlett L
(2020)
Operational considerations for hot-washing in potato crisp manufacture
in Food and Bioproducts Processing
Varypatakis K
(2020)
The Genomic Impact of Selection for Virulence against Resistance in the Potato Cyst Nematode, Globodera pallida.
in Genes
Beketova M
(2021)
Combination Breeding and Marker-Assisted Selection to Develop Late Blight Resistant Potato Cultivars
in Agronomy
Description | This project commenced on the 27th of January 2014 and aims to generate a fundamental understanding of the contribution of Phytophthora virulence determinants (effectors), their plant targets, and host resistance proteins to non-host resistance (NHR). The first Objective was to investigate whether effectors from each pathogen trigger non-host specific resistance responses. As part of this objective, we cloned priority effectors from P. infestans and P. capsici into plant expression vectors. Following microarray studies performed in-house for P. infestans, 90 RXLRs-containing virulence determinants were cloned into agro-binary vector pGRAB, and have also been cloned into the viral vector pGR106 (PVX). Following homology-based MCL clustering and microarray studies for P. capsici, 48 RXLR-containing virulence determinants have been cloned or synthesised and have been transferred into plant expression vectors. The second part of this objective was to identify recognition events of RXLR-containing virulence determinants in non-host plants. We determined that PVX was the best vector for RXLR expression screens in genotypes of potato, pepper, and tomato. However, agro-infiltration of expression constructs into Nicotiana sylvestris provides the most reproducible and facile screening procedure for potential NHR recognition. N. sylvestris emerged as a promising route to seek candidate NHR resistance genes - it is diploid, the genome has been sequenced, and transient expression is as facile as in N. benthamiana. Critically, as a common non-host, any follow-up work to seek R genes could involve cloning all R gene candidates from only this plant for subsequent functional assays in N. benthamiana with recognised effectors from both P. infestans and P. capsici. We have screened over 90 P. infestans effectors and identified a total of 4 effectors that consistently triggered cell death response in Nicotiana sylvestris. Only 1 of these effectors, PITG_04145, also yielded cell death in Nicotiana benthamiana, whereas PITG_10540, PITG_16195, and PITG_18215 did not produce visible symptoms in N. benthamiana. A similar screen of 48 P. capsici effectors identified 8 RXLRs that yielded a recognition response in N. sylvestris (PcRxLR008, PcRXLR011, PcRXLR018, PcRXLR019, PcRXLR030, PcRXLR089, PcRXLR138 and PcRXLR467). Of these, PcRXLR030, PcRXLR089 and PcRXLR0138 did not produce visible responses in N. benthamiana. Similarly, we have included tomato accessions that carry Rpi_Ph2 or Rpi_Ph3 resistances alongside susceptible controls. After screening of more than 100 RXLR effectors, 5 Avr-Ph3 candidates were identified. Indeed, PITG_16240, PITG_16427, PITG 23015, PITG_23226 and PITG_11484 were triggering HRs in the Rpi-Ph3 tomato lines only. Phylogenetic analysis of these Avr-Ph3 candidates revealed that PITG_16240 and PITG_16427 are related, as are PITG_23015 and PITG_23226. We reported in 2013 on the conception and implication of RenSeq, a method to enrich for NB-LRR genes prior to sequencing (Jupe et al 2013). We have successfully adapted this technology to pathogen RXLR effectors (PenSeq). The platform has been adapted to facilitate enrichment and sequencing of P. infestans and P. capsici RXLR effectors. A proof of concept study has been conducted by multiplexing 6 P. infestans and 6 P. capsici isolates, respectively. Included in the analysis were the reference isolates T30-4 and LT1534. We have submitted a manuscript detailing PenSeq to New Phytologist and are working on a revision for an invited resubmission. The main findings are: Target enrichment sequencing of 579 P. infestans and 574 P. capsici genes was conducted in parallel for twelve isolates. Under high-stringent mapping conditions, PenSeq reads displayed a higher than 50 % on-target rate and over 87 % of all targeted genes from the reference genomes were fully represented. PenSeq revealed presence/absence variations and sequence polymorphisms for known Avr genes across different pathogen genotypes. Hybridization of P. infestans and P. capsici-derived baits identified 30 additional RXLR effectors in novel parts of the T30-4 genome. A subsequent de novo annotation identified 1367 putative RXLR-containing regions of which 631 displayed evidence of expression in at least three publically available RNAseq datasets. We conclude that PenSeq enables the massively parallel sequence polymorphism study of effectors, facilitating the molecular characterization of Phytophthora isolates for population studies. The technology provides a novel diagnostic tool to predict the efficacy of host resistances in the face of pathogen population shifts. A large number of novel RXLR candidates were identified through PenSeq and a de novo analysis. We published PenSeq in 2019 (Thielliez et al., 2019 and Jouet et al., 2019) Objective 2 aimed at establishing whether effector activity determines pathogen host ranges within Solanaceae and/or Arabidopsis by identifying host protein targets of candidate effectors from P. infestans and P. capsici. On a previous grant (BBSRC LOLA), more than 70 Pi effectors have been screened to considerable depth in a potato-P. infestans interaction Y2H library. This has revealed approx. 200 potato proteins as candidate targets of these effectors. As our ultimate aims are to transfer Arabidopsis (At) orthologues of Pi/Pc effector targets into Solanaceous crops (potato, tomato, pepper), the group in Warwick has focused on Arabidopsis as a main priority. As part of the previous grant indicated above, 90 P. infestans RXLRs have been screened against the set of 12000 Arabidopsis genes cloned into yeast that has recently been reported for screening by effectors from G. orontii (Wessling et al 2014 Cell Host-Microbe 16:364-375). This has formed a basis to compare the non-host interactome of Pi-At with the host interactomes of At with H. arabidopsidis (Hpa), P. syringae tomato (Pst) and G. orontii. The group in Warwick has identified Arabidopsis orthologues of potato proteins bound by P. infestans effectors and screened these to see a) whether the P. infestans effectors can bind the Arabidopsis orthologues and b) whether Hyaloperonospora arabidopsidis effectors bind the Arabidopsis orthologue proteins. 128 Arabidopsis orthologues have been screened against 90 P. infestans effectors and 200 H. arabidopsidis effectors. Interactions of host vs non-host effectors with plant targets fall into 4 categories depending on whether interactions are conserved or not, and whether H. arabidopsidis effectors target the same protein. One Arabidopsis orthologue protein remains to be screened against the library of effectors. As part of the collaboration knockout mutants for potato target proteins and for Arabidopsis orthologues of potato, targets have been generated and demonstrated that many of these effector target proteins play a role in pathogen defence. We have a number of additional Arabidopsis lines knocked out for orthologues of effector target proteins which need screening for any altered susceptibility to H. arabidopsidis. We have also identified effectors that suppress PTI in non-host Solanaceae and seen that effectors are less likely to enhance pathogen colonisation in a non-host compared to a host plant. We have a small number of effectors which have been overexpressed in Arabidopsis but the transgenic lines have not yet been characterised for pathogen susceptibility. We have identified two such target proteins indicating that transfer of "orthologues" unable to be correctly targeted by P. infestans effectors into the Solanaceae may be a strategy to enhance resistance to P. infestans. Priority Arabidopsis orthologues have been tested in N. benthamiana and two candidates have been sent to Simplot to generate transgenic potatoes to test for reduced infection. Following on from the award, the resources generated and the results, which have been published, have led to new and meaningful international collaborations. |
Exploitation Route | The Industrial partners Simplot and Syngenta have expressed significant interest in the Arabidopsis orthologues genes of Solanaceae host targets that evade the interactions with P. infestans/ P. capsici RXLR effectors. This work will be part of Objective 4 that is due to commence in year two. Following this screen and verification, selected Arabidopsis orthologous genes are currently being transformed into Solanaceous plants for detailed resistance testing. International partners and collaborators have asked for the generated resources to be shared with them. |
Sectors | Agriculture Food and Drink |
Description | The progress of this project has been reported to the scientific community at various national and international meetings including the OMGN meetings (Norwich 2014, California 2017), MPMI (Rhodes 2014), COST FA 1208 (Zakopane, Poland), COST Action FA1208 SUSTAIN (Workshop-on-Pathogen-Informed-Crop-Improvement 2015; Wageningen, The Netherlands), 9th World Potato Congress (Beijing, 2015), EUCARPIA Section Potato (Italy, November 2015), Invited Speaker; Durham University (February 2016), Invited Speaker; National Institute of Biology, Ljubljana, Slovenia (June 2016); Selected Speaker; Plant Science Scotland PI meeting (June 2016), Selected Speaker; EAPR meeting (August 2016); Key Note Speaker; European Society of Nematology, Braga, Portugal (August 2016); Invited Speaker; Huazhong Agricultural University (HZAU), Wuhan, China (October 2016); Invited Speaker; Yunnan Academy of Agricultural Sciences, Yunnan, China (October 2016, 2017), Invited Speaker; Chinese Academy of Agricultural Sciences, Beijing, China (February 2017), Selected Speaker OMGN meeting March 2017), keynote speaker (EAPR meeting Germany 2018) Keynote speaker (6th plant genomics and gene editing congress, Rotterdam; 2018). A number of peer-reviewed publications have arisen thus far. The data have been presented to the Industrial partners at progress meetings in 2014, 2015 and 2016 and Simplot has agreed to take forward some of the Arabidopsis orthologues genes of P. infestans host targets that evade interactions with P. infestans effectors if their transient expression in N. benthamiana promotes resistance. The concept was also presented at Potato in Practise (Dundee, 2015). A manuscript detailing Pathogenicity factor enrichment and sequencing (PenSeq) which enables massively parallel diagnostic analysis of avirulence genes and revised genome annotation of Phytophthora infestans RXLR effectors has published in New Phytologist in 2019 (Thielliez et al., 2019 and Jouet et al., 2019). In addition, we have published a manuscript entitled: Phytophthora infestans RXLR effectors act in concert at diverse subcellular localisations to enhance host colonisation in JXB (Wang et al., 2018) and used PenSeq to identify Avr-amr1 (Lin et al., 2020). We have modified PenSeq to enable similar studies in nematodes and published a paper describing the genomic impact of selection for virulence against resistance in the potato cyst nematode, G. pallid (Varypatakis et al, 2020). We have shared the generated resources with national and international partners. |
First Year Of Impact | 2014 |
Sector | Agriculture, Food and Drink |
Impact Types | Economic |
Description | Policy document for 'knowledgescotland' |
Geographic Reach | National |
Policy Influence Type | Citation in other policy documents |
URL | http://www.knowledgescotland.org/briefings.php?id=399 |
Description | (ResearchLeaders2025) - Research Leaders 2025 - A Fellowship Programme developing the Next Generation of Agri-Food Research Leaders |
Amount | € 4,248,000 (EUR) |
Funding ID | 754380 |
Organisation | European Commission |
Sector | Public |
Country | European Union (EU) |
Start | 07/2018 |
End | 07/2023 |
Description | BBSRC - Subcontracting from the University of Dundee to the JHI |
Amount | £118,000 (GBP) |
Funding ID | BB/N009967/1 |
Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
Sector | Public |
Country | United Kingdom |
Start | 03/2016 |
End | 03/2019 |
Description | BBSRC - subcontract |
Amount | £1 (GBP) |
Funding ID | BB/P019595/1 |
Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
Sector | Public |
Country | United Kingdom |
Start | 03/2018 |
End | 02/2020 |
Description | COST ACTION |
Amount | € 2,500 (EUR) |
Funding ID | COST-STSM-FA1208-30782 |
Organisation | European Commission |
Department | Horizon 2020 |
Sector | Public |
Country | European Union (EU) |
Start | 03/2016 |
End | 05/2016 |
Description | EU Research Leader |
Amount | € 247,860 (EUR) |
Organisation | European Commission |
Sector | Public |
Country | European Union (EU) |
Start | 05/2021 |
End | 05/2023 |
Description | Newton Advanced Fellowships 2020 - NAF\R1\201061 |
Amount | £69,000 (GBP) |
Funding ID | NAF\R1\201061 |
Organisation | The Royal Society |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 03/2020 |
End | 03/2022 |
Description | Potato PCN Resistance: Cloning effective resistances against potato cyst nematodes |
Amount | £476,261 (GBP) |
Funding ID | BB/X009068/1 |
Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
Sector | Public |
Country | United Kingdom |
Start | 06/2023 |
End | 03/2026 |
Description | Royal Society - IEC\R2\192090 - International Exchanges 2019 Cost Share (Russia) |
Amount | £12,000 (GBP) |
Funding ID | IEC\R2\192090 - International Exchanges 2019 Cost Share (Russia) |
Organisation | The Royal Society |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 11/2019 |
End | 10/2021 |
Description | Studying Co-evolution in agriculture to inform NLR deployment |
Amount | £456,327 (GBP) |
Funding ID | BB/S015663/1 |
Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
Sector | Public |
Country | United Kingdom |
Start | 12/2019 |
End | 09/2023 |
Description | TSB MCAP2 |
Amount | £1,320,000 (GBP) |
Funding ID | TS/R005427/1 |
Organisation | Innovate UK |
Sector | Public |
Country | United Kingdom |
Start | 09/2017 |
End | 08/2020 |
Description | Transforming Food Production Challenge. |
Amount | £1,740,000 (GBP) |
Organisation | Department For Environment, Food And Rural Affairs (DEFRA) |
Sector | Public |
Country | United Kingdom |
Start | 03/2023 |
End | 03/2026 |
Title | GenSeq enrichment tool |
Description | A new, enrichment-sequencing based approach to map novel traits in potato. The manuscript detailing the technology has been accepted for publication in the journal Theoretical and Applied Genetics (TAG) 2018 |
Type Of Material | Technology assay or reagent |
Year Produced | 2018 |
Provided To Others? | Yes |
Impact | Publication |
URL | http://solanum.hutton.ac.uk |
Title | HISS: Snakemake-based workflows for performing SMRT-RenSeq assembly, AgRenSeq and dRenSeq for the discovery of novel plant disease resistance genes |
Description | Computational pipeline to conduct RenSeq-based association studies in potato |
Type Of Material | Technology assay or reagent |
Year Produced | 2022 |
Provided To Others? | Yes |
Impact | Request for further information and collaborations |
URL | https://www.biorxiv.org/content/10.1101/2022.11.01.514708v1 |
Title | PenSeq |
Description | We have developed pathogenicity factor target enrichment and sequencing (PenhSeq) to include P. infestans and P. capsici secreted proteins and RXLR effectors, to facilitate the massively parallel elucidation of polymorphisms in effectors and known avirulence determinants. Results: Target enrichment sequencing of 579 P. infestans and 574 P. capsici genes was conducted in parallel for twelve isolates, six from each species, and included the reference isolates T30-4 for P. infestans and LT1534 for P. capsici. Under high-stringent mapping conditions PenSeq reads displayed a higher than 50 % on-target rate and over 87 % of all targeted genes from the reference genomes were fully represented. PenSeq revealed presence/absence variations and sequence polymorphisms for known Avr genes across different pathogen genotypes. Hybridization of P. infestans and P. capsici-derived baits identified 30 additional RXLR effectors in novel parts of the T30-4 genome. A subsequent de novo annotation identified 1367 putative RXLR-containing regions of which 631 displayed evidence of expression in at least three publically available RNAseq datasets. Conclusions: PenSeq enables the massively parallel sequence polymorphism study of effectors, facilitating the molecular characterization of Phytophthora isolates for population studies. The technology provides a novel diagnostic tool to predict the efficacy of host resistances in the face of pathogen population shifts. A high number of novel RXLR candidates were identified through PenSeq and a de novo analysis. |
Type Of Material | Technology assay or reagent |
Year Produced | 2016 |
Provided To Others? | Yes |
Impact | Predicting the durability of deployed resistances by studying the diversity of P. infestans effectors including Avr genes. Thielez et al., 2019 and Jouette et al., 2018 |
URL | https://www.ncbi.nlm.nih.gov/pubmed/30288743 |
Title | dRenSeq - a new tool for potato disease resistance breedings |
Description | We can identify and validate the sequence of all currently known NB-LRRs genes in potato wild accessions and cultivars. We are using the technoloyg (dRenSeq) as part of breeding efforts to identify the best complementary parents for disease resistance gene stacking. |
Type Of Material | Technology assay or reagent |
Year Produced | 2018 |
Provided To Others? | Yes |
Impact | We are using the technology at James Hutton Limited and have had requests from companies SIMPLOT, Agrico, Syngenta and Solana for potential collaborations. The manuscript detailing the approach is currently under review in Nature Biotechnology |
Title | SolArray |
Description | This website describes the results of microarray experiments in Potato. Sequence ID's are based on the gene and transcript IDs from the PGSC DM assembly annotation (v4.03). The microarray probes are from the Potato 60K Agilent array, and were designed to the PSGC transcripts. You can use a probe ID from the Potato 60K Agilent Microarray chip or a PGSC gene ID or transcript ID in the search forms below. Alternatively you can use the BLAST utility to search your own DNA or protein sequences against the PGSC transcripts to find related sequences. Finally the transcripts have been annotated using the top BLAST hit found in the Tomato (ITAG) and Arabidopsis thaliana (TAIR) predicted peptides, and you can use the keyword search form to filter the transcripts for terms of interest. |
Type Of Material | Database/Collection of data |
Year Produced | 2015 |
Provided To Others? | Yes |
Impact | Hormone-specific marker genes have been developed for potato and are currently being used in fundamental and applied research studies. |
URL | https://ics.hutton.ac.uk/solarray/ |
Description | Cambridge joint student |
Organisation | University of Cambridge |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Potato expertise on disease resistance |
Collaborator Contribution | CRISPR CAS |
Impact | Joint PHD studentship |
Start Year | 2022 |
Description | Chinese Academy of Agricultural Sciences |
Organisation | Chinese Academy of Agricultural Sciences |
Country | China |
Sector | Academic/University |
PI Contribution | RenSeq and dRenSeq analysis on late blight resistant chinese potato cultivars |
Collaborator Contribution | Providing plant material and DNA, phenotyping populations, effector recognition studies |
Impact | We have submitted a grant proposal under the ASTIP programme |
Start Year | 2017 |
Description | Collaboration with China Agricultural University |
Organisation | China Agricultural University (CAU) |
Country | China |
Sector | Academic/University |
PI Contribution | I am currently supervising a student from the China Agricultural University of Beijing at my laboratory in Dundee and have been appointed an adjunct Professor at CAU in recognition of my research contributions. We have been able to send wild potato accessions from the CPC, in true seed form, to CAU following consultation with SASA and DEFRA. |
Collaborator Contribution | Material from the CPC is currently being assessed for disease resistances and effector recognition |
Impact | We already have a number of joint publication involving China Agricultural University, James Hutton Institute and the University of Dundee. We have also applied jointly for a Royal Society grant which is currently being reviewed. |
Start Year | 2019 |
Description | Compass: COMbat crop diseases through PAthogen informed Selection of resistance gene Stacks in resilient varieties and their deployment in changing environments |
Organisation | Wageningen University & Research |
Country | Netherlands |
Sector | Academic/University |
PI Contribution | We have jointly prepared and submitted an application for EU H2020; Proposal in the framework of H2020 research programme; SFS-03-2016: Testing and breeding for sustainability and resilience in crops |
Collaborator Contribution | Leading the European consortium |
Impact | Exchange of plant material and genetic resources |
Start Year | 2016 |
Description | FABI South Africa |
Organisation | University of Pretoria |
Department | Microbiology & Plant Pathology Pretoria |
Country | South Africa |
Sector | Academic/University |
PI Contribution | We are helping the team at the University of Pretoria, South Africa with Effector expression systems in plants |
Collaborator Contribution | Exchange of know-how, vectors, approaches Supervising Master student |
Impact | Functional effector studies |
Start Year | 2021 |
Description | GCRF partnership with CIP Peru/Africa/Asia |
Organisation | International Potato Center |
Country | Peru |
Sector | Charity/Non Profit |
PI Contribution | The University of Dundee is conducting RenSeq targeted enrichment sequencing and the computational analysis. All information is shared and the results will improve international breeding efforts for disease resistance in potato servicing South America, Africa and Asia. |
Collaborator Contribution | CIP is providing DNA from advanced potato breeding lines and wild species prioritised for disease resistance research. |
Impact | RenSeq data for wild species and relevant breeding clones. Informed potato breeding |
Start Year | 2020 |
Description | Julius Kuehn Institute PCN work |
Organisation | Julius Kuhn Institute |
Country | Germany |
Sector | Public |
PI Contribution | Input on the genetics of host resistance and life-cycle of PCN |
Collaborator Contribution | Phenotyping of populations |
Impact | Meetings and Presentations so far |
Start Year | 2022 |
Description | LB diversity in the US |
Organisation | Cornell University |
Country | United States |
Sector | Academic/University |
PI Contribution | We have been studying the diversity of P. infestans effectors on a molecular level using PenSeq. We have focused the research on typical genotypes (e.g. US23 and US24) from the US. |
Collaborator Contribution | Christine Smart and Niklaus Gruenwald have sent us well characterised isolates and DNA and helped with the interpretation of results. |
Impact | Grant applications to the BBSRC and USDA, Support of a PhD student in the US through the data that we generated |
Start Year | 2016 |
Description | Potato Late blight resistance in Colombia |
Organisation | Administrative Department of Science, Technology and Innovation (Colciencias) |
Country | Colombia |
Sector | Public |
PI Contribution | Colciencias funded a postdoctoral researcher, Dr Sonia Gomez, who joint my laboratory for one year. We conducted RenSeq and PenSeq analysis for Sonia's home University and characterised a number of resistances against late blight. |
Collaborator Contribution | DNA was provided from P. infestans isolates and late blight resistant potato varieties. |
Impact | RenSeq and PenSeq data for material derived from Colombia |
Start Year | 2020 |
Description | Potato Late blight resistance in Colombia |
Organisation | University of Medellin |
Country | Colombia |
Sector | Academic/University |
PI Contribution | Colciencias funded a postdoctoral researcher, Dr Sonia Gomez, who joint my laboratory for one year. We conducted RenSeq and PenSeq analysis for Sonia's home University and characterised a number of resistances against late blight. |
Collaborator Contribution | DNA was provided from P. infestans isolates and late blight resistant potato varieties. |
Impact | RenSeq and PenSeq data for material derived from Colombia |
Start Year | 2020 |
Description | Potato and late blight in South Korea |
Organisation | National Institute of Crop Science |
Department | Highland Agriculture Research Institute |
Country | Korea, Republic of |
Sector | Academic/University |
PI Contribution | This is a collaboration between Highland Agricultural Research Institute, RDA, South Korea and the JHI/UoD. We are using dRenSeq and PathSeq to determine the deployment of R genes in South Korea breeding material and the diversity of P. infestans. The ultimate aim is to ascertain if new resistance could be introduced from the UK to South Korea and vice versa |
Collaborator Contribution | DNA samples from South Korean potato cultivars have been sent to us. Furthermore, the collaborator, Dr Kwangsoo Cho, has given us access to P. infestans sequences from South Korean isolates for analysis. |
Impact | dRenSeq and PathSeq data Dr Kwangsoo Cho presented his work at the James Hutton Institute |
Start Year | 2017 |
Description | Potato in China |
Organisation | Huazhong Agricultural University |
Country | China |
Sector | Academic/University |
PI Contribution | dRenSeq analysis revealed that quantitative resistance to late blight in segregating population is based on R8. We have shared the probe library design for RenSeq with partners in China. In addition we mapped a novel PVY resistance with RenSeq to the bottom end of LG9 |
Collaborator Contribution | Phenotyping of potato populations that segregate for LB and PVY resistances |
Impact | Preparation of manuscripts detailing dRenSeq and mapping of PVY resistance |
Start Year | 2014 |
Description | Royal Society funded project with Vavilov Institute in Russia |
Organisation | N. I. Vavilov All-Russian Institute of Plant Genetic Resources |
Country | Russian Federation |
Sector | Public |
PI Contribution | Hosting scientists from Russia |
Collaborator Contribution | providing plant material for analysis |
Impact | Exchange of personal and ideas |
Start Year | 2019 |
Description | SGC ODA GCRF - Vietnam Zhonghua rice |
Organisation | University of St Andrews |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | We developed RenSeq for Rice and mapped. Through RenSeq we achieved the mapping and marker development for the Zhonghua source of resistance to root-knot nematodes in rice. The collaboration includes partners in France and Vietnam. |
Collaborator Contribution | Crossing of rice, phenotypic analysis of segregants and establishment of bulks for bulked segregant analysis. |
Impact | Map position for Zhongua-based disease resistance in rice towards root-knot nematodes. |
Start Year | 2018 |
Description | Tomato resistance to LB |
Organisation | French National Institute of Agricultural Research |
Country | France |
Sector | Academic/University |
PI Contribution | Hosted a PhD student for training purposes funded through COST ACTION SUSTAIN. Shared P. infestans RXRL libraries |
Collaborator Contribution | Characterised PH2 and PH3 segregating populations; Identified tomato 'specific' RXLRs from P. infestans isolates that preferential infect tomato rather than potato |
Impact | COST ACTION STSM funding for PhD student |
Start Year | 2014 |
Description | University of Wageningen - PCN |
Organisation | Wageningen University & Research |
Department | Plant Research International |
Country | Netherlands |
Sector | Charity/Non Profit |
PI Contribution | We hosted a master student as part of a recently established collaboration with WUR on PCN resistance |
Collaborator Contribution | Wageningen University provided phenotypic disease resistance data and DNA samples for an ongoing collaboration |
Impact | SMRT-AgRenSeq-d based characterisation of PCN resistance genes. |
Start Year | 2023 |
Description | Verticillium nonalfalfae and mechanisms of hop (Humulus lupulus L.) resistance to verticillium wilt |
Organisation | University of Ljubljana |
Country | Slovenia |
Sector | Academic/University |
PI Contribution | Effector co-localization studies in Nicotiana benthamina and setting up yeast-two-hybrid approach to identify interacting host genes |
Collaborator Contribution | Identification of candidate effectors from Verticillium that cause hyper-virulence in hop |
Impact | Successful COST Action STSM application |
Start Year | 2016 |
Description | 13th Potato Expo Teng Zhou |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I was an invited speaker at the event and illustrated the impact of international collaborations for the potato industry |
Year(s) Of Engagement Activity | 2023 |
Description | : Keynote Speaker /Chair 6th plant genomics & gene editing congress, Rotterdam |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Keynote Speaker /Chair 6th plant genomics & gene editing congress, Rotterdam |
Year(s) Of Engagement Activity | 2018 |
Description | Advanced Higher school visit |
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 | We hosted 10 advance higher biology pupils from a school in Five and two teachers at the Hutton. We discussed the importance of crop genetics and provided hands on experience in phenotyping and genotyping of plants. |
Year(s) Of Engagement Activity | 2023 |
Description | Agri-Tech-E invited speaker and panel member |
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 | I gave an invited presentation at an UK Agri-Tech-E event about potato and our research on disease resistance |
Year(s) Of Engagement Activity | 2021 |
URL | https://www.agri-tech-e.co.uk/event/advances-in-breeding-for-agriculture-new-tools-for-new-solutions... |
Description | Arbor RenSeq Webinar |
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 | I presented our work on RenSeq-based potato improvements and utilisation of the Commonwealth Potato Collection |
Year(s) Of Engagement Activity | 2022 |
URL | https://register.gotowebinar.com/register/2105190255144311567?utm_source=email&utm_medium=email&utm_... |
Description | Article in Holyrood current affairs magazine |
Form Of Engagement Activity | A magazine, newsletter or online publication |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Policymakers/politicians |
Results and Impact | Article about the positive impact of genome sequencing for crop protection |
Year(s) Of Engagement Activity | 2017 |
URL | http://www.holyrood.com |
Description | Article in Potato Link |
Form Of Engagement Activity | A magazine, newsletter or online publication |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | Article on Potato Research at the Hutton and links to breeding |
Year(s) Of Engagement Activity | 2023 |
URL | https://potatolink.com.au/resources/potatolink-magazine-issue-10 |
Description | BBC Radio 4 - Farming today interview |
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 | BBC Radio 4 - Farming today interview with a focus on potato research and the Commonwealth Potato Collection |
Year(s) Of Engagement Activity | 2019 |
URL | https://www.bbc.co.uk/sounds/play/m0007qg1 |
Description | BBC Radio Scotland out of doors interview |
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 | Media (as a channel to the public) |
Results and Impact | We discussed the importance of the Commonwealth Potato Collection for Research and Crop improvements in light of global threats to potato productions and a growing population. |
Year(s) Of Engagement Activity | 2022 |
URL | https://www.bbc.co.uk/programmes/m0019xty |
Description | BBC Scotland today lunchtime programme: potato |
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 | Media (as a channel to the public) |
Results and Impact | I presented the work at the Hutton to breed low-input, climate resilient potato varieties. |
Year(s) Of Engagement Activity | 2022 |
Description | BSPP outreach event: The plant Doctor, Edinburgh |
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 | Engaging with the public at the Edinburgh International Science Festival Raising public awareness about plant pathology and the impact on food crops |
Year(s) Of Engagement Activity | 2014 |
URL | http://www.bspp.org.uk/outreach/article.php?id=91 |
Description | British science week - Brilliant Berries |
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 | We participated at an event called Brilliant Berries as part of the British science week. We displayed pathogens of softfruits, extracted DNA from raspberry and engaged with the public about how our research benefits the industry. |
Year(s) Of Engagement Activity | 2024 |
Description | Crop Protection Treater Group |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | I presented a scientific perspective about current techniques available to select traits and how effectively these can be deployed in new cultivars |
Year(s) Of Engagement Activity | 2024 |
URL | https://potatoes.ahdb.org.uk/ahdb-potatoes-crop-protection-treater-group |
Description | Discussing the role of potato for UK and global food security with the Secretary of State for Scotland |
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 | We discussed the importance of potato for food security, current threats and opportunities and the development of IPIC with the Secretary of State for Scotland during a visit to the Hutton. |
Year(s) Of Engagement Activity | 2022 |
Description | EPSO AgT Working group |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Policymakers/politicians |
Results and Impact | The EPSO Agricultural Technologies Working Group met in May (online) to discuss the impact of Gene editing technology on research and food security. This was an international meeting with representatives from EU states including the UK (Wales and Scotland). We discussed our response to the European Commission consultation on plants produced by certain new genomic techniques. |
Year(s) Of Engagement Activity | 2022 |
URL | https://epsoweb.org/working-groups/agricultural-technologies/ |
Description | EPSO Agricultural Technologies Working Group member |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | As part of the EPSO working group on Agricultural Technology, we have writen responses to the ECJ ruling on CRISP/CAS9 and distributed this to policy makers and the members of EPSO |
Year(s) Of Engagement Activity | 2018,2019 |
URL | https://epsoweb.org/working-groups/agricultural-technologies/ |
Description | Edinburgh Science Festival |
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 | I gave a presentation (online due to Covid) at the Edinburgh Science Festival about the history of potato as a crop |
Year(s) Of Engagement Activity | 2021 |
Description | Engagement with GB potato agronomists and consultants |
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 | Discussing the current constrains in the potato industry and how science can help addressing those. |
Year(s) Of Engagement Activity | 2023 |
Description | Engagement with Industry - Agrico |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | We had a detailed scientific discussion about our work and further collaborations/funding has arisen as a consequence |
Year(s) Of Engagement Activity | 2023 |
Description | Engagement with Industry - Albert Bartlett's |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | We discussed the possibilities of informed breeding for disease resistance in potatoes |
Year(s) Of Engagement Activity | 2024 |
Description | Engagement with Industry - Lubera |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | We discussed the use of d-RenSeq for potato breeding for the company with a focus on late blight. |
Year(s) Of Engagement Activity | 2023 |
Description | Engagement with Industry - Simplot |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | We had a detailed scientific discussion about our work and further collaborations/funding has arisen as a consequence |
Year(s) Of Engagement Activity | 2023 |
Description | Engagement with Stakeholder - Cygnet |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | We discussed opportunities for Breeding and using RenSeq with Cygnet |
Year(s) Of Engagement Activity | 2022 |
Description | Engaging with KMC - Danish starch potato cooperative |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | We hosted the Danish potato starch cooperative, KMC, at the Hutton and discussed the needs of biotic stress resistance (late blight and PCN in particular). |
Year(s) Of Engagement Activity | 2022 |
Description | Farmer engagement and training Ning'an China |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | We engaged with farmers to discuss the use of disease resistant potato varieties |
Year(s) Of Engagement Activity | 2023 |
Description | Fascination of Plants Days |
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 | Display of wild potato species and explaining the cloning of disease resistance genes |
Year(s) Of Engagement Activity | 2017 |
URL | http://www.hutton.ac.uk/events/fascination-plants-day-0 |
Description | Foreign Expert at Potato/Pathogen workshop in Chongqing, China |
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 | Foreign Expert at Potato/Pathogen workshop in Chongqing, China |
Year(s) Of Engagement Activity | 2019 |
Description | Gatsby school |
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 hosted approximately 30 pupils from different local schools at the Hutton. We presented our work in the context of food security and provided opportunities for the pupils to engage with students (Honours, PhD), postdocs and PI's. |
Year(s) Of Engagement Activity | 2022 |
Description | Genetic characterisation of disease resistances in potatoes |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | We had a meeting with industrial and academic partners about characterising new resistances to protect potato crops. |
Year(s) Of Engagement Activity | 2022 |
Description | Hosting AgriTech Pari students |
Form Of Engagement Activity | Participation in an open day or visit at my research institution |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Undergraduate students |
Results and Impact | We hosted 40 students and discussed genetic aspects of potatoes and the CPC |
Year(s) Of Engagement Activity | 2023 |
Description | Interview at the Royal Society London |
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 | Schools |
Results and Impact | The interview was focused on new breeding technologies for sustainable crop production with a focus on potatoes |
Year(s) Of Engagement Activity | 2023 |
Description | Invited Keynote speaker at EAPE meeting, Warnemuende, Germany |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Keynote speaker on potato disease resistance at EAPR meeting |
Year(s) Of Engagement Activity | 2018 |
URL | https://www.potatopro.com/potato-conferences-tradeshows/19th-joint-meeting-eapr-section-'breeding-va... |
Description | Invited Plenary Speaker: China Potato Conference, Enshi, China |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Plenary Speaker, China Potato Conference, Enshi, China |
Year(s) Of Engagement Activity | 2019 |
Description | Invited Presentation at China National Talent Introduction Base |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I was invited to present my research at the China National Talent Introduction Base. As a consequence of the presentation, I am currently interviewing potential CSC PhD students. |
Year(s) Of Engagement Activity | 2020 |
Description | Invited Speaker (COST ACTION SUSTAIN, FA1208; Wageningen, The Netherlands) |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I gave a talk at the workshop Pathogen-Informed Crop Improvement describing our RenSeq approach and the use of effectors in the search for host and non-host resistance. Following the meeting we hosted a student from Wageningen at our lab to apply RenSeq to RLP and RLK-like sequences. We successfully mapped a novel PRR receptor to LG9. |
Year(s) Of Engagement Activity | 2015 |
Description | Invited Speaker at the opening of a research facility at ZARI Zambia |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | I was invited to present our work at the opening of a new research facility at ZARI in Zambia. Subsequently, I have been advising students on research projects. |
Year(s) Of Engagement Activity | 2015 |
Description | Invited Speaker; Chinese Academy of Agricultural Sciences, Beijing, China |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Invited Speaker; Chinese Academy of Agricultural Sciences, Beijing, China - this was a workshop to identify collaborations between CAAS and UK institutes (JHI, CEH). We have prepared a joint project proposal on potato and late blight resistance |
Year(s) Of Engagement Activity | 2016 |
Description | Invited Speaker; Huazhong Agricultural University (HZAU), Wuhan, China |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Invited Speaker; Huazhong Agricultural University (HZAU), Wuhan, China. This workshop was part of an appointment as a 'high end foreign expert' and is relevant to host and non-host resistances. Future project for potato crop protections were discussed |
Year(s) Of Engagement Activity | 2016 |
Description | Invited Speaker; National Institute of Biology, Ljubljana, Slovenia |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Other audiences |
Results and Impact | Invited Presentation |
Year(s) Of Engagement Activity | 2016 |
Description | Invited Speaker; Yunnan Academy of Agricultural Sciences, Yunnan, China |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Professional Practitioners |
Results and Impact | Invited Speaker; Yunnan Academy of Agricultural Sciences, Yunnan, China This invitation had arisen after the Sino-Scottish workshop. The main purpose was to discuss late blight resistance and breeding from a commercial prospective |
Year(s) Of Engagement Activity | 2016 |
Description | Invited Visit to Wuhan Huazhong Agricultural University |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Postgraduate students |
Results and Impact | As part of the 'High-End Foreign Recruitment program' in China, I was invited to visit the Huazhong Agricultural University for one week and gave formal presentations as well as workshops. I am involved in the Co-supervision of a PhD student who is working on late blight resistance. We have now used RenSeq to fine-map this resistance to LG9 alongside a novel PVY resistance. |
Year(s) Of Engagement Activity | 2015 |
Description | Invited presentation at SRUC - Edinburgh |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Professional Practitioners |
Results and Impact | Invited presentation at SRUC |
Year(s) Of Engagement Activity | 2019 |
Description | Invited presentation at the University of Edinburgh |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Professional Practitioners |
Results and Impact | Invited presentation at the University of Edinburgh |
Year(s) Of Engagement Activity | 2019 |
Description | Invited presentation: Fourth Sino-Europe Symposium on Potato in Dingxi, China |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | Invited presentation: Fourth Sino-Europe Symposium on Potato in Dingxi, China |
Year(s) Of Engagement Activity | 2019 |
Description | Invited speaker to International Workshop on Potato Quantitative Traits: Genetic Analysis and Perspectives (October 14-16, 2014 at Huazhong Agricultural University, Wuhan, China) |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | The feasibility of joint PhD studentships is currently being discussed as part of a wider UK-China network. We are most likely receiving a PhD student from Wuhan University to explore effector recognition in Solanaceae plants and also to learn RenSeq technology. |
Year(s) Of Engagement Activity | 2014 |
Description | Jenny Ekman Potato Link Australia |
Form Of Engagement Activity | Engagement focused website, blog or social media channel |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Jenny visited the Hutton to write a blog/podcast for the Australian potato link journal that represents the wider potato stakeholders in Australia. |
Year(s) Of Engagement Activity | 2023 |
Description | Key Note Speaker; European Society of Nematology, Braga, Portugal |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Key Note Speaker; I highlighted the importance of using effectors to characterise non-host and host resistance and introduced target enrichment approaches such as PathSeq and RenSeq. I had requests now for collaborations and developing similar approaches for various plant/pathogens. |
Year(s) Of Engagement Activity | 2016 |
URL | https://www.esn-online.org |
Description | MPMI presenter and session moderator |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | MPMI presenter (flash talk) and session moderator |
Year(s) Of Engagement Activity | 2019 |
Description | National and International newspaper articles |
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 | Our research featured in 13 international newspapers and magazines: • http://digital.spudman.com/i/1195920-january-2020/31? • https://www.heraldscotland.com/business_hq/17864468.scientists-harness-wild-potatoes-bolster-commercial-spuds/ • https://www.thescottishfarmer.co.uk/news/17860991.scientists-harness-wild-potatoes-bolster-commercial-spuds/ • https://www.potatopro.com/news/2019/four-late-blight-resistancy-genes-current-commercial-potato-varieties-already-defeated • https://spudsmart.com/scientists-discover-wild-potatoes-key-for-stronger-spuds/ • https://www.farminglife.com/farming-news/wild-spuds-to-stop-threat-of-blight-1-9020072 • https://www.agf.nl/article/9130881/schotland-oude-aardappelrassen-veel-minder-phytophthora-gevoelig/ • https://www.heraldscotland.com/news/17815436.race-time-keep-humble-scots-tattie-menu/ • http://www.stackyard.com/news/2019/07/crop/04_dundee_potatoes.html • https://www.countrylife.co.uk/news/wild-potatoes-help-spuds-resist-deadly-blight-caused-irish-potato-famine-200323 • https://potatonewstoday.com/2019/07/25/wild-potatoes-key-for-stronger-spuds/ • http://www.deadlinenews.co.uk/2019/07/25/tatties-gone-scientists-discover-wild-potatoes-key-for-stronger-spuds/ • https://www.agriland.co.uk/farming-news/wild-potato-genes-may-be-key-to-stronger-spuds/ |
Year(s) Of Engagement Activity | 2019 |
Description | Newspaper article - breeding/GM |
Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Public/other audiences |
Results and Impact | Interview with the Courier Newspaper: Scientist says: gene editing is not the only way. |
Year(s) Of Engagement Activity | 2023 |
URL | https://www.thecourier.co.uk/fp/business-environment/farming/4097146/potato-scientist-says-gene-edit... |
Description | OMGN meeting in Norwich |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Other academic audiences (collaborators, peers etc.) |
Results and Impact | We presented data relevant to the non-host grant as well as RenSeq technology and established a collaboration with Wageningen University. Known late blight resistance genes were sent to us as a consequence. The possibility to adapt RenSeq technology to pathogen effectors and plant pattern recognising receptors are being explored. We have agreed to host a scientist from Wagening to establish an enrichment for plant pattern recognising receptors |
Year(s) Of Engagement Activity | 2012,2014 |
URL | http://omgn.org/ |
Description | Organiser, speaker and facilitator at University of Dundee, Plant Sciences Retreat |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Professional Practitioners |
Results and Impact | Organiser, speaker and facilitator at University of Dundee, Plant Sciences Retreat |
Year(s) Of Engagement Activity | 2019 |
Description | Organiser, speaker and facilitator for Potato@Hutton workshop |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Industry/Business |
Results and Impact | Organiser, speaker and facilitator for Potato@Hutton workshop |
Year(s) Of Engagement Activity | 2020 |
Description | Plenary Speaker, South African Genetics Society (online) |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I was invited by the South African Genetics society to present an overview of my research. I am currently supervising a Master Student from FABI in Pretoria |
Year(s) Of Engagement Activity | 2020 |
Description | Potato strategy meeting |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Professional Practitioners |
Results and Impact | We had invited an external expert from Industry to discuss options for future strategic research on potatoes. |
Year(s) Of Engagement Activity | 2022 |
Description | Potatoes in Practice |
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 | approximate 650 people attended Potatoes in Practice in 2022. We presented to the diverse audience research activities on PCN, IPM, late blight and the critical link to breeding and germplasm collections. |
Year(s) Of Engagement Activity | 2022 |
URL | https://pip.hutton.ac.uk |
Description | Potatoes in Practice |
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 | We presented the latest developments in potato genetics/markers for disease resistances to a broad audience |
Year(s) Of Engagement Activity | 2023 |
URL | https://pip.hutton.ac.uk/ |
Description | Potatoes in Practise |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | We had a display of the Commonwealth Potato Collection and introduced the concept of dRenSeq as a new breeding tool |
Year(s) Of Engagement Activity | 2017 |
URL | http://www.hutton.ac.uk/events/potatoes-practice-2017 |
Description | Presentation at CIP/CCCAP Beijing |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Industry/Business |
Results and Impact | I participated in a workgroup to discuss sustainable potato production in light of climate change and pathogen threats. |
Year(s) Of Engagement Activity | 2023 |
Description | Presentation at Durham University |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Professional Practitioners |
Results and Impact | I was invited to Durham University to present our work on potato as part of the University's effort on Crop Protection |
Year(s) Of Engagement Activity | 2016 |
Description | Presentation at SLU Sweden |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | I visited SLU Alnarp, Sweden to conduct a VIVA of a PhD student. I was invited to present our work at the University during a seminar. |
Year(s) Of Engagement Activity | 2016 |
Description | Presentation at the European Association for Potato Research, Poland |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I presented our approaches to mining new resistances against potato diseases and integrating research and breeding at the EAPR meeting in Poland. A number of new collaborations have been developed as a result of this presentation. |
Year(s) Of Engagement Activity | 2022 |
URL | https://www.eapr.net/conference/2022/21st-eapr-triennial-conference |
Description | Presentation at the World Potato Congress, Ireland |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I gave an invited, oral presentation on our efforts of RenSeq-based crop improvements and development to a diverse audience including potato industry, potato producers, breeders and advisers to governments. |
Year(s) Of Engagement Activity | 2022 |
URL | https://wpc2022ireland.com |
Description | Presentation to ARIA program Director |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | I presented our research and opportunities to Angie Burnett, The Program Director of ARIA plants. |
Year(s) Of Engagement Activity | 2023 |
URL | https://www.aria.org.uk/ |
Description | Presentation to Industry |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | We discussed the need of industry and the role our Research (RenSeq and dihaploids) can play in supporting industry. |
Year(s) Of Engagement Activity | 2023 |
Description | Presentation to potato grower delegation from Canada |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | the discussion focused on the needs of the potato industry in Canada |
Year(s) Of Engagement Activity | 2023 |
Description | Presenting Potato Research to CEO of the BBSRC |
Form Of Engagement Activity | Participation in an open day or visit at my research institution |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | We presented potato research to Professor Dame Ottoline Leyser, the Chief Executive of UK Research and Innovation (UKRI) and Regius Professor of Botany at the University of Cambridge. |
Year(s) Of Engagement Activity | 2022 |
Description | Primary school visit |
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 | We engaged with a local primary school about the work as a plant scientists and our work on potatoes. |
Year(s) Of Engagement Activity | 2023 |
Description | Royal Highland Show |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Industry/Business |
Results and Impact | We presented at the Royal Highland Show the impact of disease resistance breeding in potato as a consequence of the Irish potato famine. We had on display heritage potato cultivars grown during the time of the famine (Lumper, Pink Fir Apple, Skerry Blue), current potato cultivars (Maris Piper, King Edward and Maris Piper) and wild potato species (S. verrucosum, S. polyadenium and S. bulbocastanum) with novel resistances. In addition, we had information about each cultivars in respect to the R genes that they contained (or lacked) as established through dRenSeq. |
Year(s) Of Engagement Activity | 2017 |
URL | http://www.hutton.ac.uk/news/hutton-science-show-royal-highland-show |
Description | Royal Highland Show |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Public/other audiences |
Results and Impact | We displayed dRenSeq technology and the impact of disease resistance gene deployment in potato cultivars since the early 1800. |
Year(s) Of Engagement Activity | 2017 |
URL | https://www.royalhighlandshow.org |
Description | Royal Highland Show - Potato Research |
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 | At the Royal Highland Show we presented the diversity of the Commonwealth Potato Collection and showcased the impact of our research on the generation of new potato varieties through breeding. |
Year(s) Of Engagement Activity | 2023 |
Description | Royal Society Daffodils project - Queen Anne High School in Dunfermline |
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 | As part of the Royal Society funded Daffodils project, we visited the Queen Anne High school in Dunfermline and helped pupils to extract DNA from two Daffodil species, quantify the DNA, generate libraries for sequencing and then sequenced and assembled the chloroplast genomes via Oxford Nanopore MinIon sequencing. We helped with the data analysis and summarised the results in a poster. |
Year(s) Of Engagement Activity | 2022 |
URL | https://royalsociety.org/-/media/grants-schemes-awards/partnership-grants/the-scottish-daffodil-proj... |
Description | SACAPP conference |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | Invited presentation highlighting RenSeq technology and the impact on breeding. |
Year(s) Of Engagement Activity | 2023 |
Description | SACCAP conference |
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 | I presented our work on RenSeq-based potato breeding |
Year(s) Of Engagement Activity | 2022 |
URL | https://www.ruralnetwork.scot/council-area/perth-kinross-council?page=6 |
Description | Scientific presentation at China Agricultural University |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Postgraduate students |
Results and Impact | I presented data related to association genetics and specifically late blight, PCN and Virues |
Year(s) Of Engagement Activity | 2023 |
URL | https://cpp.cau.edu.cn/art/2023/11/1/art_24067_995862.html |
Description | Selected Speaker and Organiser; UK-China Workshop, Dundee |
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 | As part of Potato in Practise, we had organised a Sino-Scotland workshop specifically focused on potato and potato diseases/resistances |
Year(s) Of Engagement Activity | 2016 |
Description | Selected Speaker; EAPR meeting; Dundee |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Selected Speaker at European Association for Potato Research (EAPR) Pathology & Pests Section |
Year(s) Of Engagement Activity | 2016 |
URL | http://eaprpathology2016.webarchive.hutton.ac.uk |
Description | Selected Speaker; Plant Science Scotland PI meeting |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Professional Practitioners |
Results and Impact | This was a gathering of PI from Scotland that are engaged in Plant Sciences. The scope was to establish further links between Institutes |
Year(s) Of Engagement Activity | 2016 |
Description | Speaker, 8th plant genomics & gene editing congress, Rotterdam, The Netherlands |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | About 150 participants attended the meeting and I had a number of fruitful discussion after the presentation |
Year(s) Of Engagement Activity | 2020 |
Description | Street food |
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 | dRenSeq technology in plants and CPC wild potato species |
Year(s) Of Engagement Activity | 2017 |
URL | http://www.dundeesciencecentre.org.uk/local/events/event.php?eventgroupID=202&categoryID=10 |
Description | Teaching (University of Dundee) |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Undergraduate students |
Results and Impact | I gave a 2 hour tutorial about modern genetics with a focus on utilising next-generation sequencing technology |
Year(s) Of Engagement Activity | 2015 |
Description | University of Dundee, Crieff Research Symposium (online) |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Professional Practitioners |
Results and Impact | I presented the potato research at the School of Life Sciences in Dundee at a virtual event |
Year(s) Of Engagement Activity | 2020 |
Description | Yunan - late blight meeting |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | I gave a presentation about our late blight research at the Yunan (China) late blight meeting |
Year(s) Of Engagement Activity | 2021 |