Wheat Pan-genomics

Lead Research Organisation: John Innes Centre
Department Name: Cell and Develop Biology

Abstract

Bread wheat (Triticum aestivum L.) is the UK's most important crop and the world's most widely cultivated cereal. Understanding the genetic make up of crops is essential for achieving increases in sustainable yield, disease resistance and adaptation to changing growing conditions. However this understanding has been lacking in wheat because it has a exceptionally complex genetic make-up. But recently BBSRC scientists have made a breakthrough in analysing the complete genetic make up of wheat. In this project we aim to build on the UK success by accessing the genetic make up of several key wheat varieties important for global agriculture, and to analyse this data to help identify useful genetic variation. This work will be carried out in an international framework that will maximise the benefit of UK research for this globally important crop.

Technical Summary

This project integrates recent BBSRC-funded innovation in bread wheat genome re-sequencing/analysis capabilities at TGAC/JIC, with the 8-founder MAGIC population developed at NIAB, to address timely questions regarding the composition of the wheat 'pan-genome', and the ways in which this knowledge can be used for wheat genetic improvement.
Specifically, this project will:
-Produce and annotate high-quality reference sequences for the 8 MAGIC founders.
-Produce and annotate high-quality reference sequences for two internationally important CIMMYT wheat lines.
-Survey sequence of 94 maximally diverse wheat landraces from the Watkins collection to access a wide range of useful genetic variation.
-Catalogue millions of sequence variants, including a systematic identification and characterisation of many types wheat structural variants, including chromosome rearrangements, CNV, PAV and InDels, in both genes and repeats.
-Generate GbS data for 1,000 F9 MAGIC individuals, for identification of cross-over locations, haplotype characterisation, and construction of a POPSEQ genetic map for genome sequence scaffold anchoring and QTL analysis.
-Via analysis of MAGIC phenotypic datasets (18 traits over 28 trials), delineate gene and genetic variant content within QTL intervals at unprecedented detail.
-Characterise the effects of SV on genetic recombination rates and segregation distortion.
-Deliver open-access MAGIC datasets, analysis tools, knowledge and training to the wheat R&D community and to industry.

This project will deliver world-class knowledge, resources and training, and help maintain the UK's global position in wheat genetics and genomics, within a coordinated international framework.

Planned Impact

This project aims to develop resources and analytical tools for understanding and exploiting when genome sequence assemblies. These have the the potential to radically alter both wheat breeding and crop improvement, and also facilitate new areas of research that will lead to improved crops by understanding the contributions of genetic variation and gene function to traits.

We aim to achieve the following objectives that will ensure that the proposed work achieves its maximal impact.
- To contribute to developing an international strategy for coordinating future work in wheat pan-genomics;
- To establish a network of collaborators and partners for applying outcomes of the research to genomics-led wheat improvement and promoting their uptake by breeders;
- To work with technology providers to develop new services and products to support genetic analyses of wheat based on multiple wheat genome assemblies;
- To demonstrate and promote the benefits of open access to technologies for generating wheat genomic assemblies, and genetic and genomic data;
- To train researchers from industry in the analysis and application of wheat genomics for breeding and technology development;
- To engage with the public about the excitement, power and societal impacts of genomics, enabling them to understand how it it applied for crop improvement, and to continue dialog about changes in how crops are produced.
- To encourage career development in plant science and genomics by hosting school visits and laboratory placements for school children.

Impacts of International Coordination
We will work with the Wheat Initiative to ensure this project achieves maximum synergies with related international activities, and that BBSRC achieves the best value for money and maximises its contributions to global wheat research.

Impacts for plant breeders and biotechnology companies
Commercial wheat breeders will benefit by (1) Markers diagnostic for linkage between individual genes or small genetic intervals and components of the traits measured on the population, (2) release of all trait and marker data, which can be combined with their own from this and other populations, (3) protocols and software for their own analyses in MAGIC. We will continue in-depth engagement and training of crop breeders in new genomics technologies and quantitative genetic analysis approaches, and prioritise the development of new tools that will facilitate improved breeding. Breeders and other stakeholders will be invited to attend the three dedicated project workshops, during which we will highlight the availability of the project outputs for their own research and breeding. NIAB and JIC are regular contributors to events such as CEREALS: the leading technical event for the UK arable industry. We will ensure that the project is represented there and will attend in person to disseminate information.

Impacts for Growers and the Public
We will engage with growers and the general public to establish a dialog about the potential impacts of genomics on crop production, how it might influence farming, consumers and the environment.

Impacts for technology development companies and services
We work with Illumina and other genomics companies to help develop technologies and services for cheaper, faster and better genetics and genomics analyses for large and complex crop genomes.

Impacts for the crop R&D sector
The size of this project and the disciplines involved, encompassing statistical/quantitative genetics, bioinformatics and genomics will provide opportunities for training of scientific and technical staff in these fields. This will occur on an ad-hoc basis and through scheduled training courses and workshops. TGAC, NIAB and JIC staff will benefit from exposure to complementary expertise in each other's institutes, encouraging further knowledge and skills exchange, and so helping to promote skills and opportunities within the research sector.
 
Description This project has become centrally important in international wheat genome sequencing projects, as we have carefully selected key breeding germplasm and landraces for varying degrees of sequencing and analyses. We are sequencing two key lines from CIMMYT, thus contributing to international efforts to improve wheat breeding methods.

Sequencing and assembly of 5 core lines Robigus, Claire, Paragon, Cadenza and Weebill is complete and super-scaffolding using HiC is underway. Sequencing of another 8 MAGIC lines is nearly complete and HiC is being started.
Exploitation Route Once genome sequence variation is detected in the context of fully sequenced genomes, new approaches to breeding based on genomics can be developed. These will strongly accelerate breeding by providing precision and speed to haplotype assembly
Sectors Agriculture, Food and Drink

 
Description We have sequenced and assembled genomes from several elite wheat cultivars. This activity has been pooled with others to form an international collaboration (the 10+genome project) . Collaborative efforts involve developing bioinformatics approaches to map variation. Several of the varieties have been used for generating important international lines eg through CIMMYT. Impacts will arise from the use of genome assemblies to generate new varieties
First Year Of Impact 2018
Sector Agriculture, Food and Drink
Impact Types Economic

 
Description Genomics for Triticeae Improvement 
Organisation Academy of Sciences of the Czech Republic
Department Institute of Experimental Botany
Country Czech Republic 
Sector Academic/University 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation French National Institute of Agricultural Research
Country France 
Sector Public 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation Helmholtz Association of German Research Centres
Department Helmholtz Zentrum Munchen
Country Germany 
Sector Public 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation Institute of Applied Genomics
Country Italy 
Sector Charity/Non Profit 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation Leibniz Association
Department Leibniz Institute of Plant Genetics and Crop Plant Research
Country Germany 
Sector Charity/Non Profit 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation National Institute Of Agricultural Botany
Country United Kingdom 
Sector Private 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation Sabanci University
Country Turkey 
Sector Academic/University 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation Scottish Crop Research Institute (SCRI)
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation University of Bologna
Country Italy 
Sector Academic/University 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation University of Haifa
Country Israel 
Sector Academic/University 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation University of Milano-Bicocca
Country Italy 
Sector Academic/University 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Genomics for Triticeae Improvement 
Organisation University of Zurich
Country Switzerland 
Sector Academic/University 
PI Contribution We constructed a physical map of Chromosome 3DL of wheat using fingerprinted BACs
Collaborator Contribution The Institute of Experimental Botany in the Czech Republic made a BAC library from purified chromosome 3DL The Instituto di Genomica Applicata in Udine, Italy, carried out fingerprinting of the BACs using double enzyme digestion and fluorescent labelling INRA Toulouse managed the BACS University of Haifa developed a new fingerprinting method At JIC we implemented the fingerprinting of the BACs to generate a physical map of chromosome 3DL. This was integrated with a genetic map from Aegilops tauschii In subsequent work we sequenced and assembled the BACS
Impact physical maps of several wheat chromosomes as part of an international collaboration. These formed the basis of an international effort to sequence the wheat genome. Ultimately this approach was abandoned, after much effort and expenditure
Start Year 2008
 
Description Wheat genome sequencing 
Organisation Earlham Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution We are working together to sequence and annotate multiple wheat genomes. This involves its applications to wheat improvement by engagement with international wheat improvement organisations, principally CIMMYT and the International Wheat Yield Programme. One goal goal is to provide genomics expertise for these groups to accelerate their breeding programmes. We also work directly with UK wheat breeders.
Collaborator Contribution TGAC provide the lion's share of the expertise and sequencing capacity. I provide connections and strategy.
Impact Too soon to tell, but has led to a joint applications to ODA and Grand Challenge Funds with international wheat breeders and researchers to support breeding
Start Year 2015
 
Description Wheat genome sequencing 
Organisation University of Western Australia
Country Australia 
Sector Academic/University 
PI Contribution We are working together to sequence and annotate multiple wheat genomes. This involves its applications to wheat improvement by engagement with international wheat improvement organisations, principally CIMMYT and the International Wheat Yield Programme. One goal goal is to provide genomics expertise for these groups to accelerate their breeding programmes. We also work directly with UK wheat breeders.
Collaborator Contribution TGAC provide the lion's share of the expertise and sequencing capacity. I provide connections and strategy.
Impact Too soon to tell, but has led to a joint applications to ODA and Grand Challenge Funds with international wheat breeders and researchers to support breeding
Start Year 2015
 
Description Wheat genomics collaboration 
Organisation EMBL European Bioinformatics Institute (EMBL - EBI)
Country United Kingdom 
Sector Academic/University 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation Earlham Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation French National Institute of Agricultural Research
Country France 
Sector Public 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation Helmholtz Zentrum München
Country Germany 
Sector Public 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation John Innes Centre
Department The Sainsbury Laboratory
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation Leibniz Association
Department Leibniz Institute of Plant Genetics and Crop Plant Research
Country Germany 
Sector Charity/Non Profit 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation University of California, Davis
Country United States 
Sector Academic/University 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation University of Saskatchewan
Country Canada 
Sector Academic/University 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation University of Western Australia
Country Australia 
Sector Academic/University 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Wheat genomics collaboration 
Organisation University of Zurich
Country Switzerland 
Sector Academic/University 
PI Contribution In the framework of the international wheat pan genome project we contribute 5 wheat genome assemblies, annotation pipelines, and transcriptome data for gene annotation and gene expression measurements.
Collaborator Contribution The partnership brings together several groups who are assembling and annotating wheat genomes, primarily as part of national programmes. The plan is to develop approaches to comparing wheat genomes to identify how breeding has influenced the composition of gene families, gene expression and genome structures
Impact The project has only recently been initiated. Major progress is expected in mid 2017, with joint annotations forming and long-range scaffolding providing the foundations of analyses
Start Year 2017
 
Description Agritech discussions with the purpose of forming an AgriTech centre 
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 Prof Bevan contributed to discussions with Agritech at Rothamsted with the aim to form an AgriTech centre.
Year(s) Of Engagement Activity 2013
 
Description Collaboration with Bayer Crop Sciences 
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 JIC and Bayer discussed joint research project aimed at implementing DA1 technology to control seed size in oilseed rape.
Year(s) Of Engagement Activity 2016
 
Description Engagement with not for profit organisations: NFU Crop Board 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Third sector organisations
Results and Impact Prof Bevan contributed to the meeting with the NFU Crop Board providing update on advances in crop improvement and crop protection.
Year(s) Of Engagement Activity 2013
 
Description Evaluation of JIC as a strategic partner 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Industry/Business
Results and Impact Prof Bevan participated in a meeting with industry to evaluate the JIC as a strategic partner.
Year(s) Of Engagement Activity 2013
 
Description Newspaper commentaries about wheat genome sequencing progress 
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 Mike Bevan provided newspaper commentaries about wheat genome sequencing progress.
Year(s) Of Engagement Activity 2012
URL http://online.wsj.com/article/SB10001424127887324205404578147823815273136.html
 
Description Planning meeting for wheat pan-genomics 
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 There have been three meetings to scope out and plan activities in wheat pan-genomics. In Jan 2017 we met at the Plant & Animal Genome Conference to scope out interest, again in Cambridge in June 2017 to review progress, and most recently at PAG in Jan 2018. The value of these coordination meetings is to ensure BBSRC-funded research in wheat synergises with related work elsewhere in the world.
Year(s) Of Engagement Activity 2017
URL http://www.monogram.ac.uk/docs/MN2017/Bioinformatics/3_10%20Genomes%20Project%20-%20Pozniak_Cristoba...
 
Description Presentation at PAG conference San Diego USA 
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 latest data on comparative gene expression between diploid and hexaploid wheat lines
Year(s) Of Engagement Activity 2019
 
Description Press article entitled: 'Wheat genome sequence analysis.' 
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 Mike Bevan wrote a press article entitled: 'Wheat genome sequence analysis.'
Year(s) Of Engagement Activity 2012
URL http://www.sciencedaily.com/releases/2012/11/121128143545.htm
 
Description Press article for BBC entitled: 'Wheat genome's key parts unlocked in new 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 Public/other audiences
Results and Impact Mike Bevan wrote a press article for the BBC entitled: 'Wheat genome's key parts unlocked in new study.'
Year(s) Of Engagement Activity 2012
 
Description Press article in Farmers Weekly 
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 Industry/Business
Results and Impact Mike Bevan wrote a press article in Farmers Weekly entitled:'Wheat genome breakthrough offers food security boost'.
Year(s) Of Engagement Activity 2012
URL http://www.fwi.co.uk/articles/29/11/2012/136475/wheat-genome-breakthrough-offers-food-security-boost...
 
Description Press article in National Association of Wheat Growers 
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 Industry/Business
Results and Impact Mike Bevan wrote a press article in National Association of Wheat Growers entitled: 'Scientists announce stride towards wheat genome sequence'.
Year(s) Of Engagement Activity 2012
URL http://www.wheatworld.org/news-events/2012/11/scientists-announce-strides-toward-wheat-genome-sequen...
 
Description Press conference with George Freeman MP and and Sir Lesek Borysiewicz with local and national TV and radio covering the event 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Policymakers/politicians
Results and Impact Prof Bevan contributed to a press conference with George Freeman MP and and Sir Lesek Borysiewicz. Local and National TV and radio covered the event. The impacts involve creating a network or researchers and industrialists to address the Govt's agri-tech strategy, and contributing to the formation of that strategy.
Year(s) Of Engagement Activity 2013
 
Description Press release in National Science Foundation entitled: 'International team generates major breakthrough in deciphering bread wheat's genetic code'. 
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 Policymakers/politicians
Results and Impact Mike Bevan participated in a press release in National Science Foundation entitled: 'International team generates major breakthrough in deciphering bread wheat's genetic code'.
Year(s) Of Engagement Activity 2012
URL http://www.nsf.gov/news/news_summ.jsp?cntn_id=126008
 
Description Public Lecture 
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 presented a lecture on plant research in my group at a Science, Chemistry and Innovation event in London on 28 Nov 2018. The audience was mixed, comprising students, the general public and industrialists
Year(s) Of Engagement Activity 2018
 
Description San Diego Plant and Animal Genome Meeting 
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 During this meeting Prof Bevan discussed wheat genomics with Chinese colleagues.
Year(s) Of Engagement Activity 2016
 
Description TV interview with BBC Look East 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Policymakers/politicians
Results and Impact Mike Bevan participated in a television interview with BBC Look East.
Year(s) Of Engagement Activity 2013
 
Description Wheat genomics planning in New York 
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 Prof Bevan attended a wheat genomics planning meeting in New York.
Year(s) Of Engagement Activity 2015
 
Description planning wheat genome analyses 
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 An annual meeting to plan multiple aspects of wheat genome and epigenome sequencing
Year(s) Of Engagement Activity 2018