Wheat Pan-genomics
Lead Research Organisation:
John Innes Centre
Department Name: Cell and Develop Biology
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.
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.
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.
Organisations
- John Innes Centre (Lead Research Organisation)
- Institute of Applied Genomics (Collaboration)
- University of Haifa (Collaboration)
- National Institute of Agricultural Botany (Collaboration)
- University of Milano-Bicocca (Collaboration)
- University of Western Australia (Collaboration)
- University of Saskatchewan (Collaboration)
- Helmholtz Zentrum München (Collaboration)
- Helmholtz Association of German Research Centres (Collaboration)
- University of Bologna (Collaboration)
- Sabanci University (Collaboration)
- French National Institute of Agricultural Research (Collaboration)
- Academy of Sciences of the Czech Republic (Collaboration)
- EMBL European Bioinformatics Institute (EMBL - EBI) (Collaboration)
- University of Zurich (Collaboration)
- Biogemma (Collaboration)
- Leibniz Association (Collaboration)
- John Innes Centre (Collaboration)
- University of California, Davis (Collaboration)
- Scottish Crop Research Institute (SCRI) (Collaboration)
- EARLHAM INSTITUTE (Collaboration)
People |
ORCID iD |
| Michael Bevan (Principal Investigator) |
Publications
Lu FH
(2018)
Independent assessment and improvement of wheat genome sequence assemblies using Fosill jumping libraries.
in GigaScience
Walkowiak S
(2020)
Multiple wheat genomes reveal global variation in modern breeding.
in Nature
Bevan MW
(2017)
Genomic innovation for crop improvement.
in Nature
| 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. The sequencing and assembly phase of the project has been completed. The plan is to compare the genomes of multiple wheat lines to identify "core" and "variable" components of genomes. This is critically dependent on consistent gene annotations. JIC and EI have carried this out as part of the international project. The merging story is one of remarkable consistency among genomes. Nevertheless, UK standards of genome assembly have not yet reached international standards despite pioneering open access methods for wheat assembly back in 2017. These deficiencies in assembly of the UK lines has been a significant drawback in the future utilisation of these wheat assemblies, despite spending funds to generate the HiC and Chromium sequences for long-range scaffolding. |
| 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. The skim sequencing of wheat lines with known ancestral relationships obtained from UK breeders is providing many more insights into haplotypes selected by breeders for key agronomic traits. By identifying these co-inherited regions of chromosomes and identifying variation within them JIC researchers will be able provide predictive tools for breeders to help them assemble lines with desired characteristics. |
| 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 The skim sequencing of wheat lines with known ancestral relationships obtained from UK breeders is providing many more insights into haplotypes selected by breeders for key agronomic traits. By identifying these co-inherited regions of chromosomes and identifying variation within them JIC researchers will be able provide predictive tools for breeders to help them assemble lines with desired characteristics. We have published a nice paper in Nature with our colleagues. The UK contribution included the largest number of interesting wheat genomes, but unfortunately these were not assembled to a reasonable quality despite the data being generated to do so |
| 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 | Biogemma |
| Country | France |
| 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 | French National Institute of Agricultural Research |
| Country | France |
| 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 | Helmholtz Association of German Research Centres |
| Department | Helmholtz Zentrum Munchen |
| Country | Germany |
| 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 | 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 | 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 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 | 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 | Helmholtz Zentrum München |
| Country | Germany |
| 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 | 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 |