Genome-wide association analysis uncovers novel rice blast resistance alleles
<title></title> One of the most critical steps following genome-wide association studies (GWAS) is the identification and validation of candidate genes underlying genetic associations. Gene presence-absence and copy number variations can significantly hamper candidate gene discovery if high-quality...
| Main Authors: | , , , , , , , , , , |
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| Format: | Preprint |
| Language: | Inglés |
| Published: |
Research Square Platform LLC
2023
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| Online Access: | https://hdl.handle.net/10568/163975 |
| _version_ | 1855521379879747584 |
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| author | Greenwood, Julian Lacorte-Apostol, Vanica Kroj, Thomas Padilla, Jonas Telebano-Yanoria, Mary Glaus, Anna Roulin, Anne Padilla, Andre Zhou, Bo Keller, Beat Krattinger, Simon |
| author_browse | Glaus, Anna Greenwood, Julian Keller, Beat Krattinger, Simon Kroj, Thomas Lacorte-Apostol, Vanica Padilla, Andre Padilla, Jonas Roulin, Anne Telebano-Yanoria, Mary Zhou, Bo |
| author_facet | Greenwood, Julian Lacorte-Apostol, Vanica Kroj, Thomas Padilla, Jonas Telebano-Yanoria, Mary Glaus, Anna Roulin, Anne Padilla, Andre Zhou, Bo Keller, Beat Krattinger, Simon |
| author_sort | Greenwood, Julian |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | <title></title> One of the most critical steps following genome-wide association studies (GWAS) is the identification and validation of candidate genes underlying genetic associations. Gene presence-absence and copy number variations can significantly hamper candidate gene discovery if high-quality genomic resources from specific crop cultivars are unavailable. This is particularly true for disease resistance genes, which are often located in highly dynamic genomic regions. Here, we perform a genome-wide association analysis of rice blast resistance in 500 genetically diverse rice accessions. To facilitate candidate gene identification, we produced <italic>de-novo</italic> genome assemblies of ten rice accessions that showed rice blast resistance associations. These assemblies facilitated the identification and validation of novel alleles of the rice blast resistance genes <italic>Ptr</italic> and <italic>Pia</italic>. Our work shows that GWAS in combination with whole-genome sequencing are powerful tools for gene cloning and uncovers an allelic series for the unusual <italic>Ptr</italic> rice blast resistance gene. |
| format | Preprint |
| id | CGSpace163975 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2023 |
| publishDateRange | 2023 |
| publishDateSort | 2023 |
| publisher | Research Square Platform LLC |
| publisherStr | Research Square Platform LLC |
| record_format | dspace |
| spelling | CGSpace1639752025-12-08T09:54:28Z Genome-wide association analysis uncovers novel rice blast resistance alleles Greenwood, Julian Lacorte-Apostol, Vanica Kroj, Thomas Padilla, Jonas Telebano-Yanoria, Mary Glaus, Anna Roulin, Anne Padilla, Andre Zhou, Bo Keller, Beat Krattinger, Simon <title></title> One of the most critical steps following genome-wide association studies (GWAS) is the identification and validation of candidate genes underlying genetic associations. Gene presence-absence and copy number variations can significantly hamper candidate gene discovery if high-quality genomic resources from specific crop cultivars are unavailable. This is particularly true for disease resistance genes, which are often located in highly dynamic genomic regions. Here, we perform a genome-wide association analysis of rice blast resistance in 500 genetically diverse rice accessions. To facilitate candidate gene identification, we produced <italic>de-novo</italic> genome assemblies of ten rice accessions that showed rice blast resistance associations. These assemblies facilitated the identification and validation of novel alleles of the rice blast resistance genes <italic>Ptr</italic> and <italic>Pia</italic>. Our work shows that GWAS in combination with whole-genome sequencing are powerful tools for gene cloning and uncovers an allelic series for the unusual <italic>Ptr</italic> rice blast resistance gene. 2023-03-02 2024-12-19T12:53:15Z 2024-12-19T12:53:15Z Preprint https://hdl.handle.net/10568/163975 en Open Access Research Square Platform LLC Greenwood, Julian; Lacorte-Apostol, Vanica; Kroj, Thomas; Padilla, Jonas; Telebano-Yanoria, Mary; Glaus, Anna; Roulin, Anne; Padilla, Andre; Zhou, Bo; Keller, Beat and Krattinger, Simon. 2023. Genome-wide association analysis uncovers novel rice blast resistance alleles. , 20 pages |
| spellingShingle | Greenwood, Julian Lacorte-Apostol, Vanica Kroj, Thomas Padilla, Jonas Telebano-Yanoria, Mary Glaus, Anna Roulin, Anne Padilla, Andre Zhou, Bo Keller, Beat Krattinger, Simon Genome-wide association analysis uncovers novel rice blast resistance alleles |
| title | Genome-wide association analysis uncovers novel rice blast resistance alleles |
| title_full | Genome-wide association analysis uncovers novel rice blast resistance alleles |
| title_fullStr | Genome-wide association analysis uncovers novel rice blast resistance alleles |
| title_full_unstemmed | Genome-wide association analysis uncovers novel rice blast resistance alleles |
| title_short | Genome-wide association analysis uncovers novel rice blast resistance alleles |
| title_sort | genome wide association analysis uncovers novel rice blast resistance alleles |
| url | https://hdl.handle.net/10568/163975 |
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