Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat
Chinese endemic wheat, comprising Tibetan semi-wild wheat (Triticum aestivum ssp. tibetanum), Yunnan hulled wheat (T. aestivum ssp. yunnanense), and Xinjiang rice wheat (T. petropavlovskyi), are genetically and morphologically unique. To examine the adult plant resistance to stripe rust among Chines...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2020-06-01
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| Series: | Frontiers in Plant Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fpls.2020.00625/full |
| _version_ | 1818060286443126784 |
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| author | Jing Li Jing Li Yunfeng Jiang Yunfeng Jiang Fangjie Yao Fangjie Yao Li Long Li Long Yuqi Wang Yuqi Wang Yu Wu Yu Wu Hao Li Jirui Wang Jirui Wang Qiantao Jiang Qiantao Jiang Houyang Kang Houyang Kang Wei Li Pengfei Qi Jian Ma Zhien Pu Shoufen Dai Yuming Wei Yuming Wei Youliang Zheng Youliang Zheng Guoyue Chen Guoyue Chen |
| author_facet | Jing Li Jing Li Yunfeng Jiang Yunfeng Jiang Fangjie Yao Fangjie Yao Li Long Li Long Yuqi Wang Yuqi Wang Yu Wu Yu Wu Hao Li Jirui Wang Jirui Wang Qiantao Jiang Qiantao Jiang Houyang Kang Houyang Kang Wei Li Pengfei Qi Jian Ma Zhien Pu Shoufen Dai Yuming Wei Yuming Wei Youliang Zheng Youliang Zheng Guoyue Chen Guoyue Chen |
| author_sort | Jing Li |
| collection | DOAJ |
| description | Chinese endemic wheat, comprising Tibetan semi-wild wheat (Triticum aestivum ssp. tibetanum), Yunnan hulled wheat (T. aestivum ssp. yunnanense), and Xinjiang rice wheat (T. petropavlovskyi), are genetically and morphologically unique. To examine the adult plant resistance to stripe rust among Chinese endemic wheat germplasms, a panel of 213 accessions was inoculated with mixed virulent races of wheat stripe rust (Puccinia striiformis f. sp. tritici) in four different field environments. Four traits associated with stripe rust resistance, infection type, final disease severity, disease index, and area under the disease progress curve, were used to evaluate the accessions. The phenotypic datasets were used for 55K single-nucleotide polymorphism (SNP) array-based genome-wide association studies to identify effective resistance loci. Eighty-nine accessions with stable resistance were identified in at least three of the four environments by phenotypic evaluation. Eleven markers located on chromosomes 1A, 2B, 5A, 5D, 7B, and 7D by the genome-wide association studies analysis showed significant associations with at least two resistance-associated traits in two of the environments. These loci, corresponding to seven genomic regions based on linkage disequilibrium decay distance, explained 9.3 to 26.0% of the total phenotypic variation. Five quantitative trait loci (QTLs) on chromosomes 1A, 2B, 7B, and 7D overlapped or were in close proximity to previously reported QTLs based on the consensus and physical maps using the reference sequence of bread wheat (IWGSC RefSeq v1.0). The other two QTLs were potential novel QTLs given their physical positions. Haplotype variants of QTL QYr.sicau-2BS showed subspecies-specific inheritance of the stripe rust resistance locus. Resistant loci among Chinese endemic wheat germplasms could be introduced into common wheat cultivars, and the high-confidence SNP markers will aid in marker-assisted selection in breeding for stripe rust disease resistance. |
| first_indexed | 2024-12-10T13:30:00Z |
| format | Article |
| id | doaj.art-1fd523116ba44ff3b3b71595a725db54 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-10T13:30:00Z |
| publishDate | 2020-06-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-1fd523116ba44ff3b3b71595a725db542022-12-22T01:47:00ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2020-06-011110.3389/fpls.2020.00625532003Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic WheatJing Li0Jing Li1Yunfeng Jiang2Yunfeng Jiang3Fangjie Yao4Fangjie Yao5Li Long6Li Long7Yuqi Wang8Yuqi Wang9Yu Wu10Yu Wu11Hao Li12Jirui Wang13Jirui Wang14Qiantao Jiang15Qiantao Jiang16Houyang Kang17Houyang Kang18Wei Li19Pengfei Qi20Jian Ma21Zhien Pu22Shoufen Dai23Yuming Wei24Yuming Wei25Youliang Zheng26Youliang Zheng27Guoyue Chen28Guoyue Chen29Triticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaCollege of Agronomy, Sichuan Agricultural University, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaCollege of Agronomy, Sichuan Agricultural University, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu, ChinaState Key Laboratory of Crop Gene Exploitation and Utilization in Southwest China, Chengdu, ChinaChinese endemic wheat, comprising Tibetan semi-wild wheat (Triticum aestivum ssp. tibetanum), Yunnan hulled wheat (T. aestivum ssp. yunnanense), and Xinjiang rice wheat (T. petropavlovskyi), are genetically and morphologically unique. To examine the adult plant resistance to stripe rust among Chinese endemic wheat germplasms, a panel of 213 accessions was inoculated with mixed virulent races of wheat stripe rust (Puccinia striiformis f. sp. tritici) in four different field environments. Four traits associated with stripe rust resistance, infection type, final disease severity, disease index, and area under the disease progress curve, were used to evaluate the accessions. The phenotypic datasets were used for 55K single-nucleotide polymorphism (SNP) array-based genome-wide association studies to identify effective resistance loci. Eighty-nine accessions with stable resistance were identified in at least three of the four environments by phenotypic evaluation. Eleven markers located on chromosomes 1A, 2B, 5A, 5D, 7B, and 7D by the genome-wide association studies analysis showed significant associations with at least two resistance-associated traits in two of the environments. These loci, corresponding to seven genomic regions based on linkage disequilibrium decay distance, explained 9.3 to 26.0% of the total phenotypic variation. Five quantitative trait loci (QTLs) on chromosomes 1A, 2B, 7B, and 7D overlapped or were in close proximity to previously reported QTLs based on the consensus and physical maps using the reference sequence of bread wheat (IWGSC RefSeq v1.0). The other two QTLs were potential novel QTLs given their physical positions. Haplotype variants of QTL QYr.sicau-2BS showed subspecies-specific inheritance of the stripe rust resistance locus. Resistant loci among Chinese endemic wheat germplasms could be introduced into common wheat cultivars, and the high-confidence SNP markers will aid in marker-assisted selection in breeding for stripe rust disease resistance.https://www.frontiersin.org/article/10.3389/fpls.2020.00625/fullChinese endemic wheatstripe rustGWASTibetan semi-wild wheatYunnan hulled wheatXinjiang rice wheat |
| spellingShingle | Jing Li Jing Li Yunfeng Jiang Yunfeng Jiang Fangjie Yao Fangjie Yao Li Long Li Long Yuqi Wang Yuqi Wang Yu Wu Yu Wu Hao Li Jirui Wang Jirui Wang Qiantao Jiang Qiantao Jiang Houyang Kang Houyang Kang Wei Li Pengfei Qi Jian Ma Zhien Pu Shoufen Dai Yuming Wei Yuming Wei Youliang Zheng Youliang Zheng Guoyue Chen Guoyue Chen Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat Frontiers in Plant Science Chinese endemic wheat stripe rust GWAS Tibetan semi-wild wheat Yunnan hulled wheat Xinjiang rice wheat |
| title | Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat |
| title_full | Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat |
| title_fullStr | Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat |
| title_full_unstemmed | Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat |
| title_short | Genome-Wide Association Study Reveals the Genetic Architecture of Stripe Rust Resistance at the Adult Plant Stage in Chinese Endemic Wheat |
| title_sort | genome wide association study reveals the genetic architecture of stripe rust resistance at the adult plant stage in chinese endemic wheat |
| topic | Chinese endemic wheat stripe rust GWAS Tibetan semi-wild wheat Yunnan hulled wheat Xinjiang rice wheat |
| url | https://www.frontiersin.org/article/10.3389/fpls.2020.00625/full |
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