Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments
Drought is one of the key environmental factors affecting the growth and yield potential of rice. Grain shape, on the other hand, is an important factor determining the appearance, quality, and yield of rice grains. Here, we re-sequenced 275 <i>Xian</i> accessions and then conducted a ge...
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| Format: | Article |
| Language: | English |
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MDPI AG
2023-07-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/12/13/2549 |
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| author | Nansheng Wang Wanyang Zhang Xinchen Wang Zhenzhen Zheng Di Bai Keyang Li Xueyu Zhao Jun Xiang Zhaojie Liang Yingzhi Qian Wensheng Wang Yingyao Shi |
| author_facet | Nansheng Wang Wanyang Zhang Xinchen Wang Zhenzhen Zheng Di Bai Keyang Li Xueyu Zhao Jun Xiang Zhaojie Liang Yingzhi Qian Wensheng Wang Yingyao Shi |
| author_sort | Nansheng Wang |
| collection | DOAJ |
| description | Drought is one of the key environmental factors affecting the growth and yield potential of rice. Grain shape, on the other hand, is an important factor determining the appearance, quality, and yield of rice grains. Here, we re-sequenced 275 <i>Xian</i> accessions and then conducted a genome-wide association study (GWAS) on six agronomic traits with the 404,411 single nucleotide polymorphisms (SNPs) derived by the best linear unbiased prediction (BLUP) for each trait. Under two years of drought stress (DS) and normal water (NW) treatments, a total of 16 QTLs associated with rice grain shape and grain weight were detected on chromosomes 1, 2, 3, 4, 5, 7, 8, 11, and 12. In addition, these QTLs were analyzed by haplotype analysis and functional annotation, and one clone (<i>GSN1</i>) and five new candidate genes were identified in the candidate interval. The findings provide important genetic information for the molecular improvement of grain shape and weight in rice. |
| first_indexed | 2024-03-11T01:31:48Z |
| format | Article |
| id | doaj.art-eac13f027b344b3f9abb76349c7e2cf3 |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-11T01:31:48Z |
| publishDate | 2023-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-eac13f027b344b3f9abb76349c7e2cf32023-11-18T17:19:05ZengMDPI AGPlants2223-77472023-07-011213254910.3390/plants12132549Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different EnvironmentsNansheng Wang0Wanyang Zhang1Xinchen Wang2Zhenzhen Zheng3Di Bai4Keyang Li5Xueyu Zhao6Jun Xiang7Zhaojie Liang8Yingzhi Qian9Wensheng Wang10Yingyao Shi11College of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaInstitute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230000, ChinaDrought is one of the key environmental factors affecting the growth and yield potential of rice. Grain shape, on the other hand, is an important factor determining the appearance, quality, and yield of rice grains. Here, we re-sequenced 275 <i>Xian</i> accessions and then conducted a genome-wide association study (GWAS) on six agronomic traits with the 404,411 single nucleotide polymorphisms (SNPs) derived by the best linear unbiased prediction (BLUP) for each trait. Under two years of drought stress (DS) and normal water (NW) treatments, a total of 16 QTLs associated with rice grain shape and grain weight were detected on chromosomes 1, 2, 3, 4, 5, 7, 8, 11, and 12. In addition, these QTLs were analyzed by haplotype analysis and functional annotation, and one clone (<i>GSN1</i>) and five new candidate genes were identified in the candidate interval. The findings provide important genetic information for the molecular improvement of grain shape and weight in rice.https://www.mdpi.com/2223-7747/12/13/2549ricegrain shapeGWASQTLs |
| spellingShingle | Nansheng Wang Wanyang Zhang Xinchen Wang Zhenzhen Zheng Di Bai Keyang Li Xueyu Zhao Jun Xiang Zhaojie Liang Yingzhi Qian Wensheng Wang Yingyao Shi Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments Plants rice grain shape GWAS QTLs |
| title | Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments |
| title_full | Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments |
| title_fullStr | Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments |
| title_full_unstemmed | Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments |
| title_short | Genome-Wide Association Study of <i>Xian</i> Rice Grain Shape and Weight in Different Environments |
| title_sort | genome wide association study of i xian i rice grain shape and weight in different environments |
| topic | rice grain shape GWAS QTLs |
| url | https://www.mdpi.com/2223-7747/12/13/2549 |
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