Dengan Xu , Chenfei Jia , Xinru Lyu , Tingzhi Yang , Huimin Qin , Yalin Wang , Qianlin Hao , Wenxing Liu , Xuehuan Dai , Jianbin Zeng , Hongsheng Zhang , Xianchun Xia , Zhonghu He , Shuanghe Cao , Wujun Ma
{"title":"面包小麦株高QTL富集簇的计算机调控及候选基因鉴定","authors":"Dengan Xu , Chenfei Jia , Xinru Lyu , Tingzhi Yang , Huimin Qin , Yalin Wang , Qianlin Hao , Wenxing Liu , Xuehuan Dai , Jianbin Zeng , Hongsheng Zhang , Xianchun Xia , Zhonghu He , Shuanghe Cao , Wujun Ma","doi":"10.1016/j.cj.2023.05.007","DOIUrl":null,"url":null,"abstract":"<div><p>Many genetic loci for wheat plant height (PH) have been reported, and 26 dwarfing genes have been catalogued. To identify major and stable genetic loci for PH, here we thoroughly summarized these functionally or genetic verified dwarfing loci from QTL linkage analysis and genome-wide association study published from 2003 to 2022. A total of 332 QTL, 270 GWAS loci and 83 genes for PH were integrated onto chromosomes according to their locations in the IWGSC RefSeq v2.1 and 65 QTL-rich clusters (QRC) were defined. Candidate genes in each QRC were predicted based on IWGSC Annotation v2.1 and the information on functional validation of homologous genes in other species. A total of 38 candidate genes were predicted for 65 QRC including three <em>GA2ox</em> genes in QRC-4B-IV, QRC-5A-VIII and QRC-6A-II (<em>Rht24</em>) as well as <em>GA 20-oxidase 2</em> (<em>TaSD1-3A</em>) in QRC-3A-IV. These outcomes lay concrete foundations for map-based cloning of wheat dwarfing genes and application in breeding.</p></div>","PeriodicalId":10790,"journal":{"name":"Crop Journal","volume":null,"pages":null},"PeriodicalIF":6.0000,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"1","resultStr":"{\"title\":\"In silico curation of QTL-rich clusters and candidate gene identification for plant height of bread wheat\",\"authors\":\"Dengan Xu , Chenfei Jia , Xinru Lyu , Tingzhi Yang , Huimin Qin , Yalin Wang , Qianlin Hao , Wenxing Liu , Xuehuan Dai , Jianbin Zeng , Hongsheng Zhang , Xianchun Xia , Zhonghu He , Shuanghe Cao , Wujun Ma\",\"doi\":\"10.1016/j.cj.2023.05.007\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><p>Many genetic loci for wheat plant height (PH) have been reported, and 26 dwarfing genes have been catalogued. To identify major and stable genetic loci for PH, here we thoroughly summarized these functionally or genetic verified dwarfing loci from QTL linkage analysis and genome-wide association study published from 2003 to 2022. A total of 332 QTL, 270 GWAS loci and 83 genes for PH were integrated onto chromosomes according to their locations in the IWGSC RefSeq v2.1 and 65 QTL-rich clusters (QRC) were defined. Candidate genes in each QRC were predicted based on IWGSC Annotation v2.1 and the information on functional validation of homologous genes in other species. A total of 38 candidate genes were predicted for 65 QRC including three <em>GA2ox</em> genes in QRC-4B-IV, QRC-5A-VIII and QRC-6A-II (<em>Rht24</em>) as well as <em>GA 20-oxidase 2</em> (<em>TaSD1-3A</em>) in QRC-3A-IV. These outcomes lay concrete foundations for map-based cloning of wheat dwarfing genes and application in breeding.</p></div>\",\"PeriodicalId\":10790,\"journal\":{\"name\":\"Crop Journal\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":6.0000,\"publicationDate\":\"2023-10-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"1\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Crop Journal\",\"FirstCategoryId\":\"97\",\"ListUrlMain\":\"https://www.sciencedirect.com/science/article/pii/S2214514123000818\",\"RegionNum\":1,\"RegionCategory\":\"农林科学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"AGRONOMY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Crop Journal","FirstCategoryId":"97","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S2214514123000818","RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"AGRONOMY","Score":null,"Total":0}
In silico curation of QTL-rich clusters and candidate gene identification for plant height of bread wheat
Many genetic loci for wheat plant height (PH) have been reported, and 26 dwarfing genes have been catalogued. To identify major and stable genetic loci for PH, here we thoroughly summarized these functionally or genetic verified dwarfing loci from QTL linkage analysis and genome-wide association study published from 2003 to 2022. A total of 332 QTL, 270 GWAS loci and 83 genes for PH were integrated onto chromosomes according to their locations in the IWGSC RefSeq v2.1 and 65 QTL-rich clusters (QRC) were defined. Candidate genes in each QRC were predicted based on IWGSC Annotation v2.1 and the information on functional validation of homologous genes in other species. A total of 38 candidate genes were predicted for 65 QRC including three GA2ox genes in QRC-4B-IV, QRC-5A-VIII and QRC-6A-II (Rht24) as well as GA 20-oxidase 2 (TaSD1-3A) in QRC-3A-IV. These outcomes lay concrete foundations for map-based cloning of wheat dwarfing genes and application in breeding.
Crop JournalAgricultural and Biological Sciences-Agronomy and Crop Science
CiteScore
9.90
自引率
3.00%
发文量
638
审稿时长
41 days
期刊介绍:
The major aims of The Crop Journal are to report recent progresses in crop sciences including crop genetics, breeding, agronomy, crop physiology, germplasm resources, grain chemistry, grain storage and processing, crop management practices, crop biotechnology, and biomathematics.
The regular columns of the journal are Original Research Articles, Reviews, and Research Notes. The strict peer-review procedure will guarantee the academic level and raise the reputation of the journal. The readership of the journal is for crop science researchers, students of agricultural colleges and universities, and persons with similar academic levels.