Genome-Wide Association Study Identifies Candidate Genes That Affect Plant Height in Chinese Elite Maize (Zea mays L.) Inbred Lines

doi:10.1371/journal.pone.0029229

	Genome-Wide Association Study Identifies Candidate Genes That Affect Plant Height in Chinese Elite Maize (Zea mays L.) Inbred Lines
	Weng, Jianfeng; Xie, Chuanxiao; Hao, Zhuanfang; Wang, Jianjun; Liu, Changlin; Li, Mingshun; Zhang, Degui; Bai, Li; Zhang, Shihuang; Li, Xinhai
刊名	PLOS ONE
	2011
卷号	6 期号:12 页码:-
ISSN号	1932-6203
DOI	10.1371/journal.pone.0029229
通讯作者	Weng, Jianfeng
英文摘要	Background: The harvest index for many crops can be improved through introduction of dwarf stature to increase lodging resistance, combined with early maturity. The inbred line Shen5003 has been widely used in maize breeding in China as a key donor line for the dwarf trait. Also, one major quantitative trait locus (QTL) controlling plant height has been identified in bin 5.05-5.06, across several maize bi-parental populations. With the progress of publicly available maize genome sequence, the objective of this work was to identify the candidate genes that affect plant height among Chinese maize inbred lines with genome wide association studies (GWAS).Methods and Findings: A total of 284 maize inbred lines were genotyped using over 55,000 evenly spaced SNPs, from which a set of 41,101 SNPs were filtered with stringent quality control for further data analysis. With the population structure controlled in a mixed linear model (MLM) implemented with the software TASSEL, we carried out a genome-wide association study (GWAS) for plant height. A total of 204 SNPs (P <= 0.0001) and 105 genomic loci harboring coding regions were identified. Four loci containing genes associated with gibberellin (GA), auxin, and epigenetic pathways may be involved in natural variation that led to a dwarf phenotype in elite maize inbred lines. Among them, a favorable allele for dwarfing on chromosome 5 (SNP PZE-105115518) was also identified in six Shen5003 derivatives.Conclusions: The fact that a large number of previously identified dwarf genes are missing from our study highlights the discovery of the consistently significant association of the gene harboring the SNP PZE-105115518 with plant height (P = 8.91e-10) and its confirmation in the Shen5003 introgression lines. Results from this study suggest that, in the maize breeding schema in China, specific alleles were selected, that have played important roles in maize production.
学科主题	Multidisciplinary Sciences ; MULTIDISCIPLINARY SCIENCES
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000300676300039
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/5235]
专题	作物科学研究所_遗传育种系
作者单位	Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Improv, Beijing 100193, Peoples R China
推荐引用方式 GB/T 7714	Weng, Jianfeng,Xie, Chuanxiao,Hao, Zhuanfang,et al. Genome-Wide Association Study Identifies Candidate Genes That Affect Plant Height in Chinese Elite Maize (Zea mays L.) Inbred Lines[J]. PLOS ONE,2011,6(12):-.
APA	Weng, Jianfeng.,Xie, Chuanxiao.,Hao, Zhuanfang.,Wang, Jianjun.,Liu, Changlin.,...&Li, Xinhai.(2011).Genome-Wide Association Study Identifies Candidate Genes That Affect Plant Height in Chinese Elite Maize (Zea mays L.) Inbred Lines.PLOS ONE,6(12),-.
MLA	Weng, Jianfeng,et al."Genome-Wide Association Study Identifies Candidate Genes That Affect Plant Height in Chinese Elite Maize (Zea mays L.) Inbred Lines".PLOS ONE 6.12(2011):-.