Exploring Identity-By-Descent Segments and Putative Functions Using Different Foundation Parents in Maize

doi:10.1371/journal.pone.0168374

	Exploring Identity-By-Descent Segments and Putative Functions Using Different Foundation Parents in Maize
	Wu, Xun 1,2; Li, Yongxiang 1; Fu, Junjie 1; Li, Xin 1; Li, Chunhui 1; Zhang, Dengfeng 1; Shi, Yunsu 1; Song, Yanchun 1; Li, Yu 1; Wang, Tianyu 1
刊名	PLOS ONE
	2016
卷号	11 期号:12 页码:-
ISSN号	1932-6203
DOI	10.1371/journal.pone.0168374
通讯作者	Wu, Xun
英文摘要	Maize foundation parents (FPs) play no-alternative roles in hybrid breeding because they were widely used in the development of new lines and hybrids. The combination of different identity-by-descent (IBD) segments and genes could account for the formation patterns of different FPs, and knowledge of these IBD regions would provide an extensive foundation for the development of new candidate FP lines in future maize breeding. In this paper, a panel of 304 elite lines derived from FPs, i.e., B73, 207, Mo17, and Huangzaosi (HZS), was collected and analyzed using 43,252 single nucleotide polymorphism (SNP) markers. Most IBD segments specific to particular FP groups were identified, including 116 IBD segments in B73, 105 in Mo17, 111 in 207, and 190 in HZS. In these regions, 423 quantitative trait nucleotides (QTNs) associated with 15 agronomic traits and 804 candidate genes were identified. Some known adaptation-related genes, e.g., dwarf8 and vgtl in HZS, zcn8 and epc in Mo17, and ZmCCT in 207, were validated as being tightly linked to particular IBD segments. In addition, numerous new candidate genes were also identified. For example, GRMZM2G154278 in HZS, which belongs to the cell cycle control family, was closely linked to a QTN of the ear height/plant height (EH/PH) trait; GRMZM2G051943 in 207, which encodes an endochitinase precursor (EP) chitinase, was closely linked to a QTN for kernel density; and GRMZM2G170586 in Mo17 was closely linked to a QTN for ear diameter. Complex correlations among these genes were also found. Many IBD segments and genes were included in the formation of FP lines, and complex regulatory networks exist among them. These results provide new insights on the genetic basis of complex traits and provide new candidate IBD regions or genes for the improvement of special traits in maize production.
学科主题	Multidisciplinary Sciences
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000392842900038
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/105272]
专题	作物科学研究所_种质资源保存与研究中心
作者单位	1.Chinese Acad Agr Sci, Inst Crop Sci, Beijing, Peoples R China 2.Guizhou Inst Upland Food Crops, Guiyang, Guizhou, Peoples R China
推荐引用方式 GB/T 7714	Wu, Xun,Li, Yongxiang,Fu, Junjie,et al. Exploring Identity-By-Descent Segments and Putative Functions Using Different Foundation Parents in Maize[J]. PLOS ONE,2016,11(12):-.
APA	Wu, Xun.,Li, Yongxiang.,Fu, Junjie.,Li, Xin.,Li, Chunhui.,...&Wang, Tianyu.(2016).Exploring Identity-By-Descent Segments and Putative Functions Using Different Foundation Parents in Maize.PLOS ONE,11(12),-.
MLA	Wu, Xun,et al."Exploring Identity-By-Descent Segments and Putative Functions Using Different Foundation Parents in Maize".PLOS ONE 11.12(2016):-.