Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines

doi:10.1186/s12864-016-2555-z

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	Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines
	Zhou, Zhiqiang 1; Zhang, Chaoshu 2; Zhou, Yu 2; Hao, Zhuanfang 1; Wang, Zhenhua 2; Zeng, Xing 2; Di, Hong 2; Li, Mingshun 1; Zhang, Degui 1; Yong, Hongjun 1
刊名	BMC GENOMICS
	2016
卷号	17 页码:-
关键词	Maize Ultra-high density bin map Plant architecture Genotyping by sequencing Quantitative trait loci
ISSN号	1471-2164
DOI	10.1186/s12864-016-2555-z
通讯作者	Zhou, Zhiqiang
英文摘要	Background: Plant architecture attributes, such as plant height, ear height, and internode number, have played an important role in the historical increases in grain yield, lodging resistance, and biomass in maize (Zea mays L.). Analyzing the genetic basis of variation in plant architecture using high density QTL mapping will be of benefit for the breeding of maize for many traits. However, the low density of molecular markers in existing genetic maps has limited the efficiency and accuracy of QTL mapping. Genotyping by sequencing (GBS) is an improved strategy for addressing a complex genome via next-generation sequencing technology. GBS has been a powerful tool for SNP discovery and high-density genetic map construction. The creation of ultra-high density genetic maps using large populations of advanced recombinant inbred lines (RILs) is an efficient way to identify QTL for complex agronomic traits.Results: A set of 314 RILs derived from inbreds Ye478 and Qi319 were generated and subjected to GBS. A total of 137,699,000 reads with an average of 357,376 reads per individual RIL were generated, which is equivalent to approximately 0.07-fold coverage of the maize B73 RefGen_V3 genome for each individual RIL. A high-density genetic map was constructed using 4183 bin markers (100-Kb intervals with no recombination events). The total genetic distance covered by the linkage map was 1545.65 cM and the average distance between adjacent markers was 0.37 cM with a physical distance of about 0.51 Mb. Our results demonstrated a relatively high degree of collinearity between the genetic map and the B73 reference genome. The quality and accuracy of the bin map for QTL detection was verified by the mapping of a known gene, pericarp color 1 (P1), which controls the color of the cob, with a high LOD value of 80.78 on chromosome 1. Using this high-density bin map, 35 QTL affecting plant architecture, including 14 for plant height, 14 for ear height, and seven for internode number were detected across three environments. Interestingly, pQTL10, which influences all three of these traits, was stably detected in three environments on chromosome 10 within an interval of 14.6 Mb. Two MYB transcription factor genes, GRMZM2G325907 and GRMZM2G108892, which might regulate plant cell wall metabolism are the candidate genes for qPH10.Conclusions: Here, an ultra-high density accurate linkage map for a set of maize RILs was constructed using a GBS strategy. This map will facilitate identification of genes and exploration of QTL for plant architecture in maize. It will also be helpful for further research into the mechanisms that control plant architecture while also providing a basis for marker-assisted selection.
学科主题	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
出版者	BIOMED CENTRAL LTD
WOS记录号	WOS:000371595000004
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/4564]
专题	作物科学研究所_职能部门
作者单位	1.Chinese Acad Agr Sci, Inst Crop Sci, Zhongguancun South St, Beijing 100081, Peoples R China 2.Northeast Agr Univ, Coll Agron, Mucai St, Harbin 150030, Heilongjiang, Peoples R China
推荐引用方式 GB/T 7714	Zhou, Zhiqiang,Zhang, Chaoshu,Zhou, Yu,et al. Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines[J]. BMC GENOMICS,2016,17:-.
APA	Zhou, Zhiqiang.,Zhang, Chaoshu.,Zhou, Yu.,Hao, Zhuanfang.,Wang, Zhenhua.,...&Li, Xinhai.(2016).Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines.BMC GENOMICS,17,-.
MLA	Zhou, Zhiqiang,et al."Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines".BMC GENOMICS 17(2016):-.