De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes

doi:10.1126/science.abg5289

GSTDTAP > 气候变化

DOI	10.1126/science.abg5289
	De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes
	Matthew B. Hufford; Arun S. Seetharam; Margaret R. Woodhouse; Kapeel M. Chougule; Shujun Ou; Jianing Liu; William A. Ricci; Tingting Guo; Andrew Olson; Yinjie Qiu; Rafael Della Coletta; Silas Tittes; Asher I. Hudson; Alexandre P. Marand; Sharon Wei; Zhenyuan Lu; Bo Wang; Marcela K. Tello-Ruiz; Rebecca D. Piri; Na Wang; Dong won Kim; Yibing Zeng; Christine H. O’Connor; Xianran Li; Amanda M. Gilbert; Erin Baggs; Ksenia V. Krasileva; John L. Portwood; Ethalinda K. S. Cannon; Carson M. Andorf; Nancy Manchanda; Samantha J. Snodgrass; David E. Hufnagel; Qiuhan Jiang; Sarah Pedersen; Michael L. Syring; David A. Kudrna; Victor Llaca; Kevin Fengler; Robert J. Schmitz; Jeffrey Ross-Ibarra; Jianming Yu; Jonathan I. Gent; Candice N. Hirsch; Doreen Ware; R. Kelly Dawe
	2021-08-06
发表期刊	Science
出版年	2021
英文摘要	Maize is an important crop that is cultivated worldwide. As maize spread across the world, selection for local environments resulted in variation, but the impact on differences between the genome has not been quantified. By producing high-quality genomic sequences of the 26 lines used in the maize nested association mapping panel, Hufford et al. map important traits and demonstrate the diversity of maize. Examining RNA and methylation of genes across accessions, the authors identified a core set of maize genes. Beyond this core set, comparative analysis across lines identified high levels of variation in the total set of genes, the maize pan-genome. The value of this resource was further exemplified by mapping quantitative traits of interest, including those related to pathogen resistance. Science , abg5289, this issue p. [655][1] We report de novo genome assemblies, transcriptomes, annotations, and methylomes for the 26 inbreds that serve as the founders for the maize nested association mapping population. The number of pan-genes in these diverse genomes exceeds 103,000, with approximately a third found across all genotypes. The results demonstrate that the ancient tetraploid character of maize continues to degrade by fractionation to the present day. Excellent contiguity over repeat arrays and complete annotation of centromeres revealed additional variation in major cytological landmarks. We show that combining structural variation with single-nucleotide polymorphisms can improve the power of quantitative mapping studies. We also document variation at the level of DNA methylation and demonstrate that unmethylated regions are enriched for cis-regulatory elements that contribute to phenotypic variation. [1]: /lookup/doi/10.1126/science.abg5289
领域	气候变化 ; 资源环境
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文献类型	期刊论文
条目标识符	http://119.78.100.173/C666/handle/2XK7JSWQ/335575
专题	气候变化资源环境科学
推荐引用方式 GB/T 7714	Matthew B. Hufford,Arun S. Seetharam,Margaret R. Woodhouse,et al. De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes[J]. Science,2021.
APA	Matthew B. Hufford.,Arun S. Seetharam.,Margaret R. Woodhouse.,Kapeel M. Chougule.,Shujun Ou.,...&R. Kelly Dawe.(2021).De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes.Science.
MLA	Matthew B. Hufford,et al."De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes".Science (2021).