作者
Peng Zhou, Kevin AT Silverstein, Thiruvarangan Ramaraj, Joseph Guhlin, Roxanne Denny, Junqi Liu, Andrew D Farmer, Kelly P Steele, Robert M Stupar, Jason R Miller, Peter Tiffin, Joann Mudge, Nevin D Young
发表日期
2017/12
期刊
BMC genomics
卷号
18
页码范围
1-14
出版商
BioMed Central
简介
Background
Previous studies exploring sequence variation in the model legume, Medicago truncatula, relied on mapping short reads to a single reference. However, read-mapping approaches are inadequate to examine large, diverse gene families or to probe variation in repeat-rich or highly divergent genome regions. De novo sequencing and assembly of M. truncatula genomes enables near-comprehensive discovery of structural variants (SVs), analysis of rapidly evolving gene families, and ultimately, construction of a pan-genome.
Results
Genome-wide synteny based on 15 de novo M. truncatula assemblies effectively detected different types of SVs indicating that as much as 22% of the genome is involved in large structural changes, altogether affecting 28% of gene models. A total of 63 million base pairs (Mbp) of novel sequence was discovered …
学术搜索中的文章
P Zhou, KAT Silverstein, T Ramaraj, J Guhlin, R Denny… - BMC genomics, 2017