RNA-Seq and genetic diversity analysis of faba bean ( Vicia faba L.) varieties in China

PeerJ

article

Wanwei Hou¹  Xiaojuan Zhang³  Yuling Liu²  Yujiao Liu²  Bai li Feng¹ 

[1] College of Agronomy, Northwest A&F University;Qinghai Academy of Agricultural and Forestry Sciences, Qinghai University;College of Eco-Environmental Engineering, Qinghai Universit

关键词: Vicia faba L;    RNA-Seq;    Gene function analysis;    Simple sequence repeats (SSR) markers;   

DOI  :  10.7717/peerj.14259

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

BackgroundFaba bean (Vicia faba L) is one of the most important legumes in the world. However, there is relatively little genomic information available for this species owing to its large genome. The lack of data impedes the discovery of molecular markers and subsequent genetic research in faba bean. The objective of this study was to analyze the faba bean transcriptome, and to develop simple sequence repeat (SSR) markers to determine the genetic diversity of 226 faba bean varieties derived from different regions in China.MethodsFaba bean varieties with different phenotype were used in transcriptome analysis. The functions of the unigenes were analyzed using various database. SSR markers were developed and the polymorphic markers were selected to conduct genetic diversity analysis.ResultsA total of 92.43 Gb of sequencing data was obtained in this study, and 133,487 unigene sequences with a total length of 178,152,541 bp were assembled. A total of 5,200 SSR markers were developed on the basis of RNA-Seq analysis. Then, 200 SSR markers were used to evaluate polymorphisms. In total, 103 (51.5%) SSR markers showed significant and repeatable bands between different faba bean varieties. Clustering analysis revealed that 226 faba bean materials were divided into five groups. Genetic diversity analysis revealed that the relationship between different faba beans in China was related, especially in the same region. These results provided a valuable data resource for annotating genes to different categories and developing SSR markers.

【 授权许可】

CC BY