Analysis of chloroplast genome and its characteristics of medicinal plant Sophora flavescens
10.16438/j.0513-4870.2019-0564
- VernacularTitle:药用植物苦参的叶绿体基因组及其特征分析
- Author:
Yong-gang QIAO
1
;
Jia-xin HE
1
;
Yong-fei WANG
1
;
Ya-ping CAO
1
;
Meng-jun JIA
1
;
Xin-rui ZHANG
1
;
Jian-ping LIANG
1
;
Yun SONG
1
Author Information
1. College of Life Sciences, Shanxi Agricultural University, Taigu 030801, China
- Publication Type:Research Article
- Keywords:
italic>Sophora flavescens;
chloroplast genome;
SSR;
codon preference;
comparative genomics;
phylogenetic analysis
- From:
Acta Pharmaceutica Sinica
2019;54(11):2106-2112
- CountryChina
- Language:Chinese
-
Abstract:
In order to explore the chloroplast genome characteristics of Sophora flavescens and the phylogenetic relationship of the genus, this study used high-throughput sequencing technology to sequence and functionally annotate the chloroplast genome of Sophora flavescens. The results showed that the full length 154 165 bp of Sophora flavescens chloroplast genome showed a typical four-stage structure. The chloroplast genome contains 123 genes, including 77 protein-coding genes, 38 tRNA genes and 8 rRNA genes. Sequence analysis revealed 104 SSR loci, most of which consisted of A and T. In addition, the chloroplast genome codon preference is weak, and the coding region is biased towards the use of A and T bases. A comparative analysis of two different regions of Sophora flavescens chloroplast genome revealed four differential genes. Based on the maximum likelihood method (ML) for phylogenetic analysis of Sophora flavescens and 16 other leguminous, it was found that the relationship between Sophora flavescens and the genus Sophora alopecuroides is the closest. This study provides an important theoretical basis for the genetic variation, breeding and phylogenetic analysis of Sophora flavescens, and has certain reference value.
