Survey and analysis of simple sequence repeats in the Ustilaginoidea virens genome and the development of microsatellite markers

被引：12

作者：

Yu, Mina ^{[1
,2
]}

Yu, Junjie ^{[1
]}

Li, Huanhuan ^{[1
]}

Wang, Yahui ^{[1
]}

Yin, Xiaole ^{[1
]}

Bo, Huiwen ^{[1
,3
]}

Ding, Hui ^{[1
,3
]}

Zhou, Yuxin ^{[1
]}

Liu, Yongfeng ^{[1
,2
]}

机构：

[1] Jiangsu Acad Agr Sci, Inst Plant Protect, Zhongling St 50, Nanjing 210014, Jiangsu, Peoples R China

[2] Jiangsu Acad Agr Sci, Key Lab Food Qual & Safety Jiangsu Prov, State Key Lab Breeding Base, Nanjing 210014, Jiangsu, Peoples R China

[3] Nanjing Agr Univ, Life Sci Coll, Nanjing 210095, Jiangsu, Peoples R China

来源：

GENE | 2016年 / 585卷 / 01期

基金：

中国国家自然科学基金;

关键词：

Ustilaginoidea virens; Simple sequence repeats; Genome; FALSE SMUT FUNGUS; GENETIC DIVERSITY; VILLOSICLAVA-VIRENS; SSR MARKERS; IDENTIFICATION;

D O I：

10.1016/j.gene.2016.03.016

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Ustilaginoidea virens is the causal agent of rice false smut, causing quantitative and qualitative losses in rice industry. However, the development and application of simple sequence repeat (SSR) markers for genetic diversity studies in U. virens were limited. This study is the first to perform large-scale development of SSR markers of this pathogen at the genome level, to (1) compare these SSR markers with those of other fungi, (2) analyze the pattern of the SSRs, and (3) obtain more informative genetic markers. U. virens is rich in SSRs, and 13,778 SSRs were identified with a relative abundance of 349.7 SSRs/Mb. The most common motifs in the genome or in noncoding regions were mononucleotides, whereas trinucleotides in coding sequences. A total of 6 out of 127 primers were randomly selected to be used to analyze 115 isolates, and these 6 primers showed high polymorphism in U. virens. This study may serve as an important resource for molecular genetic studies in U. virens. (C) 2016 Elsevier B.V. All rights reserved.

引用

页码：28 / 34

页数：7

共 31 条

[1] Genome Wide Characterization of Short Tandem Repeat Markers in Sweet Orange (Citrus sinensis) [J].