Single nucleotide polymorphisms in the ectomycorrhizal mushroom Tricholoma matsutake
Xu, Jianping; Guo, Hong; Yang, Zhu-Liang
2007-07-01
发表期刊MICROBIOLOGY-SGM
ISSN1350-0872
卷号153期号:part 7页码:2002-2012
摘要Single nucleotide polymorphisms (SNPs) are becoming increasingly popular markers for studying a variety of biological phenomena. This paper describes the development and analysis of a set of SNIP markers for the basidiomycete fungus Tricholoma matsutake. T. matsutake is a gourmet mycorrhizal mushroom primarily associated with pine forests. However, little is known about its genetics and genomic variation, including SNIP variation. To identify and analyse SNPs in T matsutake, a genomic library was constructed and >72 000 nt were analysed from >200 random clones. Primers from 20 sequenced fragments were then designed to amplify and sequence > 10 000 bp sequences from the original strain, from which the genomic library was constructed, as well as another strain from >350 km away; both strains were from south-western China. These two strains had similar intra-strain SNP frequencies (1.104 and 1.278 % per nucleotide, respectively). The combined analysis revealed that 14 of the 20 examined fragments contained SNPs, ranging from two to 47 per fragment, and yielding a total of 178 SNPs out of the 10 428 sequenced nucleotides (an SNP frequency of 1.707 %). Among the 178 SNPs, one site had three alternative nucleotides, while the remaining 177 had two each, with 148 transitions and 29 transversions, resulting in a combined transition to transversion ratio of 5.1. In addition, the haplotype phases of all SNPs within individual fragments for both strains were determined. Phylogenetic analyses of these haplotypes revealed three kinds of haplotype relationship, including haplotype sharing both within and between strains. Furthermore, a subset of the SNPs detectable by restriction enzyme digests was screened for its distribution among 31 additional wild strains from five distinct locations in south-western China. The implications of these SNPs and haplotypes for our understanding of the genetics, population history, ecology and evolution of this important mushroom species are discussed.
关键词Long Terminal Repeat Pinus-densiflora Forest Candida-albicans Retroelement Evolution Sequence Markers Genome Fungus Mary1
学科领域Microbiology
DOI10.1099/mic.0.2006/005686-0
收录类别SCI
语种英语
WOS研究方向Microbiology
WOS类目Microbiology
WOS记录号WOS:000248154900002
引用统计
被引频次:23[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/2709
专题中国科学院东亚植物多样性与生物地理学重点实验室
作者单位1.Chinese Acad Sci, Kunming Inst Bot, Yunnan, Peoples R China
2.McMaster Univ, Dept Biol, Hamilton, ON L8S 4L8, Canada
推荐引用方式
GB/T 7714
Xu, Jianping,Guo, Hong,Yang, Zhu-Liang. Single nucleotide polymorphisms in the ectomycorrhizal mushroom Tricholoma matsutake[J]. MICROBIOLOGY-SGM,2007,153(part 7):2002-2012.
APA Xu, Jianping,Guo, Hong,&Yang, Zhu-Liang.(2007).Single nucleotide polymorphisms in the ectomycorrhizal mushroom Tricholoma matsutake.MICROBIOLOGY-SGM,153(part 7),2002-2012.
MLA Xu, Jianping,et al."Single nucleotide polymorphisms in the ectomycorrhizal mushroom Tricholoma matsutake".MICROBIOLOGY-SGM 153.part 7(2007):2002-2012.
条目包含的文件
文件名称/大小 文献类型 版本类型 开放类型 使用许可
201111010050.pdf(207KB) 开放获取--请求全文
个性服务
推荐该条目
保存到收藏夹
查看访问统计
导出为Endnote文件
谷歌学术
谷歌学术中相似的文章
[Xu, Jianping]的文章
[Guo, Hong]的文章
[Yang, Zhu-Liang]的文章
百度学术
百度学术中相似的文章
[Xu, Jianping]的文章
[Guo, Hong]的文章
[Yang, Zhu-Liang]的文章
必应学术
必应学术中相似的文章
[Xu, Jianping]的文章
[Guo, Hong]的文章
[Yang, Zhu-Liang]的文章
相关权益政策
暂无数据
收藏/分享
所有评论 (0)
暂无评论
 

除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。