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Population transcriptomic characterization of the genetic and expression variation of a candidate progenitor of Miscanthus energy crops

文献类型：期刊论文

作者Yan, Juan; Song, Zhihong4,6,7; Xu, Qin4,6; Kang, Lifang4,6; Zhu, Caiyun2,7; Xing, Shilai2,7; Liu, Wei4,6; Greimler, Josef3; Zuest, Tobias1; Li, Jianqiang
刊名MOLECULAR ECOLOGY
出版日期2017
卷号26期号:21页码:5911-5922
关键词gene expression Miscanthus nucleotide diversity population genetics transcriptome
ISSN号0962-1083
DOI10.3389/fpls.2017.00578
文献子类Article
英文摘要The use of transcriptome data in the study of the population genetics of a species can capture faint signals of both genetic variation and expression variation and can provide a broad picture of a species' genomic response to environmental conditions. In this study, we characterized the genetic and expression diversity of Miscanthus lutarioriparius by comparing more than 16,225 transcripts obtained from 78 individuals, belonging to 10 populations distributed across the species' entire geographic range. We only observed a low level of nucleotide diversity (pi = 0.000434) among the transcriptome data of these populations, which is consistent with highly conserved sequences of functional elements and protein-coding genes captured with this method. Tests of population divergence using the transcriptome data were consistent with previous microsatellite data but proved to be more sensitive, particularly if gene expression variation was considered as well. For example, the analysis of expression data showed that genes involved in photosynthetic processes and responses to temperature or reactive oxygen species stimuli were significantly enriched in certain populations. This differential gene expression was primarily observed among populations and not within populations. Interestingly, nucleotide diversity was significantly negatively correlated with expression diversity within populations, while this correlation was positive among populations. This suggests that genetic and expression variation play separate roles in adaptation and population persistence. Combining analyses of genetic and gene expression variation represents a promising approach for studying the population genetics of wild species and may uncover both adaptive and nonadaptive processes.
学科主题Plant Sciences
出版地HOBOKEN
电子版国际标准刊号1365-294X
WOS关键词WATER-USE EFFICIENCY ; RNA-SEQ DATA ; ALLELE FREQUENCY ; LOCAL ADAPTATION ; LOESS PLATEAU ; DIVERSITY ; SELECTION ; REVEALS ; DIFFERENTIATION ; DIVERGENCE
语种英语
WOS记录号WOS:000399370100001
出版者WILEY
资助机构National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31000147, 31400284, 41501418] ; Project for Autonomous Deployment of the Wuhan Botanical Garden [55Y755271G02]
源URL[http://ir.ibcas.ac.cn/handle/2S10CLM1/22196]  
专题植物研究所_系统与进化植物学研究中心_系统与进化植物学研究中心_学位论文
作者单位1.Univ Vienna, Dept Bot & Biodivers Res, Vienna, Austria
2.Univ Chinese Acad Sci, Beijing, Peoples R China
3.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China
4.Chinese Acad Sci, Wuhan Bot Garden, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan, Hubei, Peoples R China
5.Univ Bern, Inst Plant Sci, Bern, Switzerland
6.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing, Peoples R China
7.Chinese Acad Sci, Inst Bot, Beijing Bot Garden, Beijing, Peoples R China
推荐引用方式
GB/T 7714		 Yan, Juan,Song, Zhihong,Xu, Qin,et al. Population transcriptomic characterization of the genetic and expression variation of a candidate progenitor of Miscanthus energy crops[J]. MOLECULAR ECOLOGY,2017,26(21):5911-5922.
APA Yan, Juan.,Song, Zhihong.,Xu, Qin.,Kang, Lifang.,Zhu, Caiyun.,...&Sang, Tao.(2017).Population transcriptomic characterization of the genetic and expression variation of a candidate progenitor of Miscanthus energy crops.MOLECULAR ECOLOGY,26(21),5911-5922.
MLA Yan, Juan,et al."Population transcriptomic characterization of the genetic and expression variation of a candidate progenitor of Miscanthus energy crops".MOLECULAR ECOLOGY 26.21(2017):5911-5922.

入库方式： OAI收割

来源：植物研究所

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