KIB OpenIR  > 中国西南野生生物种质资源库
Phylogenomic Analyses of Nuclear Genes Reveal the Evolutionary Relationships within the BEP Clade and the Evidence of Positive Selection in Poaceae
Zhao, Lei1,2; Zhang, Ning3; Ma, Peng-Fei1,2; Liu, Qi4; Li, De-Zhu1,2; Guo, Zhen-Hua1,2
2013-05-29
发表期刊PLOS ONE
ISSN1932-6203
卷号8期号:5页码:e64642
摘要BEP clade of the grass family (Poaceae) is composed of three subfamilies, i.e. Bambusoideae, Ehrhartoideae, and Pooideae. Controversies on the phylogenetic relationships among three subfamilies still persist in spite of great efforts. However, previous evidence was mainly provided from plastid genes with only a few nuclear genes utilized. Given different evolutionary histories recorded by plastid and nuclear genes, it is indispensable to uncover their relationships based on nuclear genes. Here, eleven species with whole-sequenced genome and six species with transcriptomic data were included in this study. A total of 121 one-to-one orthologous groups (OGs) were identified and phylogenetic trees were reconstructed by different tree-building methods. Genes which might have undergone positive selection and played important roles in adaptive evolution were also investigated from 314 and 173 one-to-one OGs in two bamboo species and 14 grass species, respectively. Our results support the ((B, P) E) topology with high supporting values. Besides, our findings also indicate that 24 and nine orthologs with statistically significant evidence of positive selection are mainly involved in abiotic and biotic stress response, reproduction and development, plant metabolism and enzyme etc. from two bamboo species and 14 grass species, respectively. In summary, this study demonstrates the power of phylogenomic approach to shed lights on the evolutionary relationships within the BEP clade, and offers valuable insights into adaptive evolution of the grass family.
关键词Rna-recognition Motif Translation Initiation-factor Multiple Sequence Alignment Protein-coding Sequences Likelihood Ratio Tests Grass Family Poaceae Arabidopsis-thaliana Adaptive Evolution Molecular Evolution Plant Phylogenetics
资助信息Knowledge Innovation Project of the Chinese Academy of Sciences [KSCX2-YW-N-067]; National Natural Science Foundation of China [30990244]; NSFC-Yunnan province joint foundation [U1136603]; Scientific Research Foundation for the Returned Overseas Chinese Scholars; State Education Ministry and the Young Academic and Technical Leader Raising Foundation of Yunnan Province [2008PY065]
学科领域Multidisciplinary Sciences
DOI10.1371/journal.pone.0064642
收录类别SCI
语种英语
WOS研究方向Science & Technology - Other Topics
WOS类目Multidisciplinary Sciences
WOS记录号WOS:000319725500056
引用统计
被引频次:14[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/151853/16627
专题中国西南野生生物种质资源库
作者单位1.Chinese Acad Sci, Kunming Inst Bot, Key Lab Biodivers & Biogeog, Kunming, Yunnan, Peoples R China
2.Chinese Acad Sci, Kunming Inst Bot, Plant Germplasm & Genom Ctr, Germplasm Bank Wild Species, Kunming, Yunnan, Peoples R China
3.Penn State Univ, Dept Biol, University Pk, PA 16802 USA
4.Wenzhou Med Coll, Inst Genom Med, Wenzhou, Zhejiang, Peoples R China
推荐引用方式
GB/T 7714
Zhao, Lei,Zhang, Ning,Ma, Peng-Fei,et al. Phylogenomic Analyses of Nuclear Genes Reveal the Evolutionary Relationships within the BEP Clade and the Evidence of Positive Selection in Poaceae[J]. PLOS ONE,2013,8(5):e64642.
APA Zhao, Lei,Zhang, Ning,Ma, Peng-Fei,Liu, Qi,Li, De-Zhu,&Guo, Zhen-Hua.(2013).Phylogenomic Analyses of Nuclear Genes Reveal the Evolutionary Relationships within the BEP Clade and the Evidence of Positive Selection in Poaceae.PLOS ONE,8(5),e64642.
MLA Zhao, Lei,et al."Phylogenomic Analyses of Nuclear Genes Reveal the Evolutionary Relationships within the BEP Clade and the Evidence of Positive Selection in Poaceae".PLOS ONE 8.5(2013):e64642.
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
2013072413.pdf(1078KB) 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
[Zhao, Lei]的文章
[Zhang, Ning]的文章
[Ma, Peng-Fei]的文章
百度学术
百度学术中相似的文章
[Zhao, Lei]的文章
[Zhang, Ning]的文章
[Ma, Peng-Fei]的文章
必应学术
必应学术中相似的文章
[Zhao, Lei]的文章
[Zhang, Ning]的文章
[Ma, Peng-Fei]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。