Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda

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	Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda
	Wu, Shu 1,2; Xiong, Jie 1; Yu, Yuhe 1
刊名	PLOS ONE
	2015-06-24
卷号	10 期号:6 页码:e0131498
ISSN号	1932-6203
通讯作者	Yu, YH (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China.
英文摘要	Biodiversity studies are commonly conducted using 18S rRNA genes. In this study, we compared the inter-species divergence of variable regions (V1-9) within the copepod 18S rRNA gene, and tested their taxonomic resolutions at different taxonomic levels. Our results indicate that the 18S rRNA gene is a good molecular marker for the study of copepod biodiversity, and our conclusions are as follows: 1) 18S rRNA genes are highly conserved intraspecies (intra-species similarities are close to 100%); and could aid in species-level analyses, but with some limitations; 2) nearly-whole-length sequences and some partial regions (around V2, V4, and V9) of the 18S rRNA gene can be used to discriminate between samples at both the family and order levels (with a success rate of about 80%); 3) compared with other regions, V9 has a higher resolution at the genus level (with an identification success rate of about 80%); and 4) V7 is most divergent in length, and would be a good candidate marker for the phylogenetic study of Acartia species. This study also evaluated the correlation between similarity thresholds and the accuracy of using nuclear 18S rRNA genes for the classification of organisms in the subclass Copepoda. We suggest that sample identification accuracy should be considered when a molecular sequence divergence threshold is used for taxonomic identification, and that the lowest similarity threshold should be determined based on a pre-designated level of acceptable accuracy.
WOS标题词	Science & Technology
类目[WOS]	Multidisciplinary Sciences
研究领域[WOS]	Science & Technology - Other Topics
关键词[WOS]	INTERNAL TRANSCRIBED SPACER ; MITOCHONDRIAL-DNA SEQUENCES ; SPECIES DELIMITATION ; PHYLOGENETIC-RELATIONSHIPS ; CRUSTACEA COPEPODA ; MOLECULAR-DATA ; BIODIVERSITY ASSESSMENT ; EUKARYOTIC DIVERSITY ; BAYESIAN-INFERENCE ; RDNA
收录类别	SCI
语种	英语
WOS记录号	WOS:000356932500164
内容类型	期刊论文
源URL	[http://ir.ihb.ac.cn/handle/342005/23847]
专题	水生生物研究所_淡水生态学研究中心_期刊论文
作者单位	1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Wu, Shu,Xiong, Jie,Yu, Yuhe. Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda[J]. PLOS ONE,2015,10(6):e0131498.
APA	Wu, Shu,Xiong, Jie,&Yu, Yuhe.(2015).Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda.PLOS ONE,10(6),e0131498.
MLA	Wu, Shu,et al."Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda".PLOS ONE 10.6(2015):e0131498.