Quantifying the human vaginal community state types (CSTs) with the species specificity index

CORC > 昆明动物研究所 > 昆明动物研究所 > 遗传资源与进化国家重点实验室

	Quantifying the human vaginal community state types (CSTs) with the species specificity index
	Li LW; ma@vandals.uidaho.edu; Ma ZS*
刊名	PeeJ
	2017
卷号	5 期号:X 页码:e3366
关键词	Community Diversity Community State Type (Cst) Human Vaginal Microbial Community Species Specificity Specificity Aggregation Index
英文摘要	The five community state types (CSTs) first identified by Ravel et al. (2011) offered a powerful scheme to classify the states of human vaginal microbial communities (HVMC). The classification is a significant advance because it devised an effective handle to deal with the enormous inter-subject heterogeneity and/or intra-subject temporal variability, the quantification of which is extremely difficult but of critical importance such as the understanding of BV (bacterial vaginosis) etiology. Indeed, arguably the most plausible ecological hypothesis for interpreting the BV etiology heavily depends on the CST classification (Gajer et al., 2012; Ma, Forney & Ravel, 2012; Ravel et al., 2011). Nevertheless, the current form of CSTs is still qualitative and lacks a quantitative criterion to determine the CSTs. In this article, we develop a quantitative tool that can reliably distinguish the CSTs by applying the species specificity of Mariadassou, Pichon & Ebert (2015) and the specificity aggregation index (SAI) we propose in this study. The new tool accurately characterized the classifications of the five CSTs with both 400-crosssectional cohort (Ravel et al., 2011) and 32-longitudinal cohort (Gajer et al., 2012) studies originally utilized to develop the CST scheme. Furthermore, it offers a mechanistic interpretation of the original CST scheme by invoking the paradigm of specificity continuum for species adaptation and distribution. The advances we made may not only facilitate the accurate applications of the CST scheme, but also offer hints towards an effective tool for microbiome typing such as classifying gut enterotypes.
语种	英语
资助机构	ThisresearchreceivedfundingfromtheNationalScienceFoundationofChina(GrantsNo. 61175071, 71473243), Open Grant (GREKF14-06) of the State Key Laboratory of Genetic Resources and Evolution, The Exceptional Scientists Program and Top Oversea Scholars Program of Yunnan Province, and The Yun-Ridge Industrial Leadership Foundation. ; ThisresearchreceivedfundingfromtheNationalScienceFoundationofChina(GrantsNo. 61175071, 71473243), Open Grant (GREKF14-06) of the State Key Laboratory of Genetic Resources and Evolution, The Exceptional Scientists Program and Top Oversea Scholars Program of Yunnan Province, and The Yun-Ridge Industrial Leadership Foundation. ; ThisresearchreceivedfundingfromtheNationalScienceFoundationofChina(GrantsNo. 61175071, 71473243), Open Grant (GREKF14-06) of the State Key Laboratory of Genetic Resources and Evolution, The Exceptional Scientists Program and Top Oversea Scholars Program of Yunnan Province, and The Yun-Ridge Industrial Leadership Foundation. ; ThisresearchreceivedfundingfromtheNationalScienceFoundationofChina(GrantsNo. 61175071, 71473243), Open Grant (GREKF14-06) of the State Key Laboratory of Genetic Resources and Evolution, The Exceptional Scientists Program and Top Oversea Scholars Program of Yunnan Province, and The Yun-Ridge Industrial Leadership Foundation.
内容类型	期刊论文
源URL	[http://159.226.149.26:8080/handle/152453/11788]
专题	昆明动物研究所_遗传资源与进化国家重点实验室昆明动物研究所_计算生物与生物信息学
通讯作者	ma@vandals.uidaho.edu
作者单位	Computational Biology and Medical Ecology Lab, State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, China
推荐引用方式 GB/T 7714	Li LW,ma@vandals.uidaho.edu,Ma ZS*. Quantifying the human vaginal community state types (CSTs) with the species specificity index[J]. PeeJ,2017,5(X):e3366.
APA	Li LW,ma@vandals.uidaho.edu,&Ma ZS*.(2017).Quantifying the human vaginal community state types (CSTs) with the species specificity index.PeeJ,5(X),e3366.
MLA	Li LW,et al."Quantifying the human vaginal community state types (CSTs) with the species specificity index".PeeJ 5.X(2017):e3366.