Dataset Information

Genetic diversity and population structure of Rheum tanguticum (Dahuang) in China.

ABSTRACT: BACKGROUND:Wild Rheum tanguticum (Dahuang in Chinese) has becoming endangered in China. This study aims to examine the genetic structure and genetic diversity of R. tanguticum within species, and the genetic differentiation within and among populations in China. METHODS:The variability and structure of 19 populations of R. tanguticum were investigated by their chloroplast DNA matK sequences. The genetic diversity index was calculated by Dnasp, PERMUT, and Arlequin 3.0 software, and a neighbor-joining (NJ)-tree was constructed by MEGA 5.0 software. RESULTS:Fifteen haplotypes were obtained based on the matK sequence analysis. The mean genetic diversity within species was 0.894, and the genetic variability among populations (67.6%) was relatively higher than that within populations (13.88%) according to the AMOVA and PERMUT analyses. The NJ-tree and a pairwise difference analysis indicated geographical isolation of R. tanguticum. The gene flow among populations was 0.05, indicating a genetic drift among some populations, which was also confirmed by the NJ-tree and haplotype distributions. Furthermore, a mismatch distribution analysis revealed the molecular evolution of R. tanguticum. CONCLUSION:Genetic diversity among and within populations of R. tanguticum in China was demonstrated.

SUBMITTER: Zhang X

PROVIDER: S-EPMC4223855 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature

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Genetic diversity and population structure of Rheum tanguticum (Dahuang) in China.

Zhang Xiaoqin X Liu Ying Y Gu Xuan X Guo Zhengzheng Z Li Li L Song Xiaona X Liu Siqi S Zang Yimei Y Li Yanpeng Y Liu Chunsheng C Wei Shengli S

Chinese medicine 20141103 1

<h4>Background</h4>Wild Rheum tanguticum (Dahuang in Chinese) has becoming endangered in China. This study aims to examine the genetic structure and genetic diversity of R. tanguticum within species, and the genetic differentiation within and among populations in China.<h4>Methods</h4>The variability and structure of 19 populations of R. tanguticum were investigated by their chloroplast DNA matK sequences. The genetic diversity index was calculated by Dnasp, PERMUT, and Arlequin 3.0 software, an ...[more]

PMID: 25383092

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Project description:In Central China the declining incidence of Plasmodium vivax has been interrupted by epidemic expansions and imported cases. The impact of these changes on the local parasite population, and concurrent risks of future resurgence, was assessed.Plasmodium vivax isolates collected from Anhui and Jiangsu provinces, Central China between 2007 and 2010 were genotyped using capillary electrophoresis at seven polymorphic short tandem repeat markers. Spatial and temporal analyses of within-host and population diversity, population structure, and relatedness were conducted on these isolates.Polyclonal infections were infrequent in the 94 isolates from Anhui (4%) and 25 from Jiangsu (12%), with a trend for increasing frequency from 2008 to 2010 (2 to 19%) when combined. Population diversity was high in both provinces and across the years tested (H(E)?=?0.8 - 0.85). Differentiation between Anhui and Jiangsu was modest (F'(ST)?=?0.1). Several clusters of isolates with identical multi-locus haplotypes were observed across both Anhui and Jiangsu. Linkage disequilibrium was strong in both populations and in each year tested (I(A)(S)?=?0.2 - 0.4), but declined two- to four-fold when identical haplotypes were accounted for, indicative of occasional epidemic transmission dynamics. None of five imported isolates shared identical haplotypes to any of the central Chinese isolates.The population genetic structure of P. vivax in Central China highlights unstable transmission, with limited barriers to gene flow between the central provinces. Despite low endemicity, population diversity remained high, but the reservoirs sustaining this diversity remain unclear. The challenge of imported cases and risks of resurgence emphasize the need for continued surveillance to detect early warning signals. Although parasite genotyping has potential to inform the management of outbreaks, further studies are required to identify suitable marker panels for resolving local from imported P. vivax isolates.

Dataset Information

Genetic diversity and population structure of Rheum tanguticum (Dahuang) in China.

Publications

Genetic diversity and population structure of Rheum tanguticum (Dahuang) in China.

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