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Issue:ISSN 1000-7083
          CN 51-1193/Q
Director:Sichuan Association for Science and Technology
Sponsored by:Sichuan Society of Zoologists; Chengdu Giant Panda Breeding Research Foundation; Sichuan Association of Wildlife Conservation; Sichuan University
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Your Position :Home->Past Journals Catalog->2018 Vol.37 No.3

Population Genetic Structure and Geographic Differentiation of Saurogobio punctatus(Teleostei, Cypriniformes, Cyprinidae) in the Yangtze River Basin Based on Cytochrome b Gene Sequences
Author of the article:LI Xiaobing1,2, TANG Qiongying1, YU Dan1, LIU Huanzhang1*
Author's Workplace:1. The Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China;
2. University of the Chinese Academy of Sciences, Beijing 100049, China
Key Words:Saurogobio punctatus; Yangtze River basin; Cyt b; genetic structure; geographic differentiation
Abstract:The population genetic structure and geographic differentiation process of 3 Saurogobio punctatus populations from the Chishui River (one branch of the upper Yangtze River), the upper Yangtze River main stream, and the middle Yangtze River were studied based on mtDNA cytochrome b gene sequences of 303 individuals. The analyzed cytochrome b gene sequences were 1 097 bp in length, with 80 variable sites including 34 parsimony informative sites. A total of 49 haplotypes were identified from 303 individuals, which showed high haplotype diversity (Hd=0.803) and low nucleotide diversity (Pi=0.003 71), respectively. Based on haplotype dataset, phylogenetic trees which were constructed using neighbor-joining, maximum likelihood and Bayesian inference methods showed that all haplotypes from the middle Yangtze River clustered together and formed a monophyletic group. This group locates in the derived position of the phylogenetic trees, whereas haplotypes from the upper Yangtze River main stream and the Chishui River failed to form a monophyletic group with relative basal positions in the phylogenetic tree. Extensive gene flow might exist between populations of the upper Yangtze River main stream and Chishui River since many haplotypes were shared by them with a low genetic differentiation index (FST=0.029 4), indicating a close relationship. The FST values between the middle Yangtze River and Chishui River populations, and between the middle Yangtze River and the upper Yangtze River main stream populations were 0.614 0 and 0.706 0, respectively, indicating a high level differentiation. Neutral test and mismatch analysis showed that both the populations of upper Yangtze River main stream and Chishui River had experienced population expansion, but not in the middle Yangtze River population. Bayesian skyline plot (BSP) analysis showed that S. punctatus populations started the expansion from 0.20 Ma BP, and lasted until the end of the last interglacial period, the Marine Isotope Stage 5, then experienced a rapid expansion. According to BSP analysis and haplotype network, we inferred that the origination center of S. punctatus population may be the upper Yangtze River, and then gradually spread to the middle Yangtze River via population expansion, and eventually evolved into a distinct genetic population.
2018,37(3): 251-259 收稿日期:2015-11-25
陈宜瑜. 1998. 中国动物志 硬骨鱼纲 鲤形目(中卷)[M]. 北京:科学出版社:379-389.
丁淑荃, 万全, 李飞, 等. 2013. 斑点蛇精子结构研究[J]. 安徽农业大学学报, 40(6):959-963.
范启, 何舜平. 2014. 长江流域种群遗传多样性和遗传结构分析[J]. 水生生物学报, 38(4):627-635.
任泷, 吴金明, 李雷, 等. 2014. 赤水河中华倒刺鲃的形态分化及Cyt b基因序列比较研究[J]. 淡水渔业, 44(6):58-64.
田辉伍, 段辛斌, 汪登强, 等. 2013. 长江上游长薄鳅Cyt b基因的序列变异与遗传结构分析[J]. 淡水渔业, 43(6):12-18.
袁希平, 严莉, 徐树英, 等. 2008. 长江流域铜鱼和圆口铜鱼的遗传多样性[J]. 中国水产科学, 15(3):377-385.
Arundell K, Dunn A, Alexander J, et al. 2015. Enemy release and genetic founder effects in invasive killer shrimp populations of Great Britain[J]. Biological Invasions, 17(5):1439-1451.
Brooks TM, Cuttelod A, Faith DP, et al. 2015. Why and how might genetic and phylogenetic diversity be reflected in the identification of key biodiversity areas?[J]. Philosophical Transactions of the Royal Society B, 370:20140019. DOI:10.1098/rstb.2014.0019.
Brown WM, George M, Wilson AC. 1979. Rapid evolution of animal mitochondrial DNA[J]. Proceedings of the National Academy of Sciences of USA, 176(4):1967-1971.
Chen YF, He DK. 2002. Biodiversity in the Yangtze River basin fauna and distribution of fishes[J].Journal of Ichthyology, 42:161-171.
Cheng F, Li W, Castello L, et al. 2015a. Potential effects of dam cascade on fish:lessons from the Yangtze River[J]. Reviews in Fish Biology and Fisheries, 3:569-585.
Cheng F, Li W, Klopfer M, et al. 2015b. Population genetic structure and its implication for conservation of Coreius guichenoti in the upper Yangtze River[J]. Environmental Biology of Fishes, 98(9):1999-2007.
Chiu TH, Kuo CW, Lin HC, et al. 2015. Genetic diversity of ivory shell (Babylonia areolata) in Taiwan and identification of species using DNA-based assays[J]. Food Control, 48:108-116.
Drummond AJ, Suchard MA, Xie D, et al. 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7[J]. Molecular Biology and Evolution, 29:1969-1973.
Excoffier L, Lischer HEL. 2010. Arlequin suite ver 3.5:a new series of programs to perform population genetics analyses under Linux and Windows[J]. Molecular Ecology Resources, 10:564-567.
Goodall-Copestake WP, Tarling GA, Murphy EJ. 2012. On the comparison of population-level estimates of haplotype and nucleotide diversity:a case study using the gene cox1 in animals[J]. Heredity, 109:50-56.
Guindon S, Gascuel O. 2003. A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood[J]. Systematic Biology, 52:696-704.
Lakshmanan LK, Gruber J, Halliwell B, et al. 2015. Are mutagenic non D-loop direct repeat motifs in mitochondrial DNA under a negative selection pressure?[J]. Nucleic Acids Research, 43(8):4098-4108.
Larkin MA, Blackshields G, Brown NP, et al. 2007. Clustal W and clustal X version 2.0[J]. Bioinformatics, 23:2947-2948.
Patwardhan A, Ray S, Roy A. 2014. Molecular markers in phylogenetic studies-a review[J]. Phylogenetic and Evolutionary Biology, 2:131.Perdices A, Cunhaa C, Coelhoa MM. 2004. Phylogenetic structure of Zacco platypus (Teleostei, Cyprinidae) populations on the upper and middle Chang Jiang (=Yangtze) drainage inferred from cytochrome b sequences[J]. Molecular Phylogenetics and Evolution, 31(1):192-203.
Ramos-Onsins SE, Rozas J. 2002. Statistical properties of new neutrality tests against population growth[J]. Molecular Biology and Evolution, 19(12):2092-2100.
Ronquist F, Huelsenbeck JP. 2003. MrBayes 3:Bayesian phylogenetic inference under mixed models[J]. Bioinformatics, 19:1572-1574.
Swofford DL. 2002. PAUP*:phylogenetic analysis using parsimony (* and other methods), version 4[M]. Sunderland, Massachusetts:Sinauer Associates.
Tamura KG, Stecher D, Peterson AF, et al. 2013. MEGA6:molecular evolutionary genetics analysis version 6.0[J]. Molecular Biology and Evolution, 30:2725-2729.
Tang QY, Li XB, Yu D, et al. 2018. Saurogobio punctatus sp. nov., a new cyprinid gudgen (Teleostei:Cypriniformes) from the Yangtze River, based on both morphological and molecular data[J]. Journal of Fish Biology, 92(2):347-364.
Tao W, Jin XX, Xu TJ. 2013. The first complete mitochondrial genome from Bostrychus genus (Bostrychus sinensis) and partitioned Bayesian analysis of Eleotridae fish phylogeny[J]. Journal of Genetics, 92(2):247-257.
Thiel C, Tsukamoto S, Tokuyasud K, et al. 2015. Testing the application of quartz and feldspar luminescence dating to MIS 5 Japanese marine deposits[J]. Quaternary Geochronology, 29:16-29.
Wright S. 1978. Evolution and the genetics of populations volume 4:variability within and among natural populations[M]. Chicago:University of Chicago Press.
Yang M, Tian C, Liang XF, et al. 2014.Genetic structure and diversity in natural and stocked populations of the mandarin fish (Siniperca chuatsi) in China[J]. Genetics and Molecular Research, 14(2):5153-5160.
Zhang X, Gao X, Wang JW, et al. 2015. Extinction risk and conservation priority analyses for 64 endemic fishes in the upper Yangtze River, China[J]. Environmental Biology of Fishes, 98(1):261-272.
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