Skip to main content

Advertisement

SpringerLink
Log in

Microsatellite DNA variation among samples of bronze gudgeon, Coreius heterodon, in the mainstem of the Yangtze River, China

  • Full Paper
  • Published:
Ichthyological Research Aims and scope Submit manuscript

Abstract

Bronze gudgeon, Coreius heterodon, is an endemic and economically important fish in the Yangtze River, whose abundance has declined dramatically because of dam construction, overfishing, and water pollution. The Gezhouba and Three Gorges dams block connection of the bronze gudgeon populations above and below the dams. We collected bronze gudgeon from four sites in the mainstem of the Yangtze River, with one site above the dams and three sites below the dams, and studied genetic structure within and among the samples using 12 microsatellite DNA markers. Differences in indexes of genetic diversity were not significant among all the samples. No recent dramatic decrease of effective population size was inferred for all the samples using the population bottleneck test. Overall and pairwise genetic differentiation showed no significant genetic differentiation. Membership proportions of three genetic clusters inferred using assignment analysis were not significantly different among the samples. These results suggested that the genetic diversity and structure of bronze gudgeon were uniform across the samples. However, the Hardy–Weinberg equilibrium test, fixation index and linkage disequilibrium test indicated genetic subdivision of bronze gudgeon in the upper reach of the Three Gorges Dam. The present study and future studies including tributary samples will provide an important baseline of genetic diversity and population structure of bronze gudgeon in the Yangtze River, which is critical for monitoring and evaluating impacts of the large-scale dams on this species.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

References

  • Benjamini Y, Yekutieli D (2001) The control of false discovery rate under dependency. Ann Stat 29:1165–1188

    Google Scholar 

  • Brown KH (2008) Fish mitochondrial genomics: sequence, inheritance and functional variation. J Fish Biol 72:355–374

    Google Scholar 

  • Chen DQ, Liu SP, Duan XB, Xiong F (2002) Characteristics of fishery biology of major economically important fish species in the middle and upper Yangtze. Acta Hydrobiol Sin 26:618–623

    Google Scholar 

  • Cheng F, Ye W, Ye FL (2007) Isolation of microsatellite DNA and preliminary genomic analysis of mud carp (Cirrhina molitorella). Zool Res 28:119–125

    Google Scholar 

  • Cheng F, Liu M, Wu QJ, Xie SG (2012) Genetic structures of Lepturichthys fimbriata population in the Pingshan section of the Yangtze River. Acta Hydrobio Sin 37 (In press)

  • Cornuet JM, Luikart G (1996) Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics 144:2001–2014

    Google Scholar 

  • Croojimans RPMA, Bierbooms VAF, Komen J, Van der Poel JJ, Groenen MAM (1997) Microsatellite markers in common carp (Cyprinus carpio L.). Anim Genet 28:129–134

    Google Scholar 

  • Deiner K, Garza JC, Coey R, Girman DJ (2007) Population structure and genetic diversity of trout (Oncorhynchus mykiss) above and below natural and man-made barriers in the Russian River, California. Conserv Genet 8:437–454

    Google Scholar 

  • Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14:2611–2620

    Google Scholar 

  • Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evol Bioinform Online 1:47–50 (available from http://cmpg.unibe.ch/software/arlequin3)

  • Felsenstein J (1989) PHYLIP—phylogeny inference package (version 3.2). Cladistics 5:164–166 (available from http://evolution.gs.washington.edu/phylip.html)

  • Garnier S, Alibert P, Audiot P, Prieur B, Rasplus JY (2004) Isolation by distance and sharp discontinuities in gene frequencies: implications for the phylogeography of an alpine insect species, Carabus solieri. Mol Ecol 13:1883–1897

    Google Scholar 

  • Garza JC, Williams EG (2001) Detection of reduction in population size using data from microsatellite loci. Mol Ecol 10:305–318

    Google Scholar 

  • Geng B, Sun XW, Liang LQ, Ouyang HS, Tong JG (2006) Microsatellite analysis of genetic diversity of Aristichthys nobilis in China. Hereditas (Beijing) 28:683–688

  • Goudet J (2001) FSTAT, a program to estimate and test gene diversities and fixation, version 2.9.3 (available from http://www.unil.ch/izea/softwares/fstat.html)

  • Hedrick PW (2005) Genetics of populations, 3rd edition. Jones and Bartlett Publishers, Boston, pp 342–349

  • Institute of Hydrobiology (1976) Fishes of the Yangtze River. Science Press, Beijing, pp 73–76

  • Leng YZ, He LT, Wei QH (1984) Population biology of bronze gudgeon (Coreius heterodon Bleeker) from the Upper Yangtze and their abundance estimation after damming by the Gezhouba hydraulic project. Freshw Fisher 5:21–25

    Google Scholar 

  • Li QF, Yu MX, Lu GB, Cai T, Bai X, Xia ZQ (2011) Impacts of the Gezhouba and Three Gorges reservoirs on the sediment regime in the Yangtze River, China. J Hydrol 403:224–233

    Google Scholar 

  • Liu YH, Wu GX, Wang ZL (1990) Reproduction ecology of Coreius heterodon (Bleeker) and Coreius guichenoti (Sauvage et Dabry) in the mainstem of the Changjiang River after construction of Gezhouba dam. Acta Hydrobiol Sin 14:205–215

    Google Scholar 

  • Masuda M, Thrower F, Nichols KM (2009) The effects of violating Hardy–Weinberg equilibrium assumptions on a cluster-based population mixture analysis of steelhead populations in southeast Alaska. N Am J Fish Manage 29:140–150

    Google Scholar 

  • Narum SR (2006) Beyond Bonferroni: less conservative analyses for conservation genetics. Conserv Genet 7:783–787

    Google Scholar 

  • Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583–590

    Google Scholar 

  • Pearse DE, Hayes SA, Bond MH, Hanson CV, Anderson EC, Macfarlane RB, Garza JC (2009) Over the falls? Rapid evolution of ecotypic differentiation in steelhead/rainbow trout (Oncorhynchus mykiss). J Hered 100:515–525

    Google Scholar 

  • Piry S, Luikart G, Cornuet JM (1999) Bottleneck: a computer program for detecting recent reductions in the effective population size using allele frequency data. J Hered 90:502–503 (available from http://www.ensam.inra.fr/URLB)

  • Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959 (available from http://www.stats.ox.ac.uk/zpritch/home.html)

    Google Scholar 

  • R Development Core Team (2011) R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN: 3-900051-07-0, URL: http://www.R-project.org/

  • Rousset F (1997) Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics 145:1219–1228

    Google Scholar 

  • Sigg DP (2006) Reduced genetic diversity and significant genetic differentiation after translocation: Comparison of the remnant and translocated populations of bridled nailtail wallabies (Onychogalea fraenata). Conserv Genet 7:577–589

    Google Scholar 

  • Slatkin M (2008) Linkage disequilibrium—understanding the evolutionary past and mapping the medical future. Nature 9:477–485

    Google Scholar 

  • van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538

    Google Scholar 

  • Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution 38:1358–1370

    Google Scholar 

  • Xu YG, Deng ZL, Yu ZT, Wei XJ (1981) Biology of bronze gudgeon (Coreius heterodon Bleeker) from the Yangtze River and effects of the Yangtze Gorges Hydraulic Project on their resources. Acta Hydrobiol Sin 7:271–294

    Google Scholar 

  • Xu SY, Zhang Y, Wang DQ, Li ZH, Chen DQ (2007) Genetic diversity in largemouth bronze gudgeon (Coreius guichenoti Sauvage et Dabry) from Yibin section of Yangtze River based on sequence of microsatellite DNA. Freshwat Fisher 37:76–79

    Google Scholar 

  • Yan L, Wang DQ, Fang YL, Liu SP, Duan XB, Chang YH, Chen DQ (2008). Genetic diversity in the bronze gudgeon, Coreius heterodon, from the Yangtze River system based on mtDNA sequences of the control region. Environ Biol Fish 82:35–40

    Google Scholar 

  • Yue H, Yuan H, Zhang XY (2009) Fifteen novel polymorphic microsatellites in rock carp, Procypris rabaudi (Tchang), an endemic fish species in the upper reaches of the Yangtze River drainage. Conserv Genet 10:539–542

    Google Scholar 

  • Zhang XY, Yue B, Feng JC, Song ZB (2008) Isolation and characterization of nine polymorphic microsatellite loci in the rock carp, Procypris rabaudi (Tchang). Mol Ecol Resour 8:123–125

    Google Scholar 

  • Zhuang P, Cao WX (1999) Growth characters of Coreius heterodon in the middle and upper reaches of the Yangtze River. Acta Hydrobiol Sin 23:577–583

    Google Scholar 

Download references

Acknowledgments

This research was financially supported by the National Basic Research Program of China (973 Program, No. 2010CB429005), the National Science Foundation of China (No. 51209202), the Postdoctoral Natural Science Foundation of China (No. 20100480924), State Key Laboratory of Freshwater Ecology and Biotechnology (No. Y15C01), the Nature Conservancy, and the One-Hundred Talents Program of the Chinese Academy of Sciences issued to Dr. S. Xie.

Author information

Authors and Affiliations

  1. The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, Hubei, China

    Fei Cheng, Qingjiang Wu & Songguang Xie

  2. Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430072, Hubei, China

    Fei Cheng & Wei Li

  3. Department of Fish and Wildlife Conservation, Virginia Polytechnic Institute and State University, Blacksburg, VA, 24061, USA

    Eric Hallerman

  4. Huai’an Research Center, Institute of Hydrobiology, Chinese Academy of Sciences, Huai’an, 223002, Jiangsu, China

    Songguang Xie

Authors
  1. Fei Cheng
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Wei Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Qingjiang Wu
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Eric Hallerman
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Songguang Xie
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Songguang Xie.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOC 337 kb)

About this article

Cite this article

Cheng, F., Li, W., Wu, Q. et al. Microsatellite DNA variation among samples of bronze gudgeon, Coreius heterodon, in the mainstem of the Yangtze River, China. Ichthyol Res 60, 165–171 (2013). https://doi.org/10.1007/s10228-012-0329-4

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10228-012-0329-4

Keywords

Search

Navigation