Skip to main content

Advertisement

SpringerLink
Log in

Demographic History and Population Structure of Blackfin Flounder (Glyptocephalus stelleri) in Japan Revealed by Mitochondrial Control Region Sequences

  • Published:
Biochemical Genetics Aims and scope Submit manuscript

Abstract

The demographic history and population genetic structure of the blackfin flounder (Glyptocephalus stelleri) along coastal regions of Japan were investigated. Genetic variation in DNA sequences was examined from the first hypervariable region of the mitochondrial DNA control region. A high level of haplotypic diversity (h = 0.99 ± 0.004) was detected, indicating a high level of intrapopulation genetic diversity. The starburst structure of the minimum spanning tree suggested a very recent origin for most haplotypes. The demographic history of G. stelleri was examined using neutrality tests and mismatch distribution analysis, which also indicated a Pleistocene population expansion at about 124,100–413,400 years ago. Hierarchical molecular variance analysis and conventional population Fst comparisons revealed no significant genetic differentiation throughout the range examined.

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

  • Aris-Brosou S, Excoffier L (1996) The impact of population expansion and mutation rate heterogeneity on DNA sequence polymorphism. Mol Biol Evol 13:494–504

    CAS  PubMed  Google Scholar 

  • Avise JC (1998) The history and preview of phylogeography: a personal reflection. Mol Ecol 7:371–379

    Article  Google Scholar 

  • Avise J (2000) Phylogeography: the history and formation of species. Harvard University Press, Cambridge

    Google Scholar 

  • Benzie JA (1999) Genetic structure of coral reef organisms ghosts of dispersal past. Am Zool 39:131–145

    Google Scholar 

  • Chang Y, Huang F, Lo T (1994) The complete nucleotide sequence and gene organization of carp (Cyprinus carpio) mitochondrial DNA gene. J Mol Evol 38:138–155

    Article  CAS  PubMed  Google Scholar 

  • Excoffier L (1993) MINSPNET: a programme for producing minimum spanning network. Department of Anthropology and Ecology, University of Geneva, Switzerland

  • Excoffier L (2004) Patterns of DNA sequence diversity and genetic structure after a range expansion: lessons from the infinite-island model. Mol Ecol 13:853–864

    Article  CAS  PubMed  Google Scholar 

  • Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131:479–491

    CAS  PubMed  Google Scholar 

  • Fauvelot C, Planes S (2002) Understanding origins of present-day genetic structure in marine fish: biologically or historically driven patterns? Mar Biol 141:773–788

    Article  Google Scholar 

  • Fu YX (1997) Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147:915–925

    CAS  PubMed  Google Scholar 

  • Fujita S (1965) Early development and rearing of two common flatfishes, Eopsetta grigorjewi (Herzenstein) and Tanakius kitaharai (Jordan et starks). Bull Japan Soc Sci Fish 31:258–262

    Google Scholar 

  • Grant SW, Bowen BW (1998) Shallow population histories in deep evolutionary lineages of marine fishes: insight from sardines and anchovies and lessons for conservation. J Hered 89:415–426

    Article  Google Scholar 

  • Hamai I, Ishito Y (1958) Distribution of the flatfish, Glyptocephalus stelleri (Schmidt) along the Pacific coast of Tohoku and Hokkaido regions. Bull Tohoku Reg Fish Res Lab 11:1–37

    Google Scholar 

  • Hansen HJ, Nielsen EE, Grønkjaer P (2007) Evolutionary mechanisms shaping the genetic population structure of marine fishes; lessons from the European flounder (Platichthys flesus L.). Mol Ecol 16:3104–3118

    Article  Google Scholar 

  • Harpending RC (1994) Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution. Hum Biol 66:591–600

    CAS  PubMed  Google Scholar 

  • Harpending H, Rogers A (2000) Genetic perspectives on human origins and differentiation. Ann Rev Genomics Hum Genet 1:361–385

    Article  CAS  Google Scholar 

  • Hashimoto R (1953) Studies on the age of Glyptocephalus stelleri (Schmidt). Bull Tohoku Reg Fish Res Lab 2:49–55

    Google Scholar 

  • Hewitt GM (2000) The genetic legacy of the Quaternary ice ages. Nature 405:907–913

    Article  CAS  PubMed  Google Scholar 

  • Imbrie J, Boyle EA, Clemens SC, Duffy A, Howard WR, Kukla G, Kutzbach J, Martinson DG, McIntyre A, Mix AC, Molfino B, Morley JJ, Peterson LC, Pisias NG, Prell WL, Raymo ME, Shackleton NJ, Toggweiler JR (1992) On the structure and origin of major glaciation cycles, 1. Linear responses to Milankovitch forcing. Paleoceanography 7:701–738

    Article  Google Scholar 

  • Imron JB, Hale P, Degnan MB, Degnan MS (2007) Pleistocene isolation and recent gene flow in Haliotis asinina, an Indo-Pacific vetigastropod with limited dispersal capacity. Mol Ecol 16:289–304

    Article  CAS  PubMed  Google Scholar 

  • Ishida R, Kitakata M (1953) Studies on the age determination of flatfish in Hokkaido Glyptocephalus stelleri (Schmidt). Bull Hokkaido Reg Fish Res Lab 8:63–84

    Google Scholar 

  • Kitamura A, Matsui H, Oda M (1999) Change in the thickness of the warm Tsushima current at the initiation of its flow into the Sea of Japan. Palaeogeogr Palaeoclimatol Palaeoecol 152:305–318

    Article  Google Scholar 

  • Kitamura A, Takano O, Takata H, Omote H (2001) Late Pliocene-early Pleistocene paleoceanographic evolution of the Japan Sea. Palaeogeogr Palaeoclimatol Palaeoecol 172:81–98

    Article  Google Scholar 

  • Kocher TD, Thomas WK, Meyer A, Edwards SV (1989) Dynamic of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers. Proc Natl Acad Sci USA 86:6196–6200

    Article  CAS  PubMed  Google Scholar 

  • Liu JX, Gao TX, Yokogawa KJ, Zhang YP (2006a) Differential population structuring and demographic history of two closely related fish species, Japanese sea bass (Lateolabrax japonicus) and spotted sea bass (Lateolabrax maculatus) in Northwestern Pacific. Mol Phylogenet Evol 39:799–811

    Article  CAS  PubMed  Google Scholar 

  • Liu JX, Gao TX, Zhuang ZM, Jin XS, Yokogawa KJ, Zhang YP (2006b) Late Pleistocene divergence and subsequent population expansion of two closely related fish species, Japanese anchovy (Engraulis japonicus) and Australian anchovy (Engraulis australis). Mol Phylogenet Evol 40:712–723

    Article  CAS  PubMed  Google Scholar 

  • Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York

    Google Scholar 

  • Nielsen EE, Hansen MM, Ruzzante DE, Meldrup D, Gronkjaer P (2003) Evidence of a hybrid-zone in Atlantic cod (Gadus morhua) in the Baltic and the Danish Belt Sea revealed by individual admixture analysis. Mol Ecol 12:1497–1508

    Article  PubMed  Google Scholar 

  • Okiyama M (1963) Larvae and young of the witch flounder, Glyptocephalus stelleri (Schmidt) at metamorphosis stages. Bull Jap Sea Reg Fish Res Lab 11:101–108

    Google Scholar 

  • Ōuchi A (1954) Breeding of some species of flatfish in Japan Sea. Ann Rep Japan Sea Reg Fish Res Lab 1:17–26

    Google Scholar 

  • Planes S, Doherty PJ, Bernardi G (2001) Strong genetic divergence among populations of a marine fish with limited dispersal, Acanthochromis polyacanthus, within the great barrier reef and the coral sea. Evolution 55:2263–2273

    CAS  PubMed  Google Scholar 

  • Posada D, Crandall KA (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14:817–818

    Article  CAS  PubMed  Google Scholar 

  • Ray N, Currant M, Excoffier L (2003) Intra-deme molecular diversity in spatially expanding populations. Mol Biol Evol 20(1):76–86

    Article  CAS  PubMed  Google Scholar 

  • Rice WR (1989) Analyzing tables of statistical tests. Evolution 43:223–225

    Article  Google Scholar 

  • Robards MD, Willson MF, Armstrong RH, Piatt JF (1999) Sand lance: A review of biology and predator relations and annotated bibliography. Exxon Valdez oil spill restoration project 99346

  • Rogers AR, Harpending H (1992) Population growth makes waves in the distribution of pairwise genetic difference. Mol Biol Evol 9:552–569

    CAS  PubMed  Google Scholar 

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

    CAS  PubMed  Google Scholar 

  • Saitou N, Nei M (1987) The neighbor-joining methods: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    CAS  PubMed  Google Scholar 

  • Schmidt PJ (1904) Fishes of the eastern seas of the Russian Empire. Scientific results of the Korea–Sakhalin Expedition of the Emperor Russian Geographical Society 1900–1901. St. Petersburg Fish East Seas Russian Empire, St. Petersburg

  • Schneider S, Excoffier L (1999) Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA. Genetics 152:1079–1089

    CAS  PubMed  Google Scholar 

  • Schneider S, Roessli D, Excoffier L (2000) Arlequin, version 2,000: a software of population genetic data analysis. University of Geneva, Geneva

    Google Scholar 

  • Schulte PM (2001) Environmental adaptations as windows on molecular evolution. Comp Biochem Physiol B 128:597–611

    Article  CAS  PubMed  Google Scholar 

  • Seeb LW, Seeb JE, Polovina JJ (1990) Genetic variation in highly exploited spiny lobster Panulirus marginatus populations from the Hawaiian Archipelago. Fish Bull 88:713–718

    Google Scholar 

  • Slatkin M (1993) Isolation by distance in equilibrium and non-equilibrium populations. Evolution 47:264–279

    Article  Google Scholar 

  • Slatkin M, Hudson RH (1991) Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics 129:555–562

    CAS  PubMed  Google Scholar 

  • Stepien CA (1999) Phylogeographical structure of the Dover sole Microstomus pacificus: the larval retention hypothesis and genetic divergence along the deep continental slope of the northeastern Pacific Ocean. Mol Ecol 8:923–939

    Article  CAS  PubMed  Google Scholar 

  • Swofford DL (2002) PAUP: Phylogenetic Analysis Using Parsimony (and other methods), version 4. Sinauer Associates, Sunderland

    Google Scholar 

  • Tajima F (1983) Evolutionary relationship of DNA sequence in finite populations. Genetics 105:437–467

    CAS  PubMed  Google Scholar 

  • Tajima F (1989) Statistical-method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585–595

    CAS  PubMed  Google Scholar 

  • Tamaki K, Honza E (1991) Global tectonics and formation of marginal basins: role of the western Pacific. Episodes 14(3):224–230

    Google Scholar 

  • Tamura K, Nei M (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10:512–526

    CAS  PubMed  Google Scholar 

  • Tang WQ, Hu XL, Yang JQ (2007) Species validities of Coilia brachygnathus and C. nasus taihuensis based on sequence variation of complete mtDNA control region. Biodiv Sci 15:224–231

    Article  CAS  Google Scholar 

  • Tudela S, Garca-Marn JL, Pla C (1999) Genetic structure of the European anchovy, Engraulis encrasicolus, in the northwest Mediterranean. J Exp Mar Biol Ecol 234:95–109

    Article  Google Scholar 

  • Wang PX (1999) Response of Western Pacific marginal seas to glacial cycles: paleoceanographic and sedimentological features. Mar Geol 156:5–39

    Article  Google Scholar 

  • Xia YZ, Sheng Y, Chen YY (2006) DNA sequence variation in the mitochondrial control region of lenok (Branchymystax lenok) populations in China. Biodiv Sci 14:48–54

    Article  CAS  Google Scholar 

  • Xiao YS, Takahashi M, Yanagimoto T, Zhang Y, Gao TX, Yabe M, Sakurai Y (2008) Genetic variation and population structure of willowy flounder Tanakius kitaharai collected from Aomori, Ibaraki and Niigata in Northern Japan. Afr J Biotechnol 7(21):3836–3844

    CAS  Google Scholar 

Download references

Acknowledgments

We are grateful to Prof. Syuiti Abe for checking the content of the article. Thanks to Mr. Nwafili Sylvanus and Dr. Jinxian Liu for checking the English. The study was supported by State 863 High-Technology R&D Project of China (No. 2006AA09Z418), the National Key Basic Research Program from the Ministry of Science and Technology, P.R. China (No. 2005CB422306).

Author information

Authors and Affiliations

  1. Key Laboratory of Mariculture, Ministry of Education of China, Ocean University of China, Qingdao, China

    Yongshuang Xiao & Tianxiang Gao

  2. Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China

    Yan Zhang

  3. National Research Institute of Far Seas Fisheries, Fukuura, Kanazawa, Japan

    Takashi Yanagimoto

Authors
  1. Yongshuang Xiao
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Tianxiang Gao
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Yan Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Takashi Yanagimoto
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Takashi Yanagimoto.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Xiao, Y., Gao, T., Zhang, Y. et al. Demographic History and Population Structure of Blackfin Flounder (Glyptocephalus stelleri) in Japan Revealed by Mitochondrial Control Region Sequences. Biochem Genet 48, 402–417 (2010). https://doi.org/10.1007/s10528-009-9321-8

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10528-009-9321-8

Keywords

Search

Navigation