We’re sorry, something doesn't seem to be working properly.

Please try refreshing the page. If that doesn't work, please contact support so we can address the problem.

Advertisement

Geographical distribution and population genetic structure of the gobiid fish Gymnogobius sp. 2, formerly known as Gymnogobius cf. castaneus “Toyama-endemic”

Abstract

The geographical distribution and population genetic structure of the endangered freshwater goby Gymnogobius sp. 2 sensu Akihito et al. (2013) (formerly known as Gymnogobius cf. castaneus “Toyama-endemic”) were investigated via extensive field surveys in the Hokuriku District, on the Sea of Japan side of central Honshu, Japan. This species was widely distributed over the western Hokuriku region, including the Toyama Plain, Noto Peninsula/Kaga Plain (Ishikawa Prefecture), and Fukui Plain. Analyses of mitochondrial DNA and nuclear DNA indicated that the Ishikawa and Fukui populations of Gymnogobius sp. 2, which formed a monophyletic group, were clearly divergent from other species of the G. castaneus species complex. In addition, there was a clear genetic divergence between these populations. However, the complete mtDNA replacement has occurred in the Toyama populations of Gymnogobius sp. 2, almost certainly via historical introgressive hybridization with the G. castaneus–taranetzi complex. Thus, this species forms at least three isolated lineages with unique and divergent evolutionary histories.

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

Access options

Buy single article

Instant unlimited access to the full article PDF.

US$ 39.95

Price includes VAT for USA

Subscribe to journal

Immediate online access to all issues from 2019. Subscription will auto renew annually.

US$ 99

This is the net price. Taxes to be calculated in checkout.

Fig. 1
Fig. 2
Fig. 3
Fig. 4

References

  1. Aizawa T, Hatsumi M, Wakahama K (1994) Systematic study on the Chaenogobius species (Family Gobiidae) by analysis of allozyme polymorphisms. Zool Sci 11:455–465

  2. Akihito, Sakamoto K, Ikeda Y, Aizawa M (2013) Gobioidei. In: Nakabo T (ed) Fishes of Japan with pictorial keys to the species, third edition. Tokai University Press, Hadano, pp 1347–1608, 2109–2211

  3. Arai R, Fujikawa H, Nagata Y (2007) Four new subspecies of Acheilognathus bitterlings (Cyprinidae: Acheilognathinae) from Japan. Bull Natl Mus Nat Sci Ser A (Suppl 1):1–28

  4. Bernardi G (2013) Speciation in fishes. Mol Ecol 22:5487–5502

  5. Chiba SN, Kakehashi R, Shibukawa K, Mukai T, Suzuki Y, Hanzawa N (2015) Geographical distribution and genetic diversity of Gymnogobius sp. “Chokai-endemic species” (Perciformes: Gobiidae). Ichthyol Res 62:156–162

  6. Clement M, Posada D, Crandall K (2000) TCS: a computer program to estimate gene genealogies. Mol Ecol 9:1657–1660

  7. Crandall KA, Templeton AR (1993) Empirical tests of some predictions from coalescent theory with applications to intraspecific phylogeny reconstruction. Genetics 134:959–969

  8. Dudgeon D, Arthington AH, Gessner MO, Kawabata Z, Knowler DJ, Lévêque C, Naiman RJ, Prieur-Richard AH, Soto D, Stiassny ML, Sullivan CA (2006) Freshwater biodiversity: importance, threats, status and conservation challenges. Biol Rev 81:163–182

  9. 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

  10. Funk DJ, Omland KE (2003) Species-level paraphyly and polyphyly: frequency, causes, and consequences, with insights from animal mitochondrial DNA. Annu Rev Ecol Evol Syst 34:397–423

  11. Hirouchi D, Yasue K (2001) Newly found Kentoyama Fault in the northern part of the eastern marginal area of Fukui Plain, and its implications. The Quaternary Research (Daiyonki-Kenkyu) 40:67–74

  12. Hubbs CL (1955) Hybridization between fish species in nature. Syst Biol 4:1–20

  13. Irwin DW, Kocher TD, Wilson AC (1991) Evolution of the cytochrome b gene in mammals. J Mol Evol 32:128–144

  14. Jobb G, Haeseler A, Strimmer K (2004) TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. BMC Evol Biol 4:18

  15. Kanaori Y (1990) Late Mesozoic-Cenozoic strike-slip and block rotation in the inner belt of Southwest Japan. Tectonophysics 177:381–399

  16. Kanaori Y, Kawakami S, Yairi K (1992) The block structure and Quaternary strike-slip block rotation of central Japan. Tectonics 11:47–56

  17. Katagawa H, Kitaguchi Y, Itoh T, Anada F, Yoshida S, Fujii M (2002) Block division and active structure in the northernwest part of the Sekidoh-Hohdatsu mountains, Noto Peninsula, central Japan. Journal of Geography (Chigaku Zasshi) 111:16–32

  18. Keck BP, Near TJ (2009) Patterns of natural hybridization in darters (Percidae: Etheostomatinae). Copeia, 2009:758–773

  19. Kitamura J, Nagata N, Nakajima J, Sota T (2012) Divergence of ovipositor length and egg shape in a brood parasitic bitterling fish through the use of different mussel hosts. J Evol Biol 25:566–573

  20. Leigh JW, Bryant D (2015) PopART: Full-feature software for haplotype network construction. Methods Ecol Evol 6:1110–1116

  21. Li C, Ortí G, Zhang G, Lu G (2007) A practical approach to phylogenomics: the phylogeny of ray-finned fish (Actinopterygii) as a case study. BMC Evol Biol 7:44

  22. Mallet J (2005) Hybridization as an invasion of the genome. Trends Ecol Evol 20:229–237

  23. Matsumiya Y, Watanabe K, Iguchi K, Iwata H, Yamamoto G, Nishida M. 2001. Freshwater fishes of the Minami River system in Reinan Region, Fukui Prefecture, Japan. Jpn J Ichthyol 48:93–107

  24. Ministry of the Environment, Japan (2015) Red data book 2014–Threatened wildlife of Japan–, vol 4, pisces–brackish and fresh water fishes. Gyosei, Tokyo

  25. Ministry of the Environment, Japan (2019) Red list of Japan. https://www.env.go.jp/press/files/jp/110615.pdf. Accessed 26 June 2019

  26. Mukai T, Shibukawa K, Shinozaki T, Sugiyama H, Chiba SN, Hanzawa N (2010) Preliminary review and conservation of Gymnogobius castaneus complex in Japan. Jpn J Ichthyol 57:173–176

  27. Palumbi SR, Martin A, Romano S, McMillan WO, Stice L, Grabowski G (1991) The simple fool’s guide to PCR. University of Hawaii Press, Honolulu

  28. Petit RJ, Excoffier L (2009) Gene flow and species delimitation. Trends Ecol Evol 24:386–393

  29. Pfenninger M, Posada D (2002) Phylogeographic history of the land snail Candidula unifasciata (Poiret 1801) (Helicellinae, Stylommatophora): fragmentation, corridor migration and secondary contact. Evolution 56:1776–1788

  30. Puebla O (2009) Ecological speciation in marine v. freshwater fishes. J Fish Biol 75:960–996

  31. Ryder OA (1986) Species conservation and systematics: the dilemma of subspecies. Trends Ecol Evol 1:9–10

  32. Scribner KT, Page KS, Bartron ML (2000) Hybridization in freshwater fishes: a review of case studies and cytonuclear methods of biological inference. Rev Fish Biol Fish 10:293–323

  33. Shinozaki T, Hatsumi M, Wakahama K, Goto A (2006) Genetic evidence supporting the existence of two diverged groups in the goby Gymnogobius castaneus. Ichthyol Res 53:82–86

  34. Sota T, Mukai T, Shinozaki H, Sato H, Yodoe K (2005) Genetic differentiation of the gobies Gymnogobius castaneus and G. taranetzi in the region surrounding the Sea of Japan as inferred from a mitochondrial gene genealogy. Zool Sci 22:87–93

  35. Stephens M, Smith NJ, Donnelly P (2001) A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68:978–989

  36. Stevenson DE (2002) Systematics and distribution of fishes of the Asian goby genera Chaenogobius and Gymnogobius (Osteichthyes: Perciformes: Gobiidae), with the description of a new species. Species Divers 7:251–312

  37. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729

  38. Tanabe AS (2011) Kakusan4 and Aminosan: two programs for comparing nonpartitioned, proportional, and separate models for combined molecular phylogenetic analyses of multilocus sequence data. Mol Ecol Resour 11:914–921

  39. Watanabe K (1998) Parsimony analysis of the distribution pattern of Japanese primary freshwater fishes, and its application to the distribution of the bagrid catfishes. Ichthyol Res 45:259–270

  40. Watanabe K (2012) Faunal structure of Japanese freshwater fishes and its artificial disturbance. Environ Biol Fishes 94:533–547

  41. Watanabe K, Kano Y, Takahashi H, Mukai T, Kakioka R, Tominaga K (2010) GEDIMAP: a database of genetic diversity for Japanese freshwater fishes. Ichthyol Res 57:107–109

  42. Watanabe K, Takahashi H, Kitamura A, Yokoyama R, Kitagawa T, Takeshima H, Sato S, Yamamoto S, Takehana Y, Mukai T, Ohara K, Iguchi K (2006) Biogeographical history of Japanese freshwater fishes: phylogeographic approaches and perspectives. Jpn J Ichthyol 53:1–38

Download references

Acknowledgements

We thank G. Kondo, M. Nishio, and T. Oka for helping with specimen collection. We are grateful to the two anonymous reviewers for valuable comments on the manuscript. The authors declare that they have no conflicts of interest.

Author information

Correspondence to Tomoyuki Kokita.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Rights and permissions

Reprints and Permissions

About this article

Verify currency and authenticity via CrossMark

Cite this article

Chiba, S., Kawasaki, T., Yamamoto, K. et al. Geographical distribution and population genetic structure of the gobiid fish Gymnogobius sp. 2, formerly known as Gymnogobius cf. castaneus “Toyama-endemic”. Ichthyol Res 67, 212–220 (2020). https://doi.org/10.1007/s10228-019-00708-7

Download citation

Keywords

  • Endangered species
  • Population divergence
  • Introgressive hybridization
  • Evolutionarily significant units