Genetic identification of species and natural hybridization determination based on mitochondrial DNA and nuclear DNA of genus Zacco in Korea

References

• Avise JC, Saunders NC. 1984. Hybridization and introgression among species of sunfish (Lepomis): analysis by mitochondrial DNA and allozyme markers. Genetics. 108(1):237–255.
   PubMed Web of Science ®Google Scholar
• Baek HM, Song HB, Cho DH. 2006. Reproductive ecology of the Pale Chub, Zacco platypus in a tributary to the Han River. Korean J Ichthyol. 18(3):193–201.
   Google Scholar
• Brykov VA, Podlesnykh AV. 2001. Comparative study of mitochondrial DNA in two greenling species (Hexagrammidae: Pisces) and their hybrids from Peter the Great Bay (Sea of Japan). Russ J Genet. 37(12):1400–1402.
   Web of Science ®Google Scholar
• Carvalho DC, Oliveira DAA, Pompeu PS, Leal CG, Oliveira C, Hanner R. 2011. Deep barcode divergence in Brazilian freshwater fishes: the case of the São Francisco River Basin. Mitochondrial DNA. 22(Suppl. 1):80–87.
   PubMedGoogle Scholar
• Cebrat A, Cebula A, Laszkiewicz A, Kasztura M, Miazek A, Kisielow P. 2008. Mechanism of lymphocyte-specific inactivation of RAG-2 intragenic promoter of NWC: implications for epigenetic control of RAG locus. Mol Immunol. 45(8):2297–2306.
   PubMed Web of Science ®Google Scholar
• Chae BS, Yoon HN. 2006. Geographic variation and distribution of nuptial color patterns in Korean Chub, Zacco koreanus (Cyprinidae, Pisces). Korean J Ichthyol. 18(2):97–106.
   Google Scholar
• Chae BS, Yoon HN. 2010. Habitat segregation between NE and NS type of Zacco koreanus (Cyprinidae). Korean J Ichthyol. 22(1):49–55.
   Google Scholar
• Choi JK, Jang CR, Byeon HK. 2011. The fish fauna and population of Zacco koreanus in the upper region of the Gapyeong stream. Korean J Environ Ecol. 25(1):65–70.
   Google Scholar
• 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(1):397–423.
   Google Scholar
• Grant PR, Grant BR. 1992. Hybridization of bird species. Science. 256(5054):193–197.
   PubMed Web of Science ®Google Scholar
• Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser. 41(41):95–98.
   Google Scholar
• Handy SM, Deeds JR, Ivanova NV, Hebert PDN, Hanner RH, Ormos A, Weigt LA, Moore MM, Yancy HF. 2011. A single-laboratory validated method for the generation of DNA barcodes for the identification of fish for regulatory compliance. J AOAC Int. 94(1):201–210.
   PubMed Web of Science ®Google Scholar
• Hauswirth WW, Clayton DA. 1985. Length heterogeneity of a conserved displacement-loop sequence in human mitochondrial DNA. Nucleic Acids Res. 13(22):8093–8104.
   PubMed Web of Science ®Google Scholar
• Hebert PDN, Cywinska A, Ball SL, deWaard JR. 2003. Biological identifications through DNA barcodes. Proc Biol Sci. 270(1512):313–321.
   PubMed Web of Science ®Google Scholar
• Hosoya K, Ashiwa H, Watanabe M, Mizuguchi K-y, Okazaki T. 2003. Zacco sieboldii, a species distinct from Zacco temminckii (Cyprinidae). Ichthyological Research. 50(1):1–8. doi:10.1007/s102280300000.
   Web of Science ®Google Scholar
• Hubert N, Hanner R, Holm E, Mandrak NE, Taylor E, Burridge M, Watkinson D, Dumont P, Curry A, Bentzen P, et al. 2008. Identifying Canadian freshwater fishes through DNA barcodes. PLoS One. 3(6):e2490.
   PubMed Web of Science ®Google Scholar
• Hwang YJ, Ra MS, Choi CG. 1995. A natural hybrid between spinous loach, Cobitis longicorpus and cyprinid loach Misgurnus anguillicaudatus (Pisces, Cobitidae). Korean J Ichthyol. 7:203–207.
   Google Scholar
• Ivanova NV, Zemlak TS, Hanner RH, Hebert PD. 2007. Universal primer cocktails for fish DNA barcoding. Mol Ecol Resour. 7(4):544–548.
   Google Scholar
• Kerschbaumer M, Postl L, Koch M, Wiedl T, Sturmbauer C. 2011. Morphological distinctness despite large-scale phenotypic plasticity-analysis of wild and pond-bred juveniles of allopatric populations of Tropheus moorii. Naturwissenschaften. 98(2):125–134.
   PubMedGoogle Scholar
• Kim HS, Yun SW, Kim HT, Park JY. 2015. Occurrence of a natural hybrid between Acheilognathus signifer and A. lanceolatus (Pisces: Cyprinidae). Korean J Ichthyol. 27(3):199–204.
   Google Scholar
• Kim IS. 2019. A new species of cyprinid fish, Zacco koreanus with redescription of Z. temminkii (Cyprinidae) from Korea. Korean J Ichthyol. 31(1):1–7.
   Google Scholar
• Kim IS, Choi Y, Shim JH. 1991. An occurrence of intergeneric hybrid cross, Pungtungia herzi × Pseudopungtungia nigra from the Ungcheon River, Korea. Korean J Ichthyol. 3:42–47.
   Google Scholar
• Kim IS, Lee JH. 1990. Diploid–triploid hybrid complex of the spined loach Cobitis sinensis and C. longicorpus (Pisces, Cobitidae). Korean J Ichthyol. 2:203–210.
   Google Scholar
• Kim IS, Park JY. 2002. Freshwater fish of Korea. Korea: Kyo-Hak Publishing Co., Ltd. p. 1–465.
   Google Scholar
• Kim IS, Oh MK, Hosoya K. 2005. A new species of Cyprinid Fish, Zacco koreanus with redescription of Z. temminckii (Cyprinidae) from Korea. Korean J Ichtyol. 17(1):1–7.
   Google Scholar
• Kim KY, Bang IC. 2010. Molecular phylogenetic position of Abbottina springeri (Cypriniformes: Cyprinidae) based on nucleotide sequences of RAG1 gene. Korean J Ichthyol. 22(4):273–278.
   Google Scholar
• Kumar S, Stecher G, Tamura K. 2016. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol. 33(7):1870–1874.
   PubMed Web of Science ®Google Scholar
• Kwun HJ, Kim JK. 2010. Occurrence of natural hybrid between Oplegnathus fasciatus and Oplegnathus punctatus from the south sea of Korea. Korean J Ichthyol. 22(3):201–205.
   Google Scholar
• Lee IR, Yang H, Kim JH, Kim KY, Bang IC. 2009. Identification of a natural hybrid between the Striped Spine Loach Cobitis tetralineata and the King Spine Loach Iksookimia longicorpa by analyzing mitochondrial COI and nuclear RAG1 sequences. Korean J Ichthyol. 21(4):287–290.
   Google Scholar
• Ma GC, Tsao HS, Lu HP, Yu HT. 2006. AFLPs congruent with morphological differentiation of Asian common minnow Zacco (Pisces: Cyprinidae) in Taiwan. Zool Scripta. 35(4):341–351.
   Web of Science ®Google Scholar
• Mabragaña E, Astarloa JMD, Hanner R, Zhang J, Castro MG. 2011. DNA barcoding identifies argentine fishes from marine and brackish waters. PLoS One. 6(12):e28655.
   PubMed Web of Science ®Google Scholar
• McKay BD, Zink RM. 2010. The causes of mitochondrial DNA gene tree paraphyly in birds. Mol Phylogenet Evol. 54(2):647–650.
   PubMed Web of Science ®Google Scholar
• Nolte AW, Freyhof J, Stemshorn KC, Tautz D. 2005. An invasive lineage of sculpins, Cottus sp. (Pisces, Teleostei) in the Rhine with new habitat adaptations has originated from hybridization between old phylogeographic groups. Proc Biol Sci. 272(1579):2379–2387.
   PubMed Web of Science ®Google Scholar
• Oh MK, Park JY. 2009. A molecular systematics of Korean Zacco species inferred from mitochondrial cytochrome b gene sequence. Korean J Ichthyol. 21(4):291–298.
   Google Scholar
• Pereira LH, Hanner R, Foresti F, Oliveira C. 2013. Can DNA barcoding accurately discriminate megadiverse Neotropical freshwater fish fauna? BMC Genet. 14(1):20.
   PubMedGoogle Scholar
• Pereira LHG, Maia GMG, Hanner R, Foresti F, Oliveira C. 2011. DNA barcodes discriminate freshwater fishes from the Paraíba do Sul River Basin, São Paulo, Brazil. Mitochondrial DNA. 22(Suppl. 1):71–79.
   PubMedGoogle Scholar
• Perdices A, Cunha C, Coelho MM. 2004. Phylogenetic structure of Zacco platypus (Teleostei, Cyprinidae) populations on the upper and middle Chang Jiang (=Yangtze) drainage inferred from cytochrome b sequences. Mol Phylogenet Evol. 31(1):192–203.
   PubMed Web of Science ®Google Scholar
• Slechtová V, Bohlen J, Tan HH. 2007. Families of Cobitoidea (Teleostei; Cypriniformes) as revealed from nuclear genetic data and the position of the mysterious genera Barbucca, Psilorhynchus, Serpenticobitis and Vaillantella. Mol Phylogenet Evol. 44(3):1358–1365.
   PubMed Web of Science ®Google Scholar
• Song HY, Kim JH, Seo IY, Bang IC. 2017a. Species and hybrid identification of genus Coreoleuciscus species in Hwnag-ji Stream, Nakdong River Basin in Korea. Korean J Ichthyol. 29(1):1–12.
   Google Scholar
• Song HY, Moon SJ, Kim KS, Bang IC. 2017b. Genetic species identification by sequencing analysis of nuclear and mitochondrial genes for Albino Misgurnus species from Korea. Korean J Ichthyol. 29(2):139–145.
   Google Scholar
• Sonnenberg R, Nolte AW, Tautz D. 2007. An evaluation of LSU rDNA D1–D2 sequences for their use in species identification. Front Zool. 4(1):6.
   PubMedGoogle Scholar
• Šorić VM. 2004. A natural hybrid of Leuciscus cephalus and Alburnus alburnus (Pisces, Cyprinidae) from the Ibar River (Western Serbia). Arch Biol Sci. 56:23–32.
   Google Scholar
• Toews DPL, Brelsford A. 2012. The biogeography of mitochondrial and nuclear discordance in animals. Mol Ecol. 21(16):3907–3930.
   PubMed Web of Science ®Google Scholar
• Ward RD. 2009. DNA barcode divergence among species and genera of birds and fishes. Mol Ecol Resour. 9(4):1077–1085.
   PubMed Web of Science ®Google Scholar
• Ward RD, Hanner R, Hebert P. 2009. The campaign to DNA barcode all fishes, FISH-BOL. J Fish Biol. 74(2):329–356.
   PubMed Web of Science ®Google Scholar
• West-Eberhard MJ. 2005. Developmental plasticity and the origin of species differences. Proc Natl Acad Sci USA. 102(Suppl. 1):6543–6549.
   PubMedGoogle Scholar
• Yoon HN, Chae BS, Bae YS. 2012. Geographic variation of body color and morphological characteristics of Pale Chub, Zacco platypus (Cyprinidae, Pisces). Korean J Ichthyol. 24(3):167–176.
   Google Scholar