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Barcoding and Phylogenetic Inferences in Nine Mugilid Species (Pisces, Mugiliformes)

  • Polyakova, Neonila (A.V. Zhirmunsky Institute of Marine Biology, Far Eastern Branch of Russian Academy of Sciences) ;
  • Boutin, Alisa (National Institute of Health, National Institute of Diabetes and Digestive and Kidney Diseases) ;
  • Brykov, Vladimir (A.V. Zhirmunsky Institute of Marine Biology, Far Eastern Branch of Russian Academy of Sciences)
  • Received : 2013.03.18
  • Accepted : 2013.07.26
  • Published : 2013.10.31

Abstract

Accurate identification of fish and fish products, from eggs to adults, is important in many areas. Grey mullets of the family Mugilidae are distributed worldwide and inhabit marine, estuarine, and freshwater environments in all tropical and temperate regions. Various Mugilid species are commercially important species in fishery and aquaculture of many countries. For the present study we have chosen two Mugilid genes with different phylogenetic signals: relatively variable mitochondrial cytochrome oxidase subunit I (COI) and conservative nuclear rhodopsin (RHO). We examined their diversity within and among 9 Mugilid species belonging to 4 genera, many of which have been examined from multiple specimens, with the goal of determining whether DNA barcoding can achieve unambiguous species recognition of Mugilid species. The data obtained showed that information based on COI sequences was diagnostic not only for species-level identification but also for recognition of intraspecific units, e.g., allopatric populations of circumtropical Mugil cephalus, or even native and acclimatized specimens of Chelon haematocheila. All RHO sequences appeared strictly species specific. Based on the data obtained, we conclude that COI, as well as RHO sequencing can be used to unambiguously identify fish species. Topologies of phylogeny based on RHO and COI sequences coincided with each other, while together they had a good phylogenetic signal.

Acknowledgement

Supported by : FEB RAS

References

  1. Cataudella S, Civitelli MV, Capanna E, 1974. Chromosome complements of the Mediterranean mullets (Pisces, Perciformes). Caryologia, 27:93-105. https://doi.org/10.1080/00087114.1974.10796565
  2. Chen WJ, Bonillo C, Lecointre G, 2003. Repeatability of clades as a criterion of reliability: a case study for molecular phylogeny of Acanthomorpha (Teleostei) with larger number of taxa. Molecular Phylogenetics and Evolution, 26:262-288. https://doi.org/10.1016/S1055-7903(02)00371-8
  3. Durand JD, Shen KN, Chen WJ, Jamandre BW, Blel H, Diop K, Nirchio M, Garcia de Leon FJ, Whitfield AK, Chang CW, Borsa P, 2012. Systematics of the grey mullets (Teleostei: Mugiliformes: Mugilidae): molecular phylogenetic evidence challenges two centuries of morphology-based taxonomy. Molecular Phylogenetics and Evolution, 64:73-92. https://doi.org/10.1016/j.ympev.2012.03.006
  4. Frezal L, Leblois R, 2008. Four years of DNA barcoding: current advances and prospects. Infection, Genetics and Evolution, 8:727-736. https://doi.org/10.1016/j.meegid.2008.05.005
  5. Gornung E, Colangelo P, Annesi F, 2007. 5S Ribosomal RNA genes in six species of Mediterranean Grey Mullets: genomic organization and phylogenetic inference. Genome, 50: 787-795. https://doi.org/10.1139/G07-058
  6. Gornung E, Cordisco CA, Rossi AR, Innocentiis DS, Crosetti D, Sola L, 2001. Chromosomal evolution in Mugilidae: karyotype characterization of Liza saliens and comparative localization of major and minor ribosomal genes in the six Mediterranean mullets. Marine Biology, 139:55-60. https://doi.org/10.1007/s002270100576
  7. Hasegawa M, Kishino H, Yano T, 1985. Dating the human-ape split by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution, 22:160-174. https://doi.org/10.1007/BF02101694
  8. Balakirev ES, Krupnova TN, Ayala FJ, 2012. DNA variation in the phenotypically-diverse brown alga. Saccharina japonica. BMC Plant Biology, 12:108. https://doi.org/10.1186/1471-2229-12-108
  9. Caldara F, Bargelloni L, Ostellari L, Penzo E, Colombo L, Patarnello T, 1996. Molecular phylogeny of grey mullets based on mitochondrial DNA sequence analysis: evidence of differential rate of evolution at the intrafamily level. Molecular Phylogenetics and Evolution, 6:416-424. https://doi.org/10.1006/mpev.1996.0090
  10. Hebert PDN, Cywinska A, Ball SL, De Waard JR, 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society B: Biological Sciences, 270:313-321. https://doi.org/10.1098/rspb.2002.2218
  11. Heras S, Roldan MI, Castro MG, 2009. Molecular phylogeny of Mugilidae fishes revised. Reviews in Fish Biology and Fisheries, 19:217-231. https://doi.org/10.1007/s11160-008-9100-3
  12. Imsiridou A, Minos G, Katsares V, Karaiskou N, Tsiora A, 2007. Genetic identification and phylogenetic inferences in different Mugilidae species using 5S rDNA markers. Aquaculture Research, 38:1370-1379. https://doi.org/10.1111/j.1365-2109.2007.01808.x
  13. Lipscomb D, Platnick N, Wheeler Q, 2003. The intellectual content of taxonomy: a comment on DNA taxonomy. Trends in Ecology and Evolution, 18:65-66. https://doi.org/10.1016/S0169-5347(02)00060-5
  14. Liu JY, Brown CL, Yang TB, 2010. Phylogenetic relationships of mullets (Mugilidae) in China seas based on partial sequences of two mitochondrial genes. Biochemical Systematics and Ecology, 38:647-655. https://doi.org/10.1016/j.bse.2010.01.007
  15. Moritz C, Cicero C, 2004. DNA barcoding: promise and pitfalls. PLoS Biology, 2:e354. https://doi.org/10.1371/journal.pbio.0020354
  16. Murgia R, Tola G, Archer SN, Vallerga S, Hirano J, 2002. Genetic identification of grey mullet species (Mugilidae) by analysis of mitochondrial DNA sequence: application to identify the origin of processed ovary products (Bottarga). Marine Biotechnology, 4:119-126. https://doi.org/10.1007/s10126-001-0074-6
  17. Nelson JS, 2006. Fishes of the world. John Wiley & Sons, Inc., New York, pp. 1-601.
  18. Papasotiropoulos V, Klossa-Kilia E, Alahiotis S, Kilias G, 2007. Molecular phylogeny of grey mullets (Teleostei: Mugilidae) in Greece: evidence from sequence analysis of mtDNA segments. Biochemical Genetics, 45:623-636. https://doi.org/10.1007/s10528-007-9101-2
  19. Papasotiropoulos V, Klossa-Kilia E, Kilias G, Alahiotis S, 2001. Genetic divergence and phylogenetic relationships in grey mullets (Teleostei: Mugilidae) using allozyme data. Biochemical Genetics, 39:155-168. https://doi.org/10.1023/A:1010289224573
  20. Papasotiropoulos V, Klossa-Kilia E, Kilias G, Alahiotis S, 2002. Genetic divergence and phylogenetic relationships in grey mullets (Teleostei: Mugilidae) based on PCR-RFLP analysis of mtDNA segments. Biochemical Genetics, 40:71-86. https://doi.org/10.1023/A:1015162304934
  21. Posada D, Crandall KA, 1998. Modeltest: testing the model of DNA substitution. Bioinformatics, 14:817-818. https://doi.org/10.1093/bioinformatics/14.9.817
  22. Rizotti M, 1993. Fish hemoglobins: the family Mugilidae (Perciformes). Trends in Comparative Biochemistry and Physiology, 1:385-392.
  23. Rossi AR, Capula M, Crosetti D, Sola L, Campton DE, 1998. Allozyme variation in global populations of striped mullet, Mugil cephalus (Pisces: Mugilidae). Marine Biology, 131: 203-212. https://doi.org/10.1007/s002270050312
  24. Rossi AR, Ungaro A, De Innosentis S, Crosetti D, Sola L, 2004. Phylogenetic analysis of Mediterranean mugilids by allozymes and 16S mt-rRNA genes investigation: are the Mediterranean species of Liza monophyletic? Biochemical Genetics, 42:301-315. https://doi.org/10.1023/B:BIGI.0000039806.12756.81
  25. Sambrook J, Fritsch EF, Maniatis T, 1989. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, pp. 1-1626.
  26. Semina AV, Polyakova NE, Brykov VlA, 2007. Analysis of mitochondrial DNA: taxonomic and phylogenetic relationships in two fish taxa (Pisces: Mugilidae and Cyprinidae). Biochemistry (Moscow), 72:1349-1355. https://doi.org/10.1134/S0006297907120085
  27. Thomson JM, 1997. The Mugilidae of the world. Memoirs of the Queensland Museum, 41:457-562.
  28. Turan C, Caliskan M, Kucuktas H, 2005. Phylogenetic relationships of nine mullet species (Mugilidae) in the Meditteranean Sea. Hydrobiologia, 532:45-51. https://doi.org/10.1007/s10750-004-8772-5
  29. Ward RD, Woodwark M, Skibinski DOF, 1994. A comparison of genetic diversity levels in marine, freshwater, and anadromous fishes. Journal of Fish Biology, 44:213-232. https://doi.org/10.1111/j.1095-8649.1994.tb01200.x
  30. Zhang DX, Hewitt GM, 1996. Nuclear integrations: challenges for mitochondrial DNA markers. Trends in Ecology and Evolution, 11:247-251. https://doi.org/10.1016/0169-5347(96)10031-8