Molecular validity of nemacheilid loaches from Choman River drainage, Kurdistan, Iran



The validity of three morphologically described loach species viz. Oxynoemacheilus chomanicus, O. zagrosensis, O. kurdistanicus and one geographically newly reported species, Turcinoemacheilus kosswigi from Choman River drainage, in western Iran were evaluated using Cytochrome b gene. The results confirmed the validity of four Choman River’s loaches as distinct species and the four species were clustered well within Oxynoemacheilus and Turcinoemacheilus genera. Based on the results, Cytochrome b gene was useful tool for identification of Choman River’s loaches.



Sequences, Classification, Phylogenetic relationship, Taxonomy.

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Abdoli A., Golzarianpour K., Kiabi B., Naderi N., Patimar R. 2011. Status of the endemic loaches of Iran. Folia Zoologica 60(4): 362-367.

Azimi H., MousaviSabet H., Eagderi S., Vatandoust A. 2015. Osteological characteristics of Turkmenian stone loach, Paraschistura cristata (Cypriniformes: Nemacheilidae). International Journal Aquatic Biology 3(5): 290-300.

Baharum S.N., Nurdalila A.W.A. 2011. Phylogenetic relationships of Epinephelus fuscoguttatus and Epinephelus hexagonatus inferred from mitochondrial cytochrome b gene sequences using bioinformatic tools. International Journal of Bioscience, Biochemistry and Bioinformatics 1(1): 47-52.

Biswas S.K., Yokoyama K., Nishimura K., Miyaji M. 2001. Molecular phylogenetics of the genus Rhodotorula and related basidiomycetous yeasts inferred from the mitochondrial cytochrome b gene. International Journal of Systematic and Evolutionary Microbiology 51(3): 1191-1199.

Chaudhary A., Singh H.S. 2012. Description of two new species of the genus Thaparocleidus Jain, 1952 (Monogenea, Dactylogyridae) from freshwater fish in India: morphological and molecular phylogenetic evidence. Journal of Helminthology 87(2): 160-173.

Cicek E., Eagderi S., Sungue S. 2018. Oxynoemacheilus veyseli, a new nemacheilid species from the upper Aras River drainage of Turkey (Teleostei: Nemacheilidae). Iranian Journal of Ichthyology 5(3): 232-242.

Eschmeyer W.N., Fricke R., van der Laan R. 2020. Catalog of Fishes: Classification: scientists/catalog-of-fishes-classification/. Electronic version (accessed 3 Aug 2018).

Esmaeili H.R., Sayyadzadeh G., Eagderi S., Abbasi K. 2018. Checklist of freshwater fishes of Iran. Fishtaxa 3(3): 1-95.

Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39(4): 783-791.

Freyhof J., Abdullah Y.S. 2017. Two new species of Oxynoemacheilus from the Tigris drainage in Iraqi Kurdistan (Teleostei: Nemacheilidae). Zootaxa 4238(1): 073-087.

Freyhof J., Geiger F.M. 2017. Oxynoemacheilus zarzianus, a new loach from the Lesser Zab River drainage in Iraqi Kurdistan (Teleostei: Nemacheilidae). Zootaxa 4273(2): 258-270.

Freyhof J., Geiger F.M., Golzarianpour K., Patimar R. 2016. Sasanidus, a new generic name for Noemacheilus kermanshahensis Bănărescu & Nalbant, with discussion of Ilamnemacheilus and Schistura (Teleostei; Nemacheilidae). Zootaxa 4107(1): 065-080.

Golzarianpour K., Abdoli A., Patimar R., Freyhof J. 2013. Turcinoemacheilus hafezi, a new loach from the Zagroz Mountains, Iran (Teleostei: Nemacheilidae). Ichthyological Exploration of Freshwater 24(1): 41-48.

Hora S. L. 1932. Classification, binomics and evolution of homalopterid fishes. Memoirs of the Indian Museum 12(2): 260-330.

Huang S.P., Chen I.S., Yung M.M.N., Shao K.T. 2016. The recognition and molecular phylogeny of Mugilogobius mertoni Complex (Teleostei: Gobiidae), with description of a new cryptic species of M. flavomaculatus from Taiwan. Zoological Studies 55(39): 1-16.

Huang S.P., Zhao Y., Chen I.S., Shao K.T. 2017. A new species of Microphysogobio (Cypriniformes: Cyprinidae) from Guangxi Province, Southern China. Zoological Studies 56(8): 1-12.

Huelsenbeck J.P., Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17(8): 754-755.

Jamshidi S., Abdoli A., Sherafatian M., Golzarianpour K. 2013. Analysis of mitochondrial DNA sequences of Turcinoemacheilus genus (Nemacheilidae; Cypriniformes) in Iran. Iranian Journal of Fisheries Science 12(3): 592-604.

Kamangar B.B., Prokofiev A.M., Ghaderi E., Nalbant T.T. 2014. Stone loaches of Choman River system, Kurdistan, Iran (Teleostei: Cypriniformes: Nemacheilidae). Zootaxa 3755(1): 033-061.

Kimura M. 1980. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16(2): 111-120.

Li X., Shen X., Chen X., Xiang D., Murphy R.W., Shen Y. 2018. Detection of potential problematic Cytb gene sequences of fishes in GenBank. Frontieris in Genetics 9: 30.

Lokeshwor Y., Barat A., Sati J., Darshan A., Vishwanath W., Mahanta P.C. 2012. Schistura obliquofascia, a new loach from Uttarakhand, India (Cypriniformes: Nemacheilidae). Zootaxa 3586(1): 255-263.

Meyer A. 1993. Evolution of mitochondrial DNA in fishes. In: P. Hochachka, T.P. Mommsen (Eds.). The biochemistry and molecular biology of fishes. Vol. 2. Amsterdam, Elsevier. pp: 1-38.

Min R., Yang J.X., Chen X.Y., Whitterbottom R., Mayden R. 2012. Phylogenetic relationships of the genus Homatula (Cypriniformes: Nemacheilidae), with special reference to the biogeographic history around the Yunnan-Guizhou Plateau. Zootaxa 3586(1): 78-94.

Perdices A., Cunha C., Coelho M.M. 2004. Phylogenetic structure of Zacco platypus (Teleostei, Cyprinidae) populations on the upper and middle Chang Jiang (=Yangtze) drainage inferred from cytochrome b sequences. Molecular Phylogenetics and Evolution 31(1): 192-203.

Perkins S.L., Schall J.J. 2002. A molecular phylogeny of malarial parasites recovered from cytochrome b gene sequences. Journal of Parasitology 88(5): 972-978.

Rambaut A. 2019. FigTree v1.3.1: tree figure drawing tool. Available from: (accessed 16 August 2016).

Regan C.T. 1911. The classification of teleostean fishes of the order Ostariophysi. i. Cobitoidea. The Annals and Magazine of Natural History 8(43): 13-32.

Sawada Y. 1982. Phylogeny and zoogeography of the superfamily Cobitoidea (Cyprinoidei, Cypriniformes). Memoirs of the Faculty of Fisheries Hokkaido University 28(2): 65-223.

Sayyadzadeh G., Eagderi S., Esmaeili H.R. 2016. A new loach of the genus Oxynoemacheilus from the Tigris River drainage and its phylogenetic relationships among the nemacheilid fishes (Teleostei: Nemacheilidae) in the Middle East based on mtDNA COI sequences. Iranian Journal of Ichthyology 3(4): 236-250.

Sediva A., Apostolou A., Kohout J., Bohlen J. 2010. Molecular phylogeographic analyses of the loach Oxynoemacheilus bureschi reveal post-glacial range extensions across the Balkans. Journal of Fish Biology 76(2): 357-368.

Siebert D.J. 1987. Interrelationships among families of the order Cypriniformes (Teleostei). PhD Thesis, University of New York. 354 p.

Stamatakis A. 2006. RAxML-VI-HPC: Maximum Likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22(21): 2688-2690.

Stamatakis A., Hoover P., Rougemont J. 2008. A fast bootstrapping algorithm for the RAxML Web-Servers. Systematic Biology 57(5): 758-771.

Sungur S., Jalali P., Eagderi S. 2017. Oxynoemacheilus ciceki, new nemacheilid species (Teleostei, Nemacheilidae) from the Sultan Marsh, Kayseri Province, Turkey. Iranian Journal of Ichthyology 4(4): 375-383.

Swofford D.L. 2002. PUAP*; phylogenetic analysis using parsimony (* and other methods). Version 4. Sunderland (MA): Sinauer Associates.

Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. 2013. MEGA 6: Molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution 30: 2725-2729.

Tang Q., Liu H., Mayden R.L., Xiong B. 2006. Comparison of evolutionary rate in the mitochondrial DNA cytochrome b gene and control region and their implications for phylogeny of the Cobitoidea (Teleostei: Cypriniformes). Molecular Phylogenetics and Evolution 39(2): 347-357.

Teletchea F. 2009. Molecular identification methods of fish species: reassessment and possible applications. Reviews in Fish Biology and Fisheries 19(3): 265-293.

Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25(24): 4876-4882.

Zhang F., Zhu L., Zhang L., Wang W., Sun G. 2017. Phylogeography of freshwater fishes of the Qilian mountain area (Triplophysa leptosome, Cobitidae: Cypriniformes). Environmental Biology of Fishes 100(11): 1383-1396.


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