Molecular phylogeny of the cyprinid tribe Labeonini (Teleostei: Cypriniformes)

Molecular Phylogenetics and Evolution

Volumn 65, Issue 2, 2012, Pages 362-379

  Yang, Lei ^a   Arunachalam, M ^b   Sado, Tetsuya ^c   Levin, Boris A ^d,e   Golubtsov, Alexander S ^e   Freyhof, Jörg ^f   Friel, John P ^g   Chen, Wei Jen ^h   Vincent Hirt, M ⁱ   Manickam, Raja ^b   Agnew, Mary K ^a   Simons, Andrew M ⁱ   Saitoh, Kenji ^j   Miya, Masaki ^c   Mayden, Richard L ^a   He, Shunping ^k  

^a SAINT LOUIS UNIVERSITY   (United States)

^b MANONMANIAM SUNDARANAR UNIVERSITY   (India)

^c NATURAL HISTORY MUSEUM AND INSTITUTE   (Japan)

^d PAPANIN INSTITUTE FOR BIOLOGY OF INLAND WATERS   (Russian Federation)

^e SEVERTSOV INSTITUTE OF ECOLOGY AND EVOLUTION   (Russian Federation)

^f LEIBNIZ INSTITUTE OF FRESHWATER ECOLOGY AND INLAND FISHERIES   (Germany)

^g Institute of Oceanography ^*  (United States)

^h NATIONAL TAIWAN UNIVERSITY   (Taiwan)

ⁱ UNIVERSITY OF MINNESOTA   (United States)

^j FISHERIES RESEARCH AGENCY   (Japan)

^k INSTITUTE OF HYDROBIOLOGY   (China)

more..

Author keywords

Classification; Cyprinidae; Labeoninae; Morphology; Systematics; Taxonomy

Indexed keywords

ANIMAL; ARTICLE; CELL NUCLEUS; CLASSIFICATION; CYPRINIFORMES; DNA SEQUENCE; EVOLUTION; GENETICS; MITOCHONDRIAL GENE; PHYLOGENY; STATISTICAL MODEL;

ANIMALS; BIOLOGICAL EVOLUTION; CELL NUCLEUS; CYPRINIDAE; GENES, MITOCHONDRIAL; LIKELIHOOD FUNCTIONS; PHYLOGENY; SEQUENCE ANALYSIS, DNA;

CIRRHINUS; CROSSOCHEILUS; CYPRINIDAE; CYPRINIFORMES; GARRA; GONORYNCHUS; LABEO; OSTEOCHILUS; PISCES; TELEOSTEI; THYNNICHTHYS;

EID: 84866148232     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2012.06.007     Document Type: Article

References (63)

1. An L., Liu B.S., Zhao Y.H., Zhang C.G. Protolabeo protolabeo, a new genus and a new species of labeonine fishes from southwest China (Teleostei, Cyprinidae). Acta Zootaxon. Sin. 2010, 35:661-665. (in Chinese with English summary).
2. Arai R. Fish Karyotypes: A Check List 2011, Springer, Japan.
3. Bânârescu, P., 1986. A review of the species of Crossocheilus, Epalzeorhynchos and Paracrossochilus (Pisces, Cyprinidae). Travaux du Museum d'Histoire Naturelle; Grigore Antipa; vol. 28, pp. 141-161.
4. Banister K.E. A subterranean population of Garra barreimiae (Teleostei: Cyprinidae) from Oman, with comments on the concept of regressive evolution. J. Nat. Hist. 1984, 18:927-938.
5. Cavender T.M., Coburn M.M. Phylogenetic relationships of North American Cyprinidae. Systematics, Historical Ecology, and North American Freshwater Fishes 1992, 293-327. Stanford University Press, Stanford, CA. R.L. Mayden (Ed.).
6. Chen X.L., Yue P.Q., Lin R.D. Major groups within the family Cyprinidae and their phylogenetic relationships. Acta Zootaxon. Sin. 1984, 9:424-440. (in Chinese with English summary).
7. Chen W.-J., Lheknim V., Mayden R.L. Molecular phylogeny of the Cobitoidea (Teleostei: Cypriniformes) revisited: position of enigmatic loach Ellopostoma resolved with six nuclear genes. J. Fish Biol. 2009, 75:2197-2208.
8. Colli L., Paglianti A., Berti R., Gandolfi G., Tagliavini J. Molecular phylogeny of the blind cavefish Phreatichthys andruzzii and Garra barreimiae within the family Cyprinidae. Environ. Biol. Fish 2009, 84:95-107.
9. Day, F., 1877. The fishes of India; being a natural history of the fishes known to inhabit the seas and fresh waters of India, Burma, and Ceylon. Part 3, pp. 369-552, Pls. 79-138.
10. Doosey M.H., Bart H.L., Saitoh K., Miya M. Phylogenetic relationships of catostomid fishes (Actinopterygii: Cypriniformes) based on mitochondrial ND4/ND5 gene sequences. Mol. Phylogenet. Evol. 2009, 54:1028-1034.
11. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39:783-791.
12. Galtier N., Gouy M., Gautier C. SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Comput. Appl. Biosci. 1996, 12:543-548.
13. Hamilton, F., 1822. An Account of the Fishes Found in the River Ganges and its Branches. Edinburgh & London, pp. i-vii+1-405, Pls. 1-39.
14. Hora, S.L., 1942. Notes on fishes in the Indian Museum. XLII. On the systematic position of the Indian species of Scaphiodon Heckel. XLIII. On the systematic position of Cyprinus nukta Sykes. Rec. Indian Mus. (Calcutta) 44, 1-14.
15. Huang, Y.F., Yang, J.X., Chen, X.Y., in press. Stenorynchoacrum, a new genus of labeonine fish from Guangxi, China (Cypriniformes: Cyprinidae). Zootaxa.
16. Karnasuta J. Systematic revision of southeastern Asiatic cyprinid fish genus Osteochilus with description of two new species and a new subspecies. Kasetsart Univ. Fish. Res. Bull. 1993, 19:1-105.
17. Kottelat, M., 2001a. Fishes of Laos. WHT Publications (Pte) Ltd. Fishes of Laos., pp. 1-198, Pls. 1-48, figs. 1-65.
18. Kottelat, M., 2001b. Freshwater Fishes of Northern Vietnam. A Preliminary Check-list of the Fishes Known or Expected to Occur in Northern Vietnam with Comments on Systematics and Nomenclature. Environment and Social Development Unit, East Asia and Pacific Region. The World Bank. Freshwater Fish. Vietnam (BOOK), June: i-iii+1-123+1-18.
19. Kottelat M., Steiner H. Bangana musaei, a new cave fish from central Laos (Teleostei: Cyprinidae). Ichthyol. Explor. Freshw. 2010, 21:313-322.
20. Li J.B., Wang X.Z., He S.P., Chen Y.Y. Phylogenetic studies of Chinese labeonin fishes (Teleostei: Cyprinidae) based on the mitochondrial 16S rRNA gene. Prog. Nat. Sci. 2005, 15:213-219.
21. Li J.B., Wang X.Z., Kong X.H., Zhao K., He S.P., Mayden R.L. Variation patterns of the mitochondrial 16S rRNA gene with secondary structure constraints and their application to phylogeny of cyprinine fishes (Teleostei: Cypriniformes). Mol. Phylogenet. Evol. 2008, 47:472-487.
22. Mayden R.L., Chen W.-J. The world's smallest vertebrate species of the genus Paedocypris: a new family of freshwater fishes and the sister group to the world's most diverse clade of freshwater fishes (Teleostei: Cypriniformes). Mol. Phylogenet. Evol. 2010, 57:152-175.
23. Mayden R.L., Chen W.-J., Bart H.L., Doosey M.H., Simons A.M., Tang K.L., Wood R.M., Agnew M.K., Yang L., Hirt M.V., Clements M.D., Saitoh K., Sado T., Miya M., Nishida M. Reconstructing the phylogenetic relationships of the earth's most diverse clade of freshwater fishes-order Cypriniformes (Actinopterygii: Ostariophysi): a case study using multiple nuclear loci and the mitochondrial genome. Mol. Phylogenet. Evol. 2009, 51:500-514.
24. Menon A.G.K. Monograph of the Cyprinid Fishes of the genus Garra Hamilton. Mem. Ind. Mus. 1964, 14:173-260.
25. Menon, A.G.K., 1999. Check List - Fresh Water Fishes of India. Rec. Zool. Surv. India Misc. Publ. Occas. Pap. No. 175, pp. i-xxviii+1-366.
26. Nelson J.S. Fishes of the World 2006, Wiley, New York, 601 p. fourth ed.
27. Pethiyagoda R., Kottelat M. Three new species of fishes of the genera Osteochilichthys (Cyprinidae), Travancoria (Balitoridae) and Horabagrus (Bagridae) from the Chalakudy River, Kerala, India. J. South Asian Nat. Hist. 1994, 1:97-116.
28. Rainboth W.J. Cyprinid fishes of Southeast Asia. Cyprinid Fishes: Systematics, Biology and Exploitation 1991, 156-210. Chapman and Hall, London. I.J. Winfield, J.S. Nelson (Eds.).
29. Rainboth W.J. Fishes of the Cambodian Mekong. FAO Species Identification Field Guide for Fishery Purposes 1996, United Nations Food and Agriculture Organization, Rome.
30. Raju Thomas K., George M.J., Biju C.R. Freshwater fishes of southern Kerala with notes on the distribution of endemic and endangered species. J. Bombay Nat. Hist. Soc. 2002, 99:47-53.
31. Reid G.Mc.G. The form, function and phylogenetic significance of the vomeropalatine organ in cyprinid fishes. J. Nat. Hist. 1982, 16:497-510.
32. Reid G.Mc.G. A revision of African species of Labeo (Pisces: Cyprinidae) and a re-definition of the genus. Theses Zool. Cramer, Braunschweig. 1985, 6:1-322.
33. Roberts T.R. Systematic revision of the Southeast Asian Cyprinid fish genus Labiobarbus (Teleostei: Cyprinidae). Raffles Bull. Zool. 1993, 41:315-329.
34. Roberts T.R. Systematic revision of the tropical Asian labeoin cyprinid fish genus Cirrhinus, with descriptions of new species and biological observations on C. lobatus. Nat. Hist. Bull. Siam Soc. 1997, 45:171-203.
35. Rüber L., Kottelat M., Tan H.H., Ng P.K.L., Britz R. Evolution of miniaturization and the phylogenetic position of Paedocypris, comprising the world's smallest vertebrate. BMC Evol. Biol. 2007, 7:38.
36. Shimodaira H. Approximately unbiased tests of regions using multistep-multiscale bootstrap resampling. Ann. Stat. 2004, 32:2616-2641.
37. Shimodaira H., Hasegawa M. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 1999, 16:1114-1116.
38. Shimodaira H., Hasegawa M. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 2001, 17:1246-1247.
39. Sibert D.J., Tjakraeidjaja A.H. Revision of Schismatorhynchos Bleeker, 1855 (Teleostei, Cyprinidae), with the description of two new species from Borneo. Bull. Nat. Hist. Mus. Lond. (Zool.) 1998, 64:97-109.
40. Silas E.G. New fishes from the Western Ghats, with notes on Puntius arulius (Jerdon). Rec. Indian Mus. 1954, 51:27-37.
41. Šlechtová V., Bohlen J., Tan H.H. 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. 2007, 44:1358-1365.
42. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690.
43. Stamatakis A., Hoover P., Rougemont J. A rapid bootstrap algorithm for the RAxML web-servers. Syst. Biol. 2008, 57:758-771.
44. Stiassny M.L.J., Getahun A. An overview of labeonin relationships and the phylogenetic placement of the Afro-Asian genus Garra Hamilton, 1922 (Teleostei: Cyprinidae), with the description of five new species of Garra from Ethiopia, and a key to all African species. Zool. J. Linn. Soc. 2007, 150:41-83.
45. Swofford, D.L., 2002. PAUP: Phylogenetic Analysis Using Parsimony (and other methods), Version 4.0b10. Sinauer Associates, Sunderland, MA.
46. Talwar P.K., Jhingran A.G. Inland Fishes of India and Adjacent Countries 1991, vol. 1. A.A. Balkema, Rotterdam, 541 p.
47. Tang Q.Y., Getahun A., Liu H.Z. Multiple in-to-Africa dispersals of labeonin fishes (Teleostei: Cyprinidae) revealed by molecular phylogenetic analysis. Hydrobiologia 2009, 632:261-271.
48. Tang K.L., Agnew M.K., Hirt M.V., Sado T., Schneider L.M., Freyhof J., Sulaiman Z., Swartz E., Vidthayanon C., Miya M., Saitoh K., Simons A.M., Wood R.M., Mayden R.L. Systematics of the subfamily Danioninae (Teleostei: Cypriniformes: Cyprinidae). Mol. Phylogenet. Evol. 2010, 57:189-214.
49. Tang K.L., Agnew M.K., Chen W.-J., Hirt M.V., Raley M.E., Sado T., Schneider L.M., Yang L., Bart H.L., He S.P., Liu H.Z., Miya M., Saitoh K., Simons A.M., Wood R.M., Mayden R.L. Phylogeny of the gudgeons (Teleostei: Cyprinidae: Gobioninae). Mol. Phylogenet. Evol. 2011, 6:103-124.
50. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. The Clustal X windows interface: flexible strategies for multiple sequences alignment aided by quality analysis tools. Nucleic Acids Res. 1997, 25:4876-4882.
51. Wang X.Z., Li J.B., He S.P. Molecular evidence for the monophyly of East Asian groups of Cyprinidae (Teleostei: Cypriniformes) derived from the nuclear recombination activating gene 2 sequences. Mol. Phylogenet. Evol. 2007, 42:157-170.
52. Xiao H., Chen S.Y., Liu Z.M., Zhang R.D., Li W.X., Zan R.G., Zhang Y.P. Molecular phylogeny of Sinocyclocheilus (Cypriniformes: Cyprinidae) inferred from mitochondrial DNA sequences. Mol. Phylogenet. Evol. 2005, 36:67-77.
53. Yang L., Mayden R.L. Phylogenetic relationships, subdivision, and biogeography of the Cyprinid tribe Labeonini (sensu Rainboth, 1991) (Teleostei: Cypriniformes), with comments on the implications of lips and associated structures in the labeonin classification. Mol. Phylogenet. Evol. 2010, 54:254-265.
54. Yang L., Mayden R.L., Sado T., He S.P., Saitoh K., Miya M. Molecular phylogeny of the fishes traditionally referred to Cyprinini sensu stricto (Teleostei: Cypriniformes). Zool. Scr. 2010, 39:527-550.
55. Yang J.X., Winterbottom R. Phylogeny and zoogeography of the Cyprinid genus Epalzeorhynchos Bleeker (Cyprinidae: Ostariophysi). Copeia 1998, 1998:48-63.
56. Zhang E., Chen Y.Y. Qianlabeo striatus, a new genus and species of Labeoninae from Guizhou Province, China (Teleostei: Cyprinidae). Hydrobiologia 2004, 527:25-33.
57. Zhang E., Chen Y.Y. Revised diagnosis of the genus Bangana Hamilton, 1822 (Pisces: Cyprinidae), with taxonomic and nomenclatural notes on the Chinese species. Zootaxa 2006, 1281:41-54.
58. Zhang E., Fang F. Linichthys: a new genus of Chinese cyprinid fishes (Teleostei: Cypriniformes). Copeia 2005, 2005:61-67.
59. Zhang E., Yue P.Q., Chen J.X. Labeoninae. Fauna Sinica (Osteichthyes: Cypriniformes III) 2000, 172-272. Science Press, Beijing. P.Q. Yue (Ed.).
60. Zhang E., Kullander S.O., Chen Y.Y. Fixation of the type species of the genus Sinilabeo and description of a new species from the Upper Yangtze River basin, China (Pisces: Cyprinidae). Copeia 2006, 2006:96-102.
61. Zheng L.P., Yang J.X., Chen X.Y., Wang W.Y. Phylogenetic relationships of the Chinese Labeoninae (Teleostei, Cypriniformes) derived from two nuclear and three mitochondrial genes. Zool. Scr. 2010, 39:559-571.
62. Zheng, L.P., Yang, J.X., Chen, X.Y., in press. Phylogeny of the Labeoninae (Teleostei, Cypriniformes) based on nuclear DNA sequences and implications on character evolution and biogeography. Curr. Zool.
63. Zhu Y., Zhang E., Zhang M., Han Y.Q. Cophecheilus bamen, a new genus and species of labeonine fishes (Teleostei: Cyprinidae) from South China. Zootaxa 2011, 2881:39-50.