A large-scale phylogeny of Synodontis (Mochokidae, Siluriformes) reveals the influence of geological events on continental diversity during the Cenozoic

Molecular Phylogenetics and Evolution

Volumn 66, Issue 3, 2013, Pages 1027-1040

  Pinton, Aurélie ^a   Agnèse, Jean François ^b   Paugy, Didier ^c,d   Otero, Olga ^a  

^a UNIVERSITÉ DE POITIERS   (France)

^b UNIV MONTPELLIER   (France)

^c MUSÉUM NATIONAL D'HISTOIRE NATURELLE   (France)

^d INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

Author keywords

Africa; Catfish; Cenozoic; Geotectonic events; Phylogeography; Synodontis

Indexed keywords

PRIMER DNA;

AFRICA; ANIMAL; ANIMAL DISPERSAL; ARTICLE; BAYES THEOREM; BIODIVERSITY; BIOLOGICAL MODEL; CATFISH; DNA SEQUENCE; GENETICS; GEOGRAPHIC AND GEOLOGICAL PHENOMENA; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; STATISTICAL MODEL;

AFRICA; ANIMAL DISTRIBUTION; ANIMALS; BASE SEQUENCE; BAYES THEOREM; BIODIVERSITY; CATFISHES; DNA PRIMERS; EVOLUTION, MOLECULAR; GEOLOGICAL PROCESSES; LIKELIHOOD FUNCTIONS; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ANALYSIS, DNA;

MOCHOKIDAE; PISCES; SILURIFORMES; SYNODONTIS;

EID: 84873172034     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2012.12.009     Document Type: Article

References (59)

1. Bell-Cross G. The distribution of fishes in Central Africa. Fish. Res. Bull. Zamb. 1965, 4:3-20.
2. Brandstätter A., Salzburger W., Sturmbauer C. Mitochondrial phylogeny of the Cyprichromini, a lineage of open-water cichlid fishes endemic to Lake Tanganyika, East Africa. Mol. Phylogenet. Evol. 2005, 34:382-391.
3. Brown K.J., Ruber L., Bills R., Day J.J. Mastacembelid eels support lake Tanganyika as an evolutionary hotspot of diversification BMC. Evol. Biol. 2010, 10:188.
4. Chow S., Hazama K. Universal PCR primers for S7 ribosomal protein gene introns in fish. Mol. Ecol. 1998, 7:1255-1256.
5. Cohen A.S., Lezzar K.E., Tiercelin J.J., Soreghan M. New paleogeographic and lake-level reconstructions of Lake Tanganyika: implications for tectonic, climatic and biological evolution in a rift lake. Basin Res. 1997, 7:107-132.
6. Cotterill F.P.D., de Wit M.J. Geoecodynamics and the Kalahari Epeirogeny: linking its genomic record, tree of life and palimpsest into a unified narrative of landscape evolution. S. Afr. J. Geol. 2011, 114:493-518.
7. Currie D.J., Mittelbach G.G., Cornell H.V., Field R., Guegan J.-F., Hawkins B.A., Kaufman D.M., Kerr J.T., Oberdoff T., O'Brien E., Turner J.R.G. Predictions and tests of climate-based hypotheses of broad-scale variation in taxonomic richness. Ecol. Lett. 2004, 7:1121-1134.
8. Day J.J., Wilkinson M. On the origin of the Synodontis catfish species flock from Lake Tanganyika. Biol. Lett. 2006, 2:548-552.
9. Day J.J., Santini S., Garcia-Moreno J. Phylogenetic relationships of the Lake Tanganyika cichlid tribe Lamprologini: the story from mitochondrial DNA. Mol. Phylogenet. Evol. 2007, 45:629-642.
10. Day J.J., Bills R., Friel J.P. Lacustrine radiation in African Syndontis catfish. J. Evol. Biol. 2009, 22:805-817.
11. Drummond A.J., Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 2007, 7:214.
12. Drummond A.J., Ho S.Y.W., Phillips M.J., Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 2006, 4:e88. 10.1371/journal.pbio.0040088.
13. Duftner N., Koblmüller S., Sturmbauer C. Evolutionary relationships of the Limnochromini, a tribe of benthic deep water cichlid fishes endemic to Lake Tanganyika, East Africa. J. Mol. Evol. 2005, 60:277-289.
14. Ebinger C.J., Deino A.L., Tesha A.L., Becker T., Ring U. Tectonic controls on rift basin morphology: evolution of the northern Malawi (Nyasa) Rift. J. Geophys. Res. 1993, 98:17821-17836.
15. Fairhead J.D. Mesozoic plate tectonic reconstructions of the Central South Atlantic Ocean: the role of the West and Central African Rift system. Tectonophysics 1988, 155:181-191.
16. Farris J.S., Källersjö M., Kluge A.G., Bult C. Testing significance of incongruence. Cladistics 1995, 10:315-319.
17. Genner M.J., Seehausen O., Lunt D.H., Joyce D.A., Shaw P.W., Carvalho G.R., Turner G.F. Age of cichlids: new dates for ancient lake fish radiations. Mol. Biol. Evol. 2007, 24:1269-1282.
18. Goodier S.A.M., Cotterill F.P.D., O'Ryan C., Skelton P.H., de Wit M.J. Cryptic diversity of African Tigerfish (Genus Hydrocynus) reveals palaeogeographic signatures of linked neogene geotectonic events. PLoS One 2011, 6:e28775. 10.1371/journal.pone.0028775.
19. Hedges S.B., Kumar S. Precision of molecular time estimates. Trends Genet. 2004, 20:242-247.
20. Hewitt G.M. The genetic legacy of the Quaternary ice age. Nature 2000, 405:907-913.
21. Ho S.Y.W. Calibrating molecular estimates of substitution rates and divergence times in birds. J. Avian Biol. 2007, 38:409-414.
22. Huelsenbeck J.P., Ronquist F. MRBAYEAYES: Bayesian inference of phylogeny. Bioinformatics 2001, 17:754-755.
23. Kass R.E., Raftery A.E. Bayes factors. J. Am. Stat. Assoc. 1995, 90:773-795.
24. Katongo C., Koblmuller S., Duftner N., Mumba L., Sturmbauer C. Evolutionary history and biogeographic affinities of the serranochromine cichlids in Zambian rivers. Mol. Phylogenet. Evol. 2007, 45:326-338.
25. Koblmüller S., Duftner N., Katongo C., Phiri H., Sturmbauer C. Ancient divergence in bathypelagic Lake Tanganyika deepwater cichlids: mitochondrial phylogeny of the tribe Bathybatini. J. Mol. Evol. 2005, 60:297-314.
26. Koblmüller S., Strurmbauer C., Verheyen E., Meyer A., Salzburger A. Mitochondrial phylogeny and phylogeography of East African squeaker catfishes (Siluriformes: Synodontis). BMC Evol. Biol. 2006, 6:49.
27. Koblmüller S., Duftner N., Sefc K.M., Aibara M., Stipacek M., Blanc M., Egger B., Sturmbauer C. Reticulate phylogeny of gastropod-shell-breeding cichlids from Lake Tanganyika-the result of repeated introgressive hybridization. BMC Evol. Biol. 2007, 7:7.
28. Koblmüller S., Egger B., Sturmbauer C., Sefc K.M. Evolutionary history of Lake Tanganyika's scale-eating cichlid fishes. Mol. Phylogenet. Evol. 2007, 44:1295-1305.
29. Koblmüller S., Schliewen U.K., Duftner N., Sefc K.M., Katongo C., Sturmbauer C. Age and spread of the haplochromine cichlid fishes in Africa. Mol. Phylogenet. Evol. 2008, 49:153-169.
30. Kocher T.D., Conroy J.A., McKaye K.R., Stauffer J.R., Lockwood S.F. Evolution of NADH dehydrogenase subunit 2 in east African cichlid fish. Mol. Phylogenet. Evol. 1995, 4:420-432.
31. Lévêque C. Biodiversity Dynamics and Conservation: The Freshwater Fish of Tropical Africa 1997, Cambridge University Press, Cambridge.
32. Lévêque C., Oberdorff T., Paugy D., Stiassny M.L.J., Tedesco P.A. Global diversity of fish (Pisces) in freshwater. Hydrobiology 2008, 595:545-567.
33. Lundberg J.G. The temporal context for the diversification of neotropical fishes. Phylogeny and Classification of Neotropical Fishes 1998, 48-68. EDIPUCRS, Porto Alegre, Brasil. L.R. Malabarba, R.E. Reis, R.P. Vari, Z.M.S. Lucena, C.A.S. Lucena (Eds.).
34. Marshall C.R. The fossil record and estimating divergence times between lineages: maximum divergence times and the importance of reliable phylogenies. J. Mol. Evol. 1990, 30:400-408.
35. Miller E.R. Faunal correlation of Wadi Moghara, Egypt: implications for the age of Prohylobates tandyi. J. Hum. Evol. 1999, 36:519-533.
36. Montoya Burgos J.I. Historical biogeography of the catfish genus Hypostomus (Siluriformes: Loricariidae), with implications on the diversification of Neotropical ichthyofauna. Mol. Ecol. 2003, 12:1855-1867.
37. Moore A.E., Larkin P.A. Drainage evolution in South-Central Africa since the breakup of Gondwana. S. Afr. J. Geol. 2001, 104:47-68.
38. Murray A.M., Cook T.D., Attia Y.S., Chatrath P., Simons E.L. A freshwater ichthyofauna from the Late Eocene Birket Qarun Formation, Fayum. Egypt. J. Vertebr. Paleontol. 2010, 30:665-680.
39. Nylander, J.A.A., 2004. MrModeltest2. Ver. 2. 2. Evolutionary Biology Centre, Uppsala University. http://www.abc.se/~nylander.
40. Otero O., Gayet M. Palaeoichthyofauna from the Lower Oligocene and Miocene of the Arabian Plate: palaeoecological and palaeobiogeographical implications. Palaeogeogr. Palaecol. 2001, 165:141-169.
41. Otero O. What controls the freshwater fish fossil record? A focus on the Late Cretaceous and Tertiary of Afro-Arabia. Cybium 2010, 34:93-113.
42. Otero, O., Pinton, A., Cappetta, H., Valentin, X., et al. in preparation. Late middle Eocene fish from Dur At-Talah (Libya) and new early records for modern African freshwater fish.
43. Posada D., Buckley T.R. Model selection and model averaging in phylogenetics: advantages of the AIC and Bayesian approaches over likelihood ratio tests. Syst. Biol. 2004, 53:793-808.
44. Priem R. Poissons fossiles du Miocène d'Egypte (Burdigalien de Moghara, "Désert lybique"). Contribution à l'étude des vertébrés miocènes de l'Egypte 1920, 8-15. Government Press, Cairo. R. Fourtau (Ed.).
45. Pyron R.A., Burbrink F.T. Hard and soft allopatry: physically and ecologically mediated modes of geographic speciation. J. Biogeogr. 2010, 37:2005-2015.
46. Ree R.H., Moore B.R., Webb C.O., Donoghue M.J. A likelihood framework for inferring the evolution of geographic range on phylogenetic trees. Evolution 2005, 59:2299-2311.
47. Ree R.H., Smith S.A. Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Syst. Biol. 2008, 57:4-14.
48. Roberts T.R. Geographical distribution of African freshwater fishes. Zool. J. Linn. Soc-Lond. 1975, 57:249-319.
49. Salzburger W., Mack T., Verheyen E., Meyer A. Out of Tanganyika: Genesis, explosive speciation, key-innovations and phylogeography of the haplochromine cichlid fishes. BMC Evol. Biol. 2005, 5:17.
50. Snoeks J., De Vos L., Thys van den Audenaerde D. The ichtyogeography of Lake Kivu. S. Afr. J. Sci. 1997, 93:579-584.
51. Stankiewicz J., de Wit M.J. A proposed drainage evolution model for Central Africa-Did the Congo flow East?. J. Afr. Earth Sci. 2006, 44:75-84.
52. Stewart K.M. The freshwater fish of neogene Africa (Miocene-Pleistocene): systematics and biogeography. Fish Fish. 2001, 2:177-230.
53. Swofford D.L. PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4 2001, Sinauer, Sunderland, Massachusetts, USA.
54. Thieme M.L., Abell R.A., Stiassny M.L.J., Skelton P.H., Lehner B. Freshwater Ecoregions of Africa and Madagascar: A Conservation Assessment 2005, Island Press, Washington (DC), USA.
55. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. The CLUSTALX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 1997, 24:4876-4882.
56. White E. Fossil fishes of Sokoto Province. Bull. Geol. Surv. Nigeria 1935, 14:1-78.
57. Willis K.J., Niklas K.J. The role of Quaternary environmental change in plant macroevolution, the exception or the rule?. Philos. T. Roy. Soc. B 2004, 359:159-172.
58. Yu Y., Harris A.J., He X. S-DIVA (Statistical Dispersal-Vicariance Analysis): a tool for inferring biogeographic histories. Mol. Phyl. Evol. 2010, 56:848-850.
59. Zwickl, D.J., 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. Ph.D. Dissertation, University of Texas at Austin.