Molecular phylogenetics of shrews (Mammalia: Soricidae) reveal timing of transcontinental colonizations

Molecular Phylogenetics and Evolution

Volumn 44, Issue 1, 2007, Pages 126-137

  Dubey, Sylvain ^a   Salamin, Nicolas ^a   Ohdachi, Satoshi D ^b   Barrière, Patrick ^c   Vogel, Peter ^a  

^a UNIVERSITY OF LAUSANNE   (Switzerland)

^b HOKKAIDO UNIVERSITY   (Japan)

^c UNIVERSITÉ DE RENNES 1   (France)

Author keywords

Africa, Asia, America; Colonization; Miocene; Phylogeny; Soricidae

Indexed keywords

ANOUROSOREX; CROCIDURA; CROCIDURINAE; MAMMALIA; MYOSOREX; SORICIDAE; SORICINAE; SUNCUS; SYLVISOREX;

EID: 34249684282     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2006.12.002     Document Type: Article

References (93)

1. Alroy J. Taxonomic inflation and body mass distributions in North American fossil mammals. J. Mammal. 84 (2003) 431-443
2. Azzaroli A., and Guazzone G. Terrestrial mammals and land connections in the Mediterranean before and during the Messinian. Palaeogeogr. Palaeoclimatol. Palaeoecol. 29 (1979) 155-167
3. Barrett M., Donoghue M.J., and Sober E. Against consensus. Syst. Zool. 40 (1991) 486-493
4. Beerli, P., Edwards, S.V., 2002. When did the Neanderthals and modern humans diverge? Centenary Anniversary Anthropology Institute University of Zurich (1999), Supplement Evolutionary Anthropology.
5. Brant S.V., and Orti G. Molecular phylogeny of short-tailed shrews, Blarina (Insectivora: Soricidae). Mol. Phylogenet. Evol. 22 (2002) 163-173
6. Butler P.M. Macroscelidea, insectivora and chiroptera from the Miocene of EastAfrica. Paleovertebrata 14 (1984) 117-200
7. Butler P.M. Fossil history of shrews in Africa. In: Wojcik J.M., and Wolsan M. (Eds). Evolution of Shrews (1998), Mammal Research Institute, Polish Academy of Science, Bialowieza pp. 121-132
8. Catzeflis F., Maddalena T., Hellwing S., and Vogel P. Unexpected findings on the taxonomic status of East Mediterranean Crocidura russula Auct (Mammalia, Insectivora). Z. Saugetierkd.-Int. J. Mamm. Biol. 50 (1985) 185-201
9. Chevret, P., 1994. Etudeévolutive des Murinae (rongeurs: mammifères) africains par hybridation ADN/ADN: Comparaison avec les approches morphologiques et paléontologiques, Ph.D. dissertation, University of Montpellier II, Montpellier.
10. Cox C.B., and Moore P.D. Biogeography: An Ecological and Evolutionary Approach (1993), Blackwell Sci., Oxford pp. 298
11. Cunningham C.W. Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing and iterative procedure for choosing among phylogenetic methods. Syst. Biol. 46 (1997) 464-478
12. Douady C.J., and Douzery E.J.P. Molecular estimation of eulipotyphlan divergence times and the evolution of "Insectivora". Mol. Phylogenet. Evol. 28 (2003) 285-296
13. Dubey S., Zaitsev M., Cosson J.-F., Abdukadier A., and Vogel P. Pliocene and Pleistocene diversification and multiple refugia in a Eurasian shrew (Crocidura suaveolens group). Mol. Phylogenet. Evol. 38 (2006) 635-647
14. Dubey, S., Antonin, M., Denys, C., Vogel, P., (in press). Use of phylogeny to resolve the taxonomy of the widespread and highly polymorphic African giant shrews (C. olivieri group, Crocidurinae, Mammalia). Zoology.
15. Engesser, B., 1980. Insectivora und Chiroptera (Mammalia) aus dem Neogen der Türkei. Schweizerische Paläontologische Abhandlungen, vol. 102, 149 pp.
16. Flower B.P., and Kennett J.P. The middle Miocene climatic transition, East Antarctic ice sheet development, deep ocean circulation and global carbon cycling. Palaeogeogr. Palaeocl. 108 (1994) 537-555
17. Fumagalli L., Taberlet P., Stewart D.T., Gielly L., Hausser J., and Vogel P. Molecular Phylogeny and Evolution of Sorex Shrews (Soridae: Insectivora) Inferred from Mitochondrial DNA Sequence Data. Mol. Phylogen. Evol. 11 (1999) 222-235
18. George S.B. Systematics, historical biogeography, and evolution of the genus Sorex. J. Mol. Evol. 41 (1988) 952-957
19. George, S.B., Sarich, V.M., 1994. Albumin evolution in the Soricinae and its implications for the phylogenetic history of the Soricidae. In: Merit, J.F., Kirkland, G.L., Rose, R.K. (Eds.), Advances in the Biology of Shrews, Special Publ., Carnegie Museum of Natural History, Pittsburgh, PA, pp. 289-294.
20. Griffin D.L. The late Miocene climate of northeastern Africa: Unravelling the signals in the sedimentary succession. J. Geol. Soc. Lond. 156 (1999) 817-826
21. Griffin D.L. Aridity and humidity: two aspects of the late Miocene climate of North Africa and the Mediterranean. Palaeogeogr. Palaeocl. 182 (2002) 65-91
22. Guindon S., and Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 52 (2003) 692-704
23. Halanych K.M. Considerations for reconstructing metazoan history: signal, resolution, and hypothesis testing. Am. Zool. 38 (1998) 929-941
24. Han S.H., Iwasa M.A., Ohdachi S.D., Oh H.S., Suzuki H., Tsuchiya K., and Abe H. Molecular phylogeny of Crocidura shrews in northeastern Asia: a special reference to specimens on Cheju Island, South Korea. Acta Theriol. 47 (2002) 369-379
25. Harris A.H. Fossil history of shrews in North America. In: Wojcik J.M., and Wolsan M. (Eds) (1998), Mammal Research Institute, Polish Academy of Science, Bialowieza 121-132
26. Hasegawa M., Kishino H., and Yano T. Dating the human-ape split by a molecular clock of mitochondria! DNA. J. Mol. Evol. 22 (1985) 160-174
27. Heim de Balsac H., and Lamotte M. Evolution et phylogénie des Soricidés africains-II. Mammalia 21 (1957) 16-46
28. Huelsenbeck J.P., Bull J.J., and Cunningham C.W. Combining data in phylogenetic analysis. Trends Ecol. Evol. 11 (1996) 152-158
29. Huelsenbeck J.P., Ronquist F., Nielsen R., and Bollback J.P. Evolution: Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294 (2001) 2310-2314
30. Hunt R.M. Ursidae. Date. In: Janis C., Scott K., and Jacobs L. (Eds). Evolution of Tertiary mammals of North America (1998), Cambridge University Press, New York 174-195
31. Hunt R.M. Global climate and the evolution of large mammalian. Carnivores during the later cenozoic in North America. Bulletin American Museum of Natural History 285 (2004) 139-156
32. Hutterer R. Order Insectivora. In: Wilson D.E., and Reeder D.M. (Eds). Mammal Species of the World: A Taxonomic and Geographic Reference. second ed. (1993), Smithsonian Institution Press, Washington, DC 69-130
33. Hutterer R. Order Soricomorpha. In: Wilson D.E., and Reeder D.M. (Eds). Mammal Species of the World: A Taxonomic and Geographic Reference. third ed. (2005), Smithsonian Institution Press, Washington, DC 220-311
34. Irwin D.M., Kocher T.D., and Wilson A.C. Evolution of the cytochrome b gene of Mammals. J. Mol. Evol. 32 (1991) 128-144
35. Ivanitskaya, E.Y., 1994. Comparative cytogenetics and systematics of Sorex: a cladistic approach. pp. 313-323. In: Merritt, J.F., Kirkland, G.L., Jr., Rose, R.K. (Eds.), Advances in the Biology of Shrews, Special Publication of Carnegie Museum of Natural History 18, pp. 1-458.
36. Jacobs L.l. The beginning of the age of the murids in Africa. Acta Zool. Fenn. 170 (1985) 149-151
37. Janke A., Xu X., and Arnason U. The complete mitochondrial genome of the wallaroo (Macropus robustus) and the phylogenetic relationship among Monotremata, Marsupialia and Eutheria. Proc. Natl. Acd. Sci. 94 (1997) 1276-1281
38. Juste J., Alvarez Y., Tabares E., Garrido Pertierra A., and Ibanez C. Phylogeography of African fruitbats (Megachiroptera). Mol. Phylogenet. Evol. 13 (1999) 596-604
39. Lewis P.O. A likelihood approach to estimating phylogeny from discrete morphological character data. Syst. Biol. 50 (2001) 913-925
40. Macphee R.D.E., and Novacek M.J. Definition and relationships of Lipotyphla. In: Szalay F., Novacek M.J., and McKenna M.C. (Eds). Mammal Phylogeny. Placentals vol. 2 (1993), Springer, New York 13-31
41. Maddalena T. Systematics and biogeography of Afrotropical and Paleartic shrews of the genus Crocidura (Insectivora: Soricidae): An electrophoretic approach. In: Peters G., and Hutterer R. (Eds). Vertebrates in the Tropics (1990), Museum Alexander Koenig, Bonn 297-308
42. Maddalena T., and Bronner N. Biological systematics of the endemic African genus Myosorex Gray, 1838 (Mammalia: Soricidae). Israel J. Zool. 38 (1992) 245-252
43. Maddalena T., and Ruedi M. Chromosomal evolution in the genus Crocidura (Soricidae, Insectivora). In: Merritt J.F., Kirkland Jr. G.L., and Rose R.K. (Eds). Advances in the Biology of Shrews 18 (1994), Carnegie Mus. Nat. Hist. Spec. Publ. 335-344
44. Maddison, W.P., Maddison, D.R., 2004. Mesquite: a modular system for evolutionary analysis. Version 1.06, mesquiteproject.org.
45. Maldonado J.E., Vila C., and Wayne R.K. Tripartite genetic subdivisions in the ornate shrew (Sorex ornatus). Mol. Ecol. 10 (2001) 127-147
46. Mason-Gamer R.J., and Kellogg E. Testing for phylogenetic conflict among molecular data sets in the Tribe Triticeae (Gramineae). Syst. Biol. 45 (1996) 524-545
47. McLellan L.J. Evolution and phylogenetic affinities of the African species of Crocidura, Suncus and Sylvisorex (Insectivora: Soricidae). In: Merritt J.F., Kirkland Jr. G.L., and Rose R.K. (Eds). Advances in the Biology of Shrews 18 (1994), Carnegie Mus. Nat. Hist. Spec. Publ. 379-391
48. Meester J. The genera of African shrews. Ann. Transvaal Mus. 22 (1953) 205-214
49. Micheels, A., 2003. Late Miocene climate modelling with Echam4/ML. The effects of the paleovegetation on the Tortonian climate. Doctorat thesis. Geowissenschaftlichen Fakultät der Eberhard-Karls Universität Tübingen.
50. Minin V., Abdo Z., Joyce P., and Sullivan J. Performance-based selection of likelihood models for phylogeny estimation. Syst. Biol. 52 (2003) 674-683
51. Motokawa M., Suzuki H., Harada M., Lin L.K., Koyasu K., and Oda S. Phylogenetic relationships among East Asian species of Crocidura (Mammalia, Insectivora) inferred from mitochondrial cytochrome b gene sequences. Zool. Sci. 17 (2000) 497-504
52. Murphy W.J., Eizirik E., O Brien S.J., Madsen O., Scally M., Douady C.J., Teeling E., Ryder O.A., Stanhope M.J., de Jong W.W., and Springer M.S. Resolution of the early placental mammal radiation using Bayesian phylogenetics. Science 294 (2001) 2348-2351
53. Ogg J.G. Status of divisions of the International Geologic Time Scale. Lethaia 37 (2004) 183-199
54. Ohdachi S.D., Dokuchaev N.E., Hasegawa M., and Masuda R. Intraspecific phylogeny and geographical variation of six species of northeastern Asiatic Sorex shrews based on the mitochondrial cytochrome b sequences. Mol. Ecol. 10 (2001) 2199-2213
55. Ohdachi S.D., Hasegawa M., Iwasa M.A., Vogel P., Oshida T., Lin L.-K., and Abe H. Molecular phylogenetics of soricid shrews (Mammalia) based on mitochondrial cytochrome b gene sequences: with special reference to the Soricinae. J. Zool. 270 (2006) 177-191
56. Ohdachi S.D., Iwasa M.A., Nesterenko V.A., Abe H., Masuda R., and Haberl W. Molecular phylogenetics of Crocidura shrews (Insectivora) in east and central Asia. J. Mammal. 85 (2004) 396-403
57. Ohdachi S.D., Masuda R., Abe H., and Dokuchaev N.E. Biogeographical history of northeastern Asiatic soricine shrews (Insectivora, Mammalia). Res. Pop. Ecol. 39 (1997) 157-162
58. Quérouil S., Hutterer R., Barrière P., Colyn M., Peterhans J.C.K., and Verheyen E. Phylogeny and evolution of African shrews (Mammalia: Soricidae) inferred from 16s rRNA sequences. Mol. Phyl. Evol. 20 (2001) 185-195
59. Rasmussen A.S., and Arnason U. Phylogenetic studies of complete mitochondrial DNA molecules place cartilaginous fishes within the tree of bony fishes. J. Mol. Evol. 48 (1999) 118-123
60. Repenning C.A. Subfamilies and genera of the Soricidae. U.S. Geol. Surv. Prof. Paper 565 (1967) 1-74
61. Reumer J.W.F. Redefinition of the Soricidae and the Heterosoricidae (Insectivora, Mammalia), with the description of the Crocidosoricinae, a new family of soricidae. Rev. Paléobiol. 6 (1987) 189-192
62. Reumer J.W.F. Speciation and evolution in the Soricidae (Mammalia: Insectivora) in relation with the paleoclimate. Rev. suisse Zool. 96 (1989) 81-90
63. Reumer J.W.F. Phylogeny and distribution of the Crocidosoricinae (Mammalia: Soricidae). In: Merritt J.F., Kirkland Jr. G.L., and Rose R.K. (Eds). Advances in the Biology of Shrews vol. 18 (1994), Carnegie Museum of Natural History Spec. Publ. 345-356
64. Reumer J.W.F. Classification of the fossil and recent shrews. In: Wojcik J.M., and Wolsan M. (Eds). Evolution of Shrews (1998), Mammal Research Institute, Polish Academy of Science, Bialowieza 5-21
65. Robinson P., and Black C.C. Vertebrate faunas from Neogene of Tunisia. Ann. Geol. Surv. Egpt. 4 (1974) 319-332
66. Rodriguez R., Oliver J.L., Marin A., and Medina J.R. The general stochastic model of nucleotide substitution. J. Theor. Bio. 142 (1990) 485-501
67. Ruedi M. Phylogenetic evolution and biogeography of Southeast Asian shrews (genus Crocidura: Soricidae). Biol. J. Linnean Soc. 58 (1996) 197-219
68. Ruedi M., Auberson M., and Savolainen V. Biogeography of sulawesian shrews: testing for their origin with a parametric bootstrap on molecular data. Mol. Phylogenet. Evol. 9 (1998) 567-571
69. Ruedi M., and Vogel P. Chromosomal evolution and zoogeographic origin of southeast Asian shrews (genus Crocidura). Experientia 51 (1995) 174-178
70. Rzebik-Kowalska B. Fossil history of shrews in Europe. In: Wojcik J.M., and Wolsan M. (Eds). Evolution of Shrews (1998), Mammal Research Institute, Polish Academy of Science, Bialowieza 23-92
71. Sanderson M.J. A nonparametric approach to estimating divergence times in the absence of rate constancy. Mol. Biol. Evol. 14 (1997) 1218-1231
72. Sanderson M.J. Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach. Mol. Biol. Evol. 19 (2002) 101-109
73. Schlitter D.A., Hutterer R., Maddalena T., and Robbins L.W. New karyotypes of shrews (Mammalia: Soricidae) from Cameroon and Somalia. Ann. Carnegie Mus. 68 (1999) 1-14
74. Simpson G.G. The principles of classification and a classification of mammals. B. Am. Mus. Nat. Hist. 85 (1945) 1-350
75. Storch G., Qiu Z.H., and Zazhigin V.S. Fossil history of shrews in Asia. In: Wojcik J.M., and Wolsan M. (Eds). Evolution of Shrews (1998), Mammal Research Institute, Polish Academy of Science, Bialowieza 93-117
76. Struck T.H., Purschke G., and Halanych K.M. Phylogeny of Eunicida (Annelida) and exploring data congruence using a partition addition bootstrap alteration (PABA) approach. Syst. Biol. 55 (2006) 1-20
77. Swofford, D.L., 2001. PAUP* 4.0: Phylogenetic Analyses Using Parsimony (*and other methods). Beta version 4.0b10a for PC. Sinauer Associates, Inc., Publishers, Sunderland, Massachusetts.
78. Symonds M.R.E. Phylogeny and life histories of the 'Insectivora': controversies and consequences. Biol. Rev. 80 (2005) 93-128
79. Tedford R.H., and Martin J. Plionarctos, a tremarctine bear (Ursidae: Carnivora) from western North America. J. Vertebr. Paleontol. 21 (2001) 311-321
80. Tedford R.H., Skinner M.F., Fields R.W., Rensberger J.M., Whistler D.P., Galusha T., Taylor B.E., Macdonald J.R., and Webb S.D. Faunal succession and biochronology of the Arikareean through Hemphillian interval in North America. In: Woodburne M.O. (Ed). Cenozoic Mammals of North America (1987), University of California Press, Berkeley 153-210
81. Thomas O. The mammals of the tenth edition of Linnaeus; an attempt to fix the types of the genera and the exact bases and localities of the species. Proc. zool. soc. Lond. 1911 (1911) 120-158
82. Thomas H. The Early and Middle Miocene land connection of the Afro-Arabian plate and Asia: a major event for hominoid dispersal. In: Delson E. (Ed). Ancestors: The Hard Evidence (1985), A.R. Liss, New York 42-50
83. Thomas H., Bernor R., and Jaeger J.J. Origine du peuplement mammalien en Afrique du Nord durant le Miocène terminal. Geobios 15 (1982) 283-397
84. Thompson J.D., Higgins D.G., and Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl. Acids Res. 22 (1994) 4673-4680
85. Thorne J.L., and Kishino H. Divergence time and evolutionary rate estimation with multilocus data. Syst. Biol. 51 (2002) 689-702. statgen.ncsu.edu/thorne/multidivtime.html
86. Van der Made J., Morales J., Sen S., and Aslan F. The first camel from the Upper Miocene of Turkey and the dispersal of the camels into the Old World. C.R. Palevol. 1 (2002) 117-122
87. Vogel P., Cosson J.F., and Jurado L.F.L. Taxonomic status and origin of the shrews (Soricidae) from the Canary Islands inferred from a mtDNA comparison with the European Crocidura species. Mol. Phylogenet. Evol. 27 (2003) 271-282
88. Wang X.M., Wideman B.C., Nichols R., and Hanneman D.L. A new species of Aelurodon (Carnivora, Canidae) from the Barstovian of Montana. J. Vertebr. Paleontol. 24 (2004) 445-452
89. Webb S.D., and Opdyke N.D. Global climatic influence on Cenozoic land mammal faunas. In: Webb S.D., and Opdyke N.D. (Eds). Effects of Past Global Change on Life (1995), National Academy Press, Washington, DC 184-208
90. Wheeler W.C., Ramirez M.J., Aagesen L., and Schulmelster S. Partition-free congruence analysis: implications for sensitivity analysis. Cladistics 22 (2006) 256-263
91. Yang Z. Phylogenetic analysis using parsimony and likelihood methods. J. Mol. Evol. 42 (1996) 294-307
92. Yoder A.D., Irwin J.A., and Payseur B.A. Failure of the ILD to determine data combinability for slow loris phylogeny. Syst. Biol. 50 (2001) 408-424
93. Zima J., Lukacova L., and Macholan M. Chromosomal evolution in shrews. In: Wojcik J.M., and Wolsan M. (Eds). Evolution of Shrews (1998), Mammal Research Institute, Polish Academy of Science, Bialowieza 175-210