Historical biogeography of Mediterranean trout

Molecular Phylogenetics and Evolution

Volumn 33, Issue 3, 2004, Pages 831-844

  Cortey, Marti ^a   Pla, Carles ^a   García Marín, Jose Luis ^a  

^a Camp Montilivi S n E 17071 G   (Spain)

Author keywords

Allopatry; Brown trout; Gene flow; Mediterranean phylogeography; Mitochondrial control region; Salmo trutta

Indexed keywords

ANIMAL; ARTICLE; DNA SEQUENCE; EVOLUTION; GENETICS; GEOGRAPHY; HAPLOTYPE; MOLECULAR EVOLUTION; PHYLOGENY; POPULATION GENETICS; TROUT;

ANIMALS; EVOLUTION; EVOLUTION, MOLECULAR; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; PHYLOGENY; SEQUENCE ANALYSIS, DNA; TROUT;

SALMO; SALMO TRUTTA; SALMONIDAE;

EID: 7444257974     PISSN: 10557903     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ympev.2004.08.012     Document Type: Article

References (62)

1. A. Antunes, A.R. Templeton, R. Guyomard, and P. Alexandrino The role of nuclear genes in intraspecific evolutionary inference: genealogy of the transferrin gene in the brown trout Mol. Biol. Evol. 19 2002 1272 1287
2. A.P. Apostolidis, C. Triantaphyllidis, A. Kouvatsi, and S. Economidis Mitochondrial DNA sequence variation and phylogeography among Salmo trutta L. (Greek brown trout) populations Mol. Ecol. 6 1997 531 542
3. L. Bernatchez The evolutionary history of brown trout (Salmo trutta L.) inferred from phylogeographic, nested clade, and mismatch analyses of mitochondrial DNA variation Evolution 55 2001 351 379
4. L. Bernatchez, R. Guyomard, and F. Bonhomme DNA sequence variation of the mitochondrial control region among geographically and morphologically remote European brown trout Salmo trutta populations Mol. Ecol. 1 1992 161 173
5. Berrebi, P. 1995. Étude génétique des truites de Corse. Laboratoire Génome et Populations, Universitéde Montpellier pour Parc Naturel Régional de Corse
6. P. Berrebi, M. Povz, D. Jesensek, G. Cattaneo-Berrebi, and A.J. Crivelli The genetic native diversity of native, stocked and hybrid populations of marble trout in the Soca River, Slovenia Heredity 85 2000 277 287
7. P.G. Bianco Potential role of the palaeohistory of the Mediterranean and Paratethys basins on the early dispersal of Euro-Mediterranean freshwater fishes Ichthyol. Explorat. Freshwaters 1 1990 167 184
8. D. Churikov, M. Matsuoka, X. Luan, A.K. Gray, V.L.A. Brykov, and A.J. Gharret Assessment of concordance among genealogical reconstructions from various mtDNA segments in three species of Pacific salmon (genus Oncorhynchus) Mol. Ecol. 10 2001 2329 2339
9. M. Clement, D. Posada, and K.A. Crandall TCS: a computer program to estimate gene genealogies Mol. Ecol. 9 2000 1657 1660
10. M. Cortey, and J.L. García-Marín Evidence for phylogeographically informative sequence variation in the mitochondrial control region of Atlantic brown trout J. Fish Biol. 60 2002 1058 1063
11. Doadrio, I., Elvira, B., Bernat, Y. 1991. Peces continentales españoles. Inventario y clasificación de zonas fluviales. Colección técnica ICONA-CSIC, Madrid
12. N. Duftner, S. Weiss, N. Medgyesy, and C. Sturmbauer Enhanced phylogeographic information about Austrian brown trout populations derived from complete mitochondrial control region sequences J. Fish Biol. 62 2003 427 435
13. J.D. Durand, H. Persat, and Y. Bouvert Phylogeography and postglacial dispersion of the chub (Leuciscus cephalus) in Europe Mol. Ecol. 8 1999 989 998
14. J.D. Durand, P.G. Bianco, J. Laroche, and A. Gilles Insight into the origin of endemic Mediterranean ichthyofauna: Phylogeography of Chondrostoma Genus (Teleostei, Cyprinidae) J. Hered. 94 2003 315 328
15. L. Excoffier, P.E. Smouse, and J.M. Quattro Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data Genetics 131 1992 479 491
16. S. Gavrilets, H. Li, and M.D. Vose Patterns of parapatric speciation Evolution 54 2000 1126 1134
17. A. Gilles, G. Lecointre, E. Faure, R Chappaz, and G. Brun Mitochondrial phylogeny of the European cyprinids: implications for their systematics, reticulate evolution and colonization time Mol. Phylogenet. Evol. 10 1998 132 143
18. E. Giuffra, L. Bernatchez, and R. Guyomard Mitochondrial control region and protein coding sequence variation among phenotypic forms of brown trout Salmo trutta from northern Italy Mol. Ecol. 3 1994 161 171
19. H.C. Harpending, M.A. Batzer, M. Gurven, L.B. Jorde, A.R. Rogers, and S.T. Sherry Genetic traces of ancient demography Proc. Natl. Acad. Sci. USA 95 1998 1961 1967
20. G.M. Hewitt The genetic legacy of Quaternary ice ages Nature 405 2000 907 913
21. K.M. Ibrahim, R.A. Nichols, and G.M. Hewitt Spatial patterns of genetic variation by different forms of dispersal during range expansions Heredity 77 1996 282 291
22. M.T. Koskinen, E. Ranta, J. Piironen, A. Veselov, S. Titov, and T.O. Haugen Genetic lineages and postglacial colonization of grayling (Thymallus thymallus, Salmonidae) in Europe, as revealed by mitochondrial DNA analyses Mol. Ecol. 9 2000 1069 1624
23. P. Kotlík, and P. Berrebi Phylogeography of the barbel (Barbus barbus) assessed by mitochondrial DNA variation Mol. Ecol. 10 2001 2177 2185
24. S. Kumar, K. Tamura, I.B. Jakobsen, and M. Nei MEGA2: Molecular Evolutionary Genetics Analysis software 2001 Arizona State University Tempe, Arizona
25. A. Machordom, J. Suárez, A. Almodóvar, and J.M. Bautista Genetic differentiation and phylogenetic relationships among Spanish brown trout (Salmo trutta) populations Mol. Ecol. 9 2000 1324 1338
26. A.P. Martin, and S.R. Palumbi Body size, metabolic rate, generation time, and the molecular clock Proc. Natl. Acad. Sci. USA 90 1993 4087 4091
27. S.E. Masta, N.M. Laurent, and E.J. Routman Population genetic structure of the toad Bufo woodhousii: an empirical assessment of the effects of haplotype extinction on nested cladistic analysis Mol. Ecol. 12 2003 1541 1554
28. G.K. Meffe, and R.C. Vrijenhoek Conservation genetics in the management of desert fishes Conserv. Biol. 2 1988 157 169
29. M. Muñoz, and M. Casadevall Fish remains from Abreda cave (Serinyà, Girona) northeast Spain, and their palaeoecological significance J. Quatern. Sci. 12 1997 111 115
30. C.L. Nesbo, T. Fossheim, L.A. Vollestad, and K.S. Jakobsen Genetic divergence and phylogeographic relationships among European perch (Perca fluviatilis) populations reflect glacial refugia and postglacial colonization Mol. Ecol. 8 1999 1387 1404
31. T. Patarnello, L. Bargelloni, F. Caldara, and L. Colombo Cytochrome b and 16S rRNA sequence variation in the Salmo trutta (Salmonidae, Teleostei) species complex Mol. Phylogenet. Evol. 3 1994 69 74
32. A. Perdices, I. Doadrio, P.S. Economidis, J. Bohlen, and P. Banarescu Pleistocene effects on the European freshwater fish fauna: double origin of the cobitid genus Sabanejewia in the Danube basin (Osteichthyes: Cobitidae) Mol. Phylogenet. Evol. 2003 26,289 299
33. J.M. Pérès History of the Mediterranean biota and the colonization of the depth R. Margalef Western Mediterranean 1985 Pergamon Press London
34. A. Polanski, M. Kimmel, and R. Chakraborty Application of a time-dependent coalescence process for inferring the history of population size changes from DNA sequence data Proc. Natl. Acad. Sci. USA 95 1998 5456 5461
35. D. Posada, K.A. Crandall, and A.R. Templeton GEODIS: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes Mol. Ecol. 9 2000 487 488
36. P. Presa, B.G. Pardo, P. Martinez, and L. Bernatchez Phylogeographic congruence between mtDNA and rDNA ITS markers in brown trout Mol. Biol. Evol. 19 2002 2161 2175
37. A.R. Rogers Genetic evidence for a Pleistocene population explosion Evolution 49 1995 608 615
38. A.R. Rogers, and H. Harpending Population growth makes waves in the distribution of pairwise genetic differences Mol. Biol. Evol. 9 1992 552 569
39. N. Ryman Patterns of distribution of biochemical genetic variation in salmonids: differences between species Aquaculture 33 1983 1 21
40. N. Sanz, J.L. García-Marín, and C. Pla Managing fish populations under mosaic relationships. The case of brown trout (Salmo trutta) in peripheral Mediterranean populations Conserv. Genet. 3 2002 385 400
41. H.A. Schmidt, K. Strimmer, M. Vingron, and A. von Haeseler TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing Bioinformatics 18 2002 502 504
42. S. Schneider, and L. Excoffier Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rate vary among sites: application to human mitochondrial DNA Genetics 152 1999 1079 1089
43. Schneider, S., Roessli, D., Excoffier, L. 2000. ARLEQUIN ver 2.000. A software for population genetic data analysis. Genetics and Biometry Laboratory, University of Geneva
44. A.M. Shedlock, J.D. Parker, D.A. Crispin, T.W. Pietsch, and G.C. Burmer Evolution of the salmonid mitochondrial control region Mol. Phylogenet. Evol. 1 1992 179 192
45. H. Shimodaira, and M. Hasegawa Multiple comparisons of Log-likelihoods with applications to phylogenetic inference Mol. Biol. Evol. 16 1999 1114 1116
46. M. Slatkin, and R.R. Hudson Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations Genetics 129 1991 555 562
47. A. Snoj, E. Melkic, S. Susnik, S. Muhamedagic, and P. Dovc DNA phylogeny supports revised classification of Salmothymus obtusirostris Biol. J. Linn. Soc. 77 2002 399 411
48. J.R. Stewart Comment on "Buffered Tree Population Changes in a Quaternary Refugium: Evolutionary Implications" Science 288 2003 825
49. J. Suárez, J.M. Bautista, A. Almodóvar, and A. Machordom Evolution of the mitochondrial control region in Palaeartic brown trout (Salmo trutta) populations: the biogeographical role of the Iberian Peninsula Heredity 87 2001 198 206
50. Swofford, D., 1998. PAUP* Phylogenetic analysis using parsimony (*and other methods), Version 4. Sinauer Associates, Sunderland, MA
51. F. Tajima Estimation of the amount of DNA polymorphism and statistical test on the neutral mutation hypothesis based on DNA polymorphism P. Donelly S. Tavaré Progress in Population Genetics and Human Evolution The IMA Volumes in Mathematics and its Applications 87 1997 Springer New York
52. A.R. Templeton Nested clade analyses of phylogeographic data: testing hypotheses about gene flow and population history Mol. Ecol. 7 1998 381 397
53. A.R. Templeton, E. Boerwinkle, and C.F. Sing A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. I. Basic theory and an analysis of alcohol dehydrogenase activity in Drosophila Genetics 117 1987 343 351
54. A.R. Templeton, K.A. Crandall, and C.F. Sing A cladistic analysis of phenotypic association with haplotypes inferred from restriction endonucleases mapping and DNA sequence data. III. Cladogram estimation Genetics 132 1992 619 633
55. A.R. Templeton, and C.F. Sing A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. IV. Nested analyses with cladogram uncertainty and recombination Genetics 134 1993 659 669
56. C.S. Tsigenopoulos, and P. Berrebi Molecular phylogeny of North Mediterranean freshwater barbs (Genus Barbus: Cyprinidae) inferred from cytochrome b sequences: biogeographic and systematics implications Mol. Phylogenet. Evol. 14 2000 165 179
57. T.F. Tunner, J.C. Trexler, J.L. Harris, and J.L. Haynes Nested cladistic analysis indicates population fragmentation shapes genetic diversity in a freshwater mussel Genetics 154 2000 777 785
58. F.A.M. Volckaert, B. Hänfling, B. Hellemans, and G.R. Carvalho Timing of the population dynamics of bullhead Cottus gobio (Teleostei: Cottidae) during the Pleistocene J. Evol. Biol. 15 2002 930 944
59. R.D. Ward, M. Woodward, and D.O.F. Skibinski A comparison of genetic diversity levels in marine, freshwater and anadromous fishes J. Fish Biol. 44 1994 213 227
60. G. Weiss, A. Henking, and A. von Haeseler Distribution of pairwise differences in growing populations P. Donelly S. Tavaré Progress in Population Genetics and Human Evolution The IMA Volumes in Mathematics and its Applications 87 1997 Springer New York
61. S. Weiss, A. Antunes, C. Schlötterer, and P. Alexandino Mitochondrial haplotype diversity of brown trout Salmo trutta L. in Portuguese rivers supports a simple broad-scale model of the post-Pleistocene recolonization of northern Europe Mol. Ecol. 9 2000 691 698
62. R. Zardoya, and I. Doadrio Phylogenetic relationships of Iberian cyprinids: systematics and biogeographical implications Proc. R. Soc. Lond. B 265 1998 1365 1372