The African warbler genus Hyliota as a lost lineage in the Oscine songbird tree: Molecular support for an African origin of the Passerida

Molecular Phylogenetics and Evolution

Volumn 39, Issue 1, 2006, Pages 186-197

  Fuchs, Jérôme ^a   Fjeldså, Jon ^b   Bowie, Rauri C K ^c   Voelker, Gary ^d   Pasquet, Eric ^a  

^a MUSÉUM NATIONAL D'HISTOIRE NATURELLE   (France)

^b UNIVERSITY OF COPENHAGEN   (Denmark)

^c STELLENBOSCH UNIVERSITY   (South Africa)

^d UNIVERSITY OF MEMPHIS   (United States)

Author keywords

Biogeography; Hyliota; Out of Africa; Passerida

Indexed keywords

MITOCHONDRIAL DNA; MYOGLOBIN; REDUCED NICOTINAMIDE ADENINE DINUCLEOTIDE DEHYDROGENASE;

AFRICA; ANIMAL; ARTICLE; BAYES THEOREM; CLASSIFICATION; GENETICS; INTRON; PHYLOGENY; SONGBIRD; SPARROW;

AFRICA; ANIMALS; BAYES THEOREM; DNA, MITOCHONDRIAL; INTRONS; MYOGLOBIN; NADH DEHYDROGENASE; PASSERIFORMES; PHYLOGENY; SONGBIRDS; SPARROWS;

AVES; HYLIOTA; LANIIDAE; MUSCICAPIDAE; PASSERI; PASSERIDA; PLATYSTEIRIDAE; SYLVIIDAE;

EID: 33645013090     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2005.07.020     Document Type: Article

References (60)

1. F.K. Barker, G.F. Barrowclough, and J.G. Groth A phylogenetic hypothesis for passerine birds: taxonomic and biogeographic implications of an analysis of nulcear DNA sequences data Proc. R. Soc. 269 2002 295 308
2. F.K. Barker, A. Cibois, P. Schikler, J. Feinstein, and J. Cracraft Phylogeny and diversification of the largest avian radiation Proc. Natl. Acad. Sci. USA 101 2004 11040 11045
3. P. Beresford, F.K. Barker, P.G. Ryan, and T.M. Crowe African endemics span the tree of songbirds (Passeri): molecular systematics of several evolutionary 'enigmas' Proc. R. Soc. B 272 2005 849 858
4. W.J. Bock The palatine process of the Premaxilla in the Passeres. A study of the variation, function, evolution and taxonomic value of a single character throughout an avian order Bull. Mus. Comp. Zool. 122 1960 361 488
5. A. Cibois, and J. Cracraft Assessing the passerine "Tapestry": phylogenetic relationships of the Muscicapoidea inferred from nuclear DNA sequences Mol. Phylogenet. Evol. 32 2004 264 273
6. A. Cibois, T.S. Schulenberg, and E. Pasquet An endemic radiation of Malagasy songbirds is revealed by mitochondrial DNA sequence data Evolution 55 2001 1198 1206
7. C. Cicero, and N.K. Johnson Higher-level phylogeny of New World Vireos (Aves: Vireonidae) based on sequences of multiple mitochondrial DNA genes Mol. Phylogenet. Evol. 20 2001 27 40
8. A. de Queiroz The resurrection of oceanic dispersal in historical biogeography Trends Ecol. Evol. 20 2005 68 73
9. E.C. Dickinson The Howard and Moore Complete Checklist of the Birds of the World 3rd ed. 2003 Princeton University Press Princeton, NJ
10. P. Desjardins, and R. Morais Sequence and gene organization of the chicken mitochondrial genome a novel gene order in higher vertebrates J. Mol. Biol. 212 1990 599 634
11. R.J. Dowsett, and F. Dowsett-Lemaire A contribution to the distribution and taxonomy of Afrotropical and Malagasy birds Tauraco Research Reports 5 1993 Tauraco Press Liège
12. S.V. Drovetski, R.M. Zink, I.V. Fadeev, E.V. Nesterov, E.A. Koblik, Y.A. Red'kin, and S. Rohwer Mitochondrial phylogeny of Locustella and related genera J. Avian Biol. 35 2004 105 110
13. S.V. Drovetski, R.M. Zink, S. Rohwer, I.V. Fadeev, E.V. Nesterov, I. Karagodin, E.A. Koblik, and Y.A. Red'kin Complex biogeographic history of a Holarctic passerine Proc. R. Soc. B 271 2004 545 551
14. C. Erard Ecologie et comportement des gobe-mouches (Aves: Muscicapinae, Platysteirinae, Monarchidae) du Nord-Est du Gabon Volume 1 Mem. Mus. Nat. Hist. Nat., Nouv. Ser., A 146 1987 1 234
15. C. Erard, C.H. Fry, L.G. Grimes, M.P.S. Irwin, S. Keith, P.C. Lack, D.J. Pearson, and A. Tye Sylviidae, Old World warblers E.K. Urban C.H. Fry S. Keith The Birds of Africa vol. V 1997 Academic Press London 57 431
16. P.G.P. Ericson, and U.S. Johansson Phylogeny of Passerida (Aves: Passeriformes) based on nuclear and mitochondrial sequence data Mol. Phylogenet. Evol. 29 2003 126 138
17. P.G.P. Ericson, U.S. Johansson, and T.J. Parsons Major divisions in oscines revealed by insertions in the nuclear gene c-myc: a novel gene in avian phylogenetics Auk 117 2000 1069 1078
18. P.G.P. Ericson, L. Christidis, A. Cooper, M. Irestedt, J. Jackson, U.S. Johansson, and J.A. Norman A Gondwanan origin of passerine birds supported by DNA sequences of the endemic New Zealand wrens Proc. R. Soc. B 269 2002 235 241
19. P.G.P. Ericson, L. Christidis, M. Irestedt, and J.A. Norman Systematic affinities of the Lyrebirds (Passeriformes: Menura), with a novel classification of the major groups of passerine birds Mol. Phylogenet. Evol. 25 2002 53 62
20. P.G.P. Ericson, M. Irestedt, and U.S. Johansson Evolution, biogeography, and patterns of diversification in passerine birds J. Avian Biol. 34 2003 3 15
21. J. Felsenstein Confidence limits of phylogenies: An approach using the bootstrap Evolution 39 1985 783 791
22. J. Fuchs, R.C.K. Bowie, J. Fjeldså, and E. Pasquet Phylogenetic relationships of the African bush-shrikes and helmet-shrikes (Passeriformes: Malaconotidae) Mol. Phylogenet. Evol. 33 2004 428 439
23. F.B. Gill, B. Slikas, and F.H. Sheldon Phylogeny of Titmice (Paridae): II. Species relationships based on sequences of the mitochondrial Cytochrome-b gene Auk 122 2005 121 143
24. S. Guindon, and O. Gascuel A simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood Syst. Biol. 52 2003 696 704
25. R. Hall The plate tectonics of Cenozoic SE Asia and the distribution of land and sea R. Hall J.D. Holloway Biogeography and Geological Evolution of SE Asia 1998 Backhuys Publishers Leiden 99 124
26. M.M. Heslewood, M.S. Elphinstone, S.C. Tidemann, and P.R. Baverstock Myoglobin intron variation in the Gouldian Finch Erythrura gouldiae assessed by temperature gradient gel electrophoresis Electrophoresis 19 1998 142 151
27. P.J. Higgins, and J.M. Peter Handbook of Australian, New Zealand and Antarctic Birds vol. 6 2002 Oxford University Press Oxford and Sydney
28. D.M. Hillis, and J.J. Bull An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis Syst. Biol. 42 1993 182 192
29. J.P. Huelsenbeck, and F. Ronquist MRBAYES: Bayesian inference of phylogenetic trees Bioinformatics 17 2001 754 755
30. S.H. Jansa, S.M. Goodman, and T.K. Tucker Molecular phylogeny and biogeography of the native rodents of Madagascar (Muridae: Nesomyinae): a test of the single-origin hypothesis Cladistics 15 1999 253 270
31. J.P. Kennett A review of polar climatic evolution during the Neogene, based on the marine sediment record E.S. Vrba G.H. Denton T.C. Partridge Burckle Paleoclimate and Evolution with Emphasis on Human Origins 1995 Yale University Press New Haven and London 49 64
32. J. Klicka, G. Voelker, and G.M. Spellman A molecular phylogenetic analysis of the "true thrushes" (Aves: Turdinae) Mol. Phylogenet. Evol. 34 2005 486 500
33. R.A. McCall Implications of recent geological investigations of the Mozambique Channel for the mammalian colonization of Madagascar Proc. R. Soc. B 264 1997 663 665
34. Nylander, J.A.A., 2004. MrModeltest 2.0. Program distributed by the author. Evolutionary Biology Centre, Uppsala University.
35. E. Pasquet, A. Cibois, F. Baillon, and C. Erard What are African monarchs (Aves, Passeriformes)? A phylogenetic analysis of mitochondrial genes C.R. Biol. 325 2002 107 118
36. D. Posada, and T.R. Buckley Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests Syst. Biol. 53 2004 793 808
37. D. Posada, and K.A. Crandall ModelTest 3.06: Testing the model of DNA substitution Bioinformatics 14 1998 817 818
38. Rambaut, A., 1996. Se-Al: Sequence Alignment Editor. Available from: 〈http://evolve.zoo.ox.ac.uk〉.
39. C.J. Raxworthy, M.R.J. Forstner, and R.A. Nussbaum Chameleon radiation by oceanic dispersal Nature 415 2002 784 787
40. R.E. Ricklefs Global diversification rates of passerine birds Proc. R. Soc. B 270 2003 2285 2291
41. W.L. Sclater Systema Avium Aethiopicarum 1930 British Ornithologists' Union London
42. K.M. Sefc, R.M. Payne, and M.D. Sorenson Phylogenetic relationships of African sunbird-like warblers: Moho (Hypergerus atriceps), Green Hylia (Hylia prasina) and Tit-hylia (Pholidornis rushiae) Ostrich 74 2003 8 17
43. H. Shimodaira CONSEL: for assessing the confidence of phylogenetic tree selection Bioinformatics 17 2001 1246 1247
44. H. Shimodaira An approximately unbiased test of phylogenetic tree selection Syst. Biol. 51 2002 492 508
45. H. Shimodaira, and M. Hasegawa Multiple comparisons of log-likelihoods with applications to phylogenetic inference Mol. Biol. Evol. 16 1999 1114 1116
46. C.G. Sibley, and J.E. Ahlquist Phylogeny and Classification of Birds: A Study in Molecular Evolution 1990 Yale University Press New Haven, CT
47. R.W. Slade, C. Moritz, A. Heideman, and P.T. Hale Rapid assessment of single-copy nuclear DNA variation in diverse species Mol. Ecol. 2 1993 359 373
48. A.G. Smith, D.G. Smith, and B.M. Funnell Atlas of Mesozoic and Cenozoic Coastlines 1994 Campridge University Press Cambridge, UK
49. M.D. Sorenson, and T.W. Quinn Numts: a challenge for avian systematics and population biology Auk 115 1998 214 221
50. M.D. Sorenson, J.C. Ast, D.E. Dimcheff, T. Yuri, and D.P. Mindell Primers for a PCR-based approach to mitochondrial genome sequencing in birds and other vertebrates Mol. Phylogenet. Evol. 12 1999 105 114
51. M.D. Sorenson, and R.B. Payne A single origin of brood parasitism in African finches: implications for host-parasite coevolution Evolution 55 2001 2550 2567
52. M.D. Sorenson, E. Oneal, J. GarcIa-Moreno, and D.P. Mindell More taxa, more characters: The Hoatzin problem is still unresolved Mol. Biol. Evol. 20 2003 1484 1499
53. Swofford, D.L., 2001. PAUP*: Phylogenetic Analysis Using Parsimony (* and other methods) 4.0b10. Sinauer Associates, Sunderland, Massachusets.
54. M.A. Traylor Notes on African Muscicapidae Ibis 112 1970 395 397
55. G. Voelker, and G.M. Spellman Nuclear and mitochondrial DNA evidence of polyphyly in the avian superfamily Muscicapoidea Mol. Phylogenet. Evol. 30 2004 386 394
56. G.E. Watson, M.A. Traylor Jr., and E. Mayr Sylviidae E. Mayr M.A. Traylor Jr. G.E. Watson Check-list of the Birds of the World vol. XI 1986 Museum of Comparative Zoology Cambridge, Massachussets 3 294
57. B. Winnepenninckx, T. Backeljau, and R. De Wachter Extraction of high molecular weight DNA from mollusks Trends Genet. 9 1993 407
58. H.E. Wolters Die Vogelarten der Erde 1975-1982 Paul Parey Hamburg and Berlin
59. Yang, Z., 2003. PAML 3.14ß: Phylogenetic analysis by Maximum Likelihood Version 3.14. Available from: 〈ftp://abacus.gene.ucl.ac.uk/pub/ paml〉.
60. T. Yuri, and D.P. Mindell Molecular phylogenetic analysis of Fringillidae, "New World nine-primaried oscines" (Aves : Passeriformes) Mol. Phylogenet. Evol. 23 2002 229 243