Molecular phylogeny of Carduelinae (Aves, Passeriformes, Fringillidae) proves polyphyletic origin of the genera Serinus and Carduelis and suggests redefined generic limits

Molecular Phylogenetics and Evolution

Volumn 51, Issue 2, 2009, Pages 169-181

  Nguembock, Billy ^a,b   Fjeldså, Jon ^c   Couloux, Arnaud ^d   Pasquet, Eric ^a,b  

^a Sorbonne Universités   (France)

^b MUSÉUM NATIONAL D'HISTOIRE NATURELLE   (France)

^c UNIVERSITY OF COPENHAGEN   (Denmark)

^d CENTRE NATIONAL DE SÉQUENÇAGE   (France)

Author keywords

Bayesian inference; Carduelinae; Incipient species; Maximum likelihood; Mitochondrial protein coding gene; Monophyly; Nuclear intron; Polyphyly; Taxonomic revision

Indexed keywords

ACANTHIS; AVES; CARDUELINAE; CARDUELIS; CARPODACUS; CHLORIS; CRITHAGRA; DENDROSPIZA; FRINGILLA; FRINGILLIDAE; LINARIA; LINURGUS; LINURGUS OLIVACEUS; LOXIA; LOXIA CURVIROSTRA; OCHROSPIZA; PASSERI; PASSERIFORMES; PYRRHULA; SERINUS; SERINUS BURTONI; SERINUS MOZAMBICUS;

EID: 64749103468     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2008.10.022     Document Type: Article

References (47)

1. Akaike H. Information theory as an extension of the maximum likelihood principle. In: Theory Petrov B.N., and Csaki F. (Eds). Second International Symposium on Information (1973), Akademiai Kiado, Budapest
2. Arnaiz-Villena A., Alvarez-Tejado M., Ruiz-del-Valle V., Garcia-de-la-Torre C., Varela P., Recio M.J., Ferre S., and Martinez-Laso J. Phylogeny and rapid Northern and Southern Hemisphere speciation of goldfinches during the Miocene and Pliocene Epochs. Cellular and Molecular Life Sciences 54 (1998) 1031-1041
3. Arnaiz-Villena A., Alvarez-Tejado M., Ruiz-del-Valle V., Garcia-de-la-Torre C., Varela P., Recio M.J., Ferre S., and Martinez-Laso J. Rapid radiation of canaries (Genus Serinus). Molecular Biology and Evolution 16 (1999) 2-11
4. Arnaiz-Villena A., Guilléna J., Ruiz-del-Vallea V., Lowy E., Zamora J., Valera P., Stefanib D., and Allenda L.M. Phylogeography of crossbills, bullfinches, grosbeaks and rosefinches. Cellular and Molecular Life Sciences 58 (2001) 1159-1166
5. Arnaiz-Villena A., Moscoso J., Ruiz-del-Valle V., Gonzalex J., Reguera R., Wink M., and Serrano-Vela J.I. Bayesian phylogeny of Fringillinae birds: status of the singular African oriole finch Linurgus olivaceus and evolution and heterogeneity of the Genus Carpodagus. Acta Zoologica Sinica 53 (2007) 826-834
6. Arnaiz-Villena A., Lowy E., Ruiz-del-Valle V., Westerdahl H., Moscoso J., Serrano-Vela J.I., Witzell H., and Zamora J. Evolution of the major histocompatibility complex class I genes in Serinus canaria from the Canary Islands is different from that of Asia and African continental Serinus species. Journal of Ornithology 148 Suppl. 2 (2007) S479-S484
7. Beecher W.J. A phylogeny of the oscines. Auk 70 3 (1953) 270-333
8. Chesser R.T. Molecular systematics of the rhinocryptic genus Pteroptochos. Condor 101 (1999) 439-446
9. Cooper A., and Penny D. Mass survival of birds across the cretaceous-tertiary boundary: molecular evidence. Science 275 (1997) 1109-1113
10. Desjardins P., and Morais R. Sequence and gene organization of the chicken mitochondrial genome a novel gene order in higher vertebrates. Journal of Molecular Biology 212 (1990) 599-634
11. Dickinson E.C. The Howard and Moore Complete Checklist of the Birds of the World. third ed. (2003), Princeton University Press, Princeton and Oxford
12. Eberhard J.R., and Bermingham E. Phylogeny and biogeography of the Amazona ochrocephala (Aves: Ptsittacidae) complex. Auk 121 (2004) 318-332
13. van den Elzen R., and Nemeschkal H.-L. Radiation in african canaries (Carduelinae): a comparaison of different classificatory approaches. Acta XX, Congressus Internationalus Ornithologici 1990 (1991) 459-467
14. Ericson P.G.P., Irestedt M., and Johansson U.S. Evolution, biogeography, and patterns of diversification in passerine birds. Journal of Avian Biology 36 (2003) 222-234
15. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 (1985) 783-791
16. Fry C.H., and Keith S. The Birds of Africa vol. VII (2004), Christopher Helm, London
17. Groth J.G. Molecular phylogenetics of finches and sparrows: consequences of character state removal in cytochrome b sequences. Molecular Phylogenetics and Evolution 10 (1998) 377-390
18. Guindon S., and Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology 52 (2003) 696-704
19. Hall, T., 2007. BioEdit. Available from: .
20. Hall, B.P., Moreau, R.E. 1970. An atlas of speciation in African passerine birds. Trustees of the British Museum (Natural History), London.
21. Heslewood M.M., Elphinstone M.S., Tidemann S.C., and Baverstock P.R. Myoglobin intron variation in the Gouldian Finch Erythrura gouldiae assessed by temperature gradient gel electrophoresis. Electrophoresis 19 (1998) 142-151
22. Hillis D.M., and Bull J.J. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biology 42 (1993) 182-192
23. Huelsenbeck J.P., and Ronquist F. MrBayes: Bayesian inference of phylogeny. Bioinformatics 17 (2001) 754-755
24. Huelsenbeck, J.P., Ronquist, F. 2003. MrBayes: a program for the Bayesian inference of phylogeny, version 3.0b4. Available from: .
25. Jønsson K., and Fjeldså J. A phylogenetic supertree of oscine passerine birds (Aves: Passeri). Zoologica Scripta 35 (2006) 149-186
26. Kerr K.C.R., Stoeckle M.Y., Dove C.J., Weigt L.A., Franciss C.M., and Hebert P.D.N. Comprehensive DNA barcode coverage of North American birds. Molecular Ecology Notes 4 (2007) 535-543
27. Marthinsen G., Wennerberg L., and Lifjeld J.T. Low support for separate species within the redpoll complex (Carduelis flammea-hornemanni-cabaret) from analyses of mtDNA and microsatellite markers. Molecular Phylogenetics and Evolution 47 (2008) 1005-1017
28. Munoz-Fuentes V., Vila C., Green A.J., Negro J., and Sorenson D. Hybridization between white-headed ducks and introduced ruddy ducks in Spain. Molecular Ecology 10 (2006) 1-10
29. Nguembock B., Fjeldså J., Tillier A., and Pasquet E. A phylogeny for the Cisticolidae (Aves: Passeriformes) based on nuclear and mitochondrial DNA sequence data, and a re-interpretation of an unique nest-building specialization. Molecular Phylogenetics and Evolution 42 (2007) 272-286
30. Nguembock B., Fjeldså J., Couloux A., Cruaud C., and Pasquet E. Phylogeny of Laniarius: molecular data reveal L. liberatus synonymous with L. erlangeri and "plumage coloration" as unreliable morphological characters for defining species and subspecies groups. Molecular Phylogenetics and Evolution 48 (2008) 396-407
31. Nguembock B., Fjeldså J., Cruaud C., and Pasquet E. Molecular phylogenetic analysis of all members of the genus Elminia confirms their presence within the Stenostiridae clade. Zoologica Scripta 37 (2008) 591-602
32. Nylander, J.A.A. 2004. MrModeltest2. Available from: .
33. Parchman T.L., Benkman C.W., and Britch S.C. Patterns of genetic variation in the adaptative radiation of New World crossbills (Aves: Loxia). Molecular Ecology 15 (2006) 1873-1887
34. Price T. Speciation in Birds (2008), Roberts & Company, Greenwood Village, Colorado
35. Ryan P.G., Wright D., Oatley G., Wakeling J., Cohen C., Novell T.L., Bowie R.C.K., Ward V., and Crowe T.M. Systematics of Serinus canaries and the status of Cape and Yellow-crowned Canaries inferred from mtDNA and morphology. Ostrich 75 (2004) 288-294
36. Shimodaira H., and Hasegawa M. Multiple comparisons of Log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16 (1999) 1114-1116
37. Sibley C.G., and Ahlquist J.E. Phylogeny and Classification of Birds. A Study in Molecular Evolution (1990), Yale University Press, New Haven, CT
38. Sibley C.G., and Monroe Jr. B.L. Distribution and Taxonomy of Birds of the World (1990), Yale University Press, New Haven, CT
39. Slade R.W., Moritz C., Heideman A., and Hale P.T. Rapid assessment of single-copy nuclear DNA variation in diverse species. Molecular Ecology 2 (1993) 359-373
40. Sorenson M.D., and Quinn T.W. Numts: a challenge for avian systematics and population biology. Auk 115 (1998) 214-221
41. Summers R.W., Dawson R.J.G., and Phillips R.E. Assortative mating and patterns of inheritance indicate that the three crossbill taxa in Scotland are species. Journal of Avian Biology 38 (2007) 153-162
42. Tordoff H.B. A systematic study of the avian family Fringillidae based on the structure of the skull. University of Michigan Museum of Zoology 81 (1954) 1-41
43. Van der Meij M.A.A., de Bakker M.A.G., and Bout R.G. Phylogenetic relationships of finches and allies base don nuclear and mitochondrial. Molecular Phylogenetics and Evolution 34 (2005) 97-105
44. Winnepenninckx B., Backeljau T., and De Wachter R. Extraction of high molecular weight DNA from mollusks. Trends in Genetics 9 (1993) 407
45. Wolters H.E. Die Vogelarten der Erde (1980), Paul Parey, Hamburg and Berlin
46. Yuri T., and Mindell D.P. Molecular phylogenetic analysis of Fringillidae, "New World nine-primaried oscines" (Aves: Passeriformes). Molecular Phylogenetics and Evolution 23 (2002) 229-243
47. Zamora J., Lowy E., Ruiz-del-Valle Moscoso V.J., Serrano-Vela J.I., Rivero-de-Aguilar J., and Arnaiz-Villena A. Rhodopechys obsoleta (desert finch): a pale ancestor of greenfinches (Carduelis spp.) according to molecular phylogeny. Journal of Ornithology 147 (2006) 448-456