Rare genomic characters do not support coelomata: RGC_CAMs

Journal of Molecular Evolution

Volumn 66, Issue 3, 2008, Pages 308-315

  Roy, Scott William ^a   Irimia, Manuel ^b  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b UNIVERSITY OF BARCELONA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; GENE SEQUENCE; GENOMICS; HOMOPLASY; MUTATION; NEMATODE; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOLOGY; PHYLOGENY; SEQUENCE ANALYSIS; STATISTICAL ANALYSIS; STATISTICAL SIGNIFICANCE; SYNAPOMORPHY;

GENOMICS; PHYLOGENY;

BILATERIA; COELOMATA; ECDYSOZOA; NEMATOSTELLA VECTENSIS;

EID: 43149098505     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-008-9077-5     Document Type: Article

References (17)

1. Aguinaldo AMA, Turbeville JM, Linford LS, Rivera MC, Garey JR, Raff RA, Lake JA (1997) Evidence for a clade of nematodes, arthropods and other moulting animals. Nature 387:489-493
2. Blair J, Ikeo K, Gojobori T, Hedges S (2002) The evolutionary position of nematodes. BMC Evol Biol 2:7
3. Delsuc F, Brinkmann H, Chourrout D, Philippe H (2006) Tunicates and not cephalochordates are the closest living relatives of vertebrates. Nature 439:965-968
4. Dopazo H, Dopazo J (2005) Genome-scale evidence of the nematode-arthropod clade. Genome Biol 6:R41
5. Field K, Olsen G, Lane D, Giovannoni S, Ghiselin M, Raff E, Pace N, Raff R (1988) Molecular phylogeny of the animal kingdom. Science 239:748-753
6. Irimia M, Maeso I, Penny D, Garcia-Fernandez J, Roy SW (2007) Rare coding sequence changes are consistent with Ecdysozoa, not Coelomata. Mol Biol Evol 24:1604-1607
7. Mushegian A, Garey J, Martin J, Liu L (1998) Large-scale taxonomic profiling of eukaryotic model organisms: a comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes. Genome Res 8:590-598
8. Nguyen H, Yoshihama M, Kenmochi N (2005) New maximum likelihood estimators for eukaryotic intron evolution. PLoS Comput Biol 1:e79
9. Philip GK, Creevey CJ, McInerney JO (2005) The Opisthokonta and the Ecdysozoa may not be clades: stronger support for the grouping of plant and animal than for animal and fungi and stronger support for the Coelomata than Ecdysozoa. Mol Biol Evol 22:1175-1184
10. Philippe H, Lartillot N, Brinkmann H (2005) Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. Mol Biol Evol 22:1246-1253
11. Rogozin IB, Wolf YI, Carmel L, Koonin EV (2007a) Ecdysozoan clade rejected by genome-wide analysis of rare amino acid replacements. Mol Biol Evol 24:1080-1090
12. Rogozin IB, Wolf YI, Carmel L, Koonin EV (2007b) Analysis of rare amino acid replacements supports the Coelomata clade. Mol Biol Evol 24(12): 2594-2597
13. Rokas A, Holland PWH (2000) Rare genomic changes as a tool for phylogenetics. Trends Ecol Evol 15:454-459
14. Roy SW, Gilbert W (2005) Resolution of a deep animal divergence by the pattern of intron conservation. Proc Natl Acad Sci USA 102:4403-4408
15. Stuart G, Berry M (2004) An SVD-based comparison of nine whole eukaryotic genomes supports a coelomate rather than ecdysozoan lineage. BMC Bioinformatics 5:204
16. Wolf Y, Rogozin I, Koonin E (2004) Coelomata and not Ecdysozoa: evidence from genome-wide phylogenetic analysis. Genome Res 14:29-36
17. Zheng J, Rogozin IB, Koonin EV, Przytycka TM (2007) Support for the Coelomata clade of animals from a rigorous analysis of the pattern of intron conservation. Mol Biol Evol 24(11): 2583-2592