The DOI matches its Crossref record; 13 of the 13 references it cites were found in a registry or an index.
Improvement of molecular phylogenetic inference and the phylogeny of Bilateria
Open accessAbstract
Inferring the relationships among Bilateria has been an active and controversial research area since Haeckel. The lack of a sufficient number of phylogenetically reliable characters was the main limitation of traditional phylogenies based on morphology. With the advent of molecular data, this problem has been replaced by another one, statistical inconsistency, which stems from an erroneous interpretation of convergences induced by multiple changes. The analysis of alignments rich in both genes and species, combined with a probabilistic method (maximum likelihood or Bayesian) using sophisticated models of sequence evolution, should alleviate these two major limitations. We applied this approach to a dataset of 94 genes and 79 species using CAT, a previously developed model accounting for site-specific amino acid replacement patterns. The resulting tree is in good agreement with current knowledge: the monophyly of most major groups (e.g. Chordata, Arthropoda, Lophotrochozoa, Ecdysozoa, Protostomia) was recovered with high support. Two results are surprising and are discussed in an evo–devo framework: the sister-group relationship of Platyhelminthes and Annelida to the exclusion of Mollusca, contradicting the Neotrochozoa hypothesis, and, with a lower statistical support, the paraphyly of Deuterostomia. These results, in particular the status of deuterostomes, need further confirmation, both through increased taxonomic sampling, and future improvements of probabilistic models.
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Cites
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Cases in which parsimony or compatibility methods will be positively misleading.
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Evidence for a clade of nematodes, arthropods and other moulting animals
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Lartillot, N., Brinkmann, H., & Philippe, H. (2007) · BMC Evolutionary Biology · doi:10.1186/1471-2148-7-s1-s4 · Cited by 705
Self-citationPhilippe, H., Lartillot, N., & Brinkmann, H. (2005) · Molecular Biology and Evolution · doi:10.1093/molbev/msi111 · Cited by 551
Self-citationPeterson, K. J., & Eernisse, D. J. (2001) · Evolution & Development · doi:10.1046/j.1525-142x.2001.003003170.x · Cited by 529 · cited 4×
“In this perspective, the Neotrochozoa (molluscs C annelids) found by WAG would be an artefact.”
InfluentialThe new animal phylogeny: Reliability and implications
Adoutte, A., Balavoine, G., Lartillot, N., Lespinet, O., Prud'homme, B., & de Rosa, R. (2000) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.97.9.4453 · Cited by 512 · cited 2×
“In fact, Deuterosto-mia sensu stricto (echinoderms, hemichordates and chordates) have long been considered as one of the most reliable phylogenetic groupings in the animal phylogeny (Adoutte et al. 2000).”
Self-citationThe New View of Animal Phylogeny
Halanych, K. M. (2004) · Annual Review of Ecology, Evolution, and Systematics · doi:10.1146/annurev.ecolsys.35.112202.130124 · Cited by 489
Modeling compositional heterogeneity
Foster, P. G. (2004) · Systematic Biology · doi:10.1080/10635150490445779 · Cited by 474
The fossil record and the early evolution of the Metazoa
Morris, S. C. (1993) · Nature · doi:10.1038/361219a0 · Cited by 389
Cited by
Lartillot, N., Rodrigue, N., Stubbs, D., & Richer, J. (2013) · Systematic Biology · doi:10.1093/sysbio/syt022 · Cited by 871
Self-citationPhylogenomics Revives Traditional Views on Deep Animal Relationships
Philippe, H., Derelle, R., Lopez, P., Pick, K., Borchiellini, C., Boury-Esnault, N., Vacelet, J., Renard, E., Houliston, E., Quéinnec, E., et al. (2009) · Current Biology · doi:10.1016/j.cub.2009.02.052 · Cited by 695
Self-citationImpact of missing data on phylogenies inferred from empirical phylogenomic data sets
Roure, B., Baurain, D., & Philippe, H. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mss208 · Cited by 365
Self-citationPhylogenomic Interrogation of Arachnida Reveals Systemic Conflicts in Phylogenetic Signal
Sharma, P. P., Kaluziak, S. T., Pérez-Porro, A. R., González, V. L., Hormiga, G., Wheeler, W. C., & Giribet, G. (2014) · Molecular Biology and Evolution · doi:10.1093/molbev/msu235 · Cited by 326
A Phylogenomic Approach to Resolve the Arthropod Tree of Life
Meusemann, K., von Reumont, B. M., Simon, S., Roeding, F., Strauss, S., Kuck, P., Ebersberger, I., Walzl, M., Pass, G., Breuers, S., et al. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq130 · Cited by 324
Metadata
- Authors
- Lartillot, N., & Philippe, H.
- Venue
- Philosophical Transactions of the Royal Society B: Biological Sciences
- Publisher
- The Royal Society
- Published
- 2008-01-11
- Volume
- 363
- Issue
- 1496
- Pages
- 1463-1472
- ISSN
- 0962-8436 (ISSN-L)
- 1471-2970
- OpenAlex
- W2158878884
- Cited by
- 177
- References
- 13
- FWCI
- 10.30
- Type
- journal article
- Language
- en
- Open access
- green
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