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Bayesian and Maximum Likelihood Analyses of Rotifer–Acanthocephalan Relationships

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Abstract

Rotifera is composed of groups with unusual ultrastructural, physiological, and reproductive characters. Our ability to understand the evolution of these features is complicated by the fact that the phylogenetic relationships among the three traditional rotifer groups (Seisonidea, Monogononta, and Bdelloidea) and Acanthocephala remain unresolved. Here, I present maximum likelihood and Bayesian analyses of rotifer–acanthocephalan relationships using both the protein-coding gene hsp82 and a combined data set of hsp82 and ribosomal small subunit (SSU) DNA sequences, using nucleotide and codon based models of evolution. Statistical analysis of the phylogenetic support for any of the likely relationships among rotifer groups suggests that more than a combined hsp82 + SSU data set will be needed to resolve rotifer–acanthocephalan phylogeny with any degree of certainty.

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References

  • E. Abouheif R. Zardoya A. Meyer (1998) ArticleTitleLimitations of metazoan 18S rRNA sequence data: implications for reconstructing a phylogeny of the animal kingdom and inferring the reality of the Cambrian explosion Journal of Molecular Evolution 47 394–405 Occurrence Handle9767685

    PubMed  Google Scholar 

  • M. E. Alfaro S. Zoller F. Lutzoni (2003) ArticleTitleBayes or Bootstrap? A simulation study comparing the performance of Bayesian Markov Chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence Molecular Biology and Evolution 20 255–266 Occurrence Handle10.1093/molbev/msg028 Occurrence Handle12598693

    Article  PubMed  Google Scholar 

  • W. H. Ahlrichs (1997) ArticleTitleEpidermal ultrastructure of Seison nebaliae and Seison annulatus, and a comparison of epidermal structures within the Gnathifera Zoomorphology 117 41–48 Occurrence Handle10.1007/s004350050028

    Article  Google Scholar 

  • M. P. Cummings S. P. Otto J. Wakeley (1995) ArticleTitleSampling properties of DNA sequence data in phylogenetic analysis Molecular Biology and Evolution 12 814–822 Occurrence Handle7476127

    PubMed  Google Scholar 

  • M. P. Cummings S. A. Handley D. S. Myers D. L. Reed A. Rokas K. Winka (2003) ArticleTitleComparing bootstrap and posterior probability values in the four-taxon case Systematic Biology 52 477–487 Occurrence Handle12857639

    PubMed  Google Scholar 

  • M. P. Cummings S. P. Otto J. Wakeley (1999) ArticleTitleGenes and other samples of DNA sequence data for phylogenetic inference Biological Bulletin 196 532–540

    Google Scholar 

  • C. J. Douady F. Delsuc Y. Baoucher W. F. Doolittle E. J. P. Douzery (2003) ArticleTitleComparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability Molecular Biology and Evolution 20 248–254 Occurrence Handle10.1093/molbev/msg042 Occurrence Handle12598692

    Article  PubMed  Google Scholar 

  • M. García-Varela G. Pérez-Ponce de León P. Torre Particlede la M. P. Cummings S. S. S. Sarma J. P. Laclette (2000) ArticleTitlePhylogenetic relationships of Acanthocephala based on analysis of 18S ribosomal RNA gene sequences Journal of Molecular Evolution 50 532–554 Occurrence Handle10835483

    PubMed  Google Scholar 

  • J. R. Garey T. J. Near M. R. Nonnemacher S. A. Nadler (1996) ArticleTitleMolecular evidence for Acanthocephala as a subtaxon of Rotifera Journal of Molecular Evolution 43 287–292 Occurrence Handle8703095

    PubMed  Google Scholar 

  • J. R. Garey A. Schmidt-Rhaesa T. J. Near S. A. Nadler (1998) ArticleTitleThe evolutionary relationships of rotifers and acanthocephalans Hydrobiologia 387/388 83–91 Occurrence Handle10.1023/A:1017060902909

    Article  Google Scholar 

  • J. J. Gilbert (1983) Rotifera K. G. Adiyodi R. G. Adiyodi (Eds) Reproductive Biology of Invertebrates NumberInSeriesVol. 1. John Wiley & Sons Chichester, NY 181–209

    Google Scholar 

  • A. Graybeal (1998) ArticleTitleIs it better to add taxa or characters to a difficult phylogenetic problem? Systematic Biology 47 9–17 Occurrence Handle10.1080/106351598260996 Occurrence Handle12064243

    Article  PubMed  Google Scholar 

  • J. M. Hancock A. P. Vogler (2000) ArticleTitleHow slippage-derived sequences are incorporated into rRNA variable-region secondary structure: implications for phylogeny reconstruction Molecular Phylogenetics and Evolution 14 366–374 Occurrence Handle10.1006/mpev.1999.0709 Occurrence Handle10712842

    Article  PubMed  Google Scholar 

  • H. Herlyn O. Piskurek J. Schmitz U. Ehlers H. Zischler (2003) ArticleTitleThe syndermatan phylogeny and the evolution of acanthocephalan endoparasitism as inferred from 18S rDNA sequences Molecular Phylogenetics and Evolution 26 155–164 Occurrence Handle10.1016/S1055-7903(02)00309-3 Occurrence Handle12470946

    Article  PubMed  Google Scholar 

  • D. M. Hillis (1996) ArticleTitleInferring complex phylogenies Nature 388 130 Occurrence Handle10.1038/383130a0

    Article  Google Scholar 

  • D. M. Hillis (1998) ArticleTitleTaxonomic sampling, phylogenetic accuracy, and investigator bias Systematic Biology 47 3–8 Occurrence Handle10.1080/106351598260987 Occurrence Handle12064238

    Article  PubMed  Google Scholar 

  • D. M. Hillis J. J. Hill (1993) ArticleTitleAn empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis Systematic Biology 42 182–192

    Google Scholar 

  • J. P. Huelsenbeck F. Ronquist (2001) ArticleTitleMRBAYES: Bayesian inference of phylogenetic trees Bioinformatics 17 754–755 Occurrence Handle10.1093/bioinformatics/17.8.754 Occurrence Handle11524383

    Article  PubMed  Google Scholar 

  • H. Kishino M Hasegawa (1989) ArticleTitleEvaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea Journal of Molecular Evolution 29 170–179 Occurrence Handle2509717

    PubMed  Google Scholar 

  • G. Lecointre H. Philippe H. L. V. Lê H. Le Guyader (1993) ArticleTitleSpecies sampling has a major impact on phylogenetic inference Molecular Phylogenetics and Evolution 2 205–224 Occurrence Handle10.1006/mpev.1993.1021 Occurrence Handle8136922

    Article  PubMed  Google Scholar 

  • L. E. Maley C. R Marshall (1998) ArticleTitleThe coming of age of molecular systematics Science 279 505–506 Occurrence Handle10.1126/science.279.5350.505 Occurrence Handle9454349

    Article  PubMed  Google Scholar 

  • D. B. Mark Welch (2000) ArticleTitleEvidence from a protein-coding gene that acanthocephalans are rotifers Invertebrate Biology 111 17–23

    Google Scholar 

  • D. B. Mark Welch (2001) ArticleTitleEarly contributions of molecular phylogenetics to understanding the evolution of Rotifera Hydrobiologia 446/447 315–322 Occurrence Handle10.1023/A:1017502923286

    Article  Google Scholar 

  • D. B. Mark Welch M. Meselson (2000) ArticleTitleEvidence for the evolution of bdelloid rotifers without sexual reproduction or genetic exchange Science 288 2111–2115 Occurrence Handle10896573

    PubMed  Google Scholar 

  • D. B. Mark Welch M. Meselson (2001) ArticleTitleRates of nucleotide evolution in sexual and anciently asexual rotifers Proceedings of the National Academy of Sciences USA 98 6720–6724 Occurrence Handle10.1073/pnas.111144598

    Article  Google Scholar 

  • T. Near (2002) ArticleTitleAcanthocephalan phylogeny and the evolution of parasitism Integrative and Comparative Biology 42 668–677

    Google Scholar 

  • A. R. Omilian D. J. Taylor (2001) ArticleTitleRate acceleration and long-branch attraction in a conserved gene of cryptic Daphniid (Crustacea) species Molecular Biology and Evolution 18 2201–2212 Occurrence Handle11719570

    PubMed  Google Scholar 

  • S. P. Otto M. P. Cummings J. Wakeley (1996) Inferring phylogenies from DNA sequence data: the effects of sampling P. H. Harvey A. J. Leigh Brown J. Maynard Smith S. Nee (Eds) New Uses for New Phylogenies Oxford University Press Oxford

    Google Scholar 

  • H. Philippe A. Germot (2000) ArticleTitlePhylogeny of eukaryotes based on ribosomal RNA: long-branch attraction and models of sequence evolution Molecular Biology and Evolution 17 830–834 Occurrence Handle10917801

    PubMed  Google Scholar 

  • S. Poe (1998) ArticleTitleSensitivity of phylogeny estimation to taxonomic sampling Systematic Biology 47 18–31 Occurrence Handle12064237

    PubMed  Google Scholar 

  • S. Poe D. L. Swofford (1999) ArticleTitleTaxon sampling revisited Nature 398 299–300 Occurrence Handle10.1038/18592 Occurrence Handle10192331

    Article  PubMed  Google Scholar 

  • D. Posada K. A. Crandall (1998) ArticleTitleMODELTEST: testing the model of DNA substitution Bioinformatics 14 917–818 Occurrence Handle10.1093/bioinformatics/14.9.817

    Article  Google Scholar 

  • C. Ricci G. Melone C. Sotgia (1993) ArticleTitleOld and new data on Seisonidea (Rotifera) Hydrobiologia 255/256 495–511 Occurrence Handle10.1007/BF00025879

    Article  Google Scholar 

  • F. Rodríguez J. F. Oliver A. Marín J. R. Medina (1990) ArticleTitleThe general stochastic model of nucleotide substitution Journal of Theoretical Biology 142 485–501 Occurrence Handle2338834

    PubMed  Google Scholar 

  • H. Segers (2002) ArticleTitleThe nomenclature of the Rotifera: annotated checklist of valid family- and genus-group names Journal of Natural History 36 631–640 Occurrence Handle10.1080/002229302317339707

    Article  Google Scholar 

  • H. Segers R. J. Shiel (2005) ArticleTitleTale of a sleeping beauty: a new and easily cultured model organism for experimental studies on bdelloid rotifers Hydrobiologia 546 141–145

    Google Scholar 

  • H. Shimodaira M. Hasegawa (1999) ArticleTitleMultiple comparisons of log-likelihoods with applications to phylogenetic inference Molecular Biology and Evolution 16 1114–1116

    Google Scholar 

  • J. Sullivan D. L Swofford (1997) ArticleTitleAre guinea pigs rodents? The importance of adequate models in molecular evolution Journal of Mammalian Evolution 2 77–86 Occurrence Handle10.1023/A:1027314112438

    Article  Google Scholar 

  • Y. Suzuki G. V. Glazko M. Nei (2002) ArticleTitleOvercredibility of molecular phylogenies obtained by Bayesian phylogenetics Proceedings of the National Academy of Science USA 99 16138–16143 Occurrence Handle10.1073/pnas.212646199

    Article  Google Scholar 

  • Swofford, D. L., 2002. PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates, Sunderland, MA

  • K. Tamura M. Nei (1993) ArticleTitleEstimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees Molecular Biology and Evolution 10 512–526 Occurrence Handle8336541

    PubMed  Google Scholar 

  • J. D. Thompson D. G. Higgins T. J. Gibson (1994) ArticleTitleCLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice Nucleic Acids Research 22 4673–4680 Occurrence Handle7984417

    PubMed  Google Scholar 

  • R. L. Wallace (1999) Phylum Rotifera E. Knobil J. D. Neill (Eds) Encyclopedia of Reproduction NumberInSeriesVol. 4. Academic Press San Diego, CA 118–129

    Google Scholar 

  • R. L. Wallace (2002) ArticleTitleRotifers: exquisite metazoans Integrative and Comparative Biology 42 660–667

    Google Scholar 

  • T. P. Wilcox D. J. Zwickl T. A. Heath D. M. Hillis (2002) ArticleTitlePhylogenetic relationships of dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support Molecular Phylogenetics Evolution 25 361–371 Occurrence Handle10.1016/S1055-7903(02)00244-0

    Article  Google Scholar 

  • Z. Yang (1997) ArticleTitlePAML: a program package for phylogenetic analysis by maximum likelihood Computer Applications in the Biosciences 15 555–556

    Google Scholar 

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Correspondence to David B. Mark Welch.

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Welch, D.B.M. Bayesian and Maximum Likelihood Analyses of Rotifer–Acanthocephalan Relationships. Hydrobiologia 546, 47–54 (2005). https://doi.org/10.1007/s10750-005-4100-y

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