Taking the first steps towards a standard for reporting on phylogenies: Minimum Information about a Phylogenetic Analysis (MIAPA)

Jim Leebens-Mack, Todd Vision, Eric Brenner, John E. Bowers, Steven Cannon, Mark J. Clement, Clifford W. Cunningham, Claude DePamphilis, Rob DeSalle, Jeff J. Doyle, Jonathan A. Eisen, Xun Gu, John Harshman, Robert K. Jansen, Elizabeth A. Kellogg, Eugene V. Koonin, Brent D. Mishler, Hervé Philippe, J. Chris Pires, Yin Long QiuSeung Y. Rhee, Kimmen Sjölander, Douglas E. Soltis, Pamela S. Soltis, Dennis W. Stevenson, Kerr Wall, Tandy Warnow, Christian Zmasek

Research output: Contribution to journalReview articlepeer-review

Abstract

In the eight years since phylogenomics was introduced as the intersection of genomics and phylogenetics, the field has provided fundamental insights into gene function, genome history and organismal relationships. The utility of phylogenomics is growing with the increase in the number and diversity of taxa for which whole genome and large transcriptome sequence sets are being generated. We assert that the synergy between genomic and phylogenetic perspectives in comparative biology would be enhanced by the development and refinement of minimal reporting standards for phylogenetic analyses. Encouraged by the development of the Minimum Information About a Microarray Experiment (MIAME) standard, we propose a similar roadmap for the development of a Minimal Information About a Phylogenetic Analysis (MIAPA) standard. Key in the successful development and implementation of such a standard will be broad participation by developers of phylogenetic analysis software, phylogenetic database developers, practitioners of phylogenomics, and journal editors.

Original languageEnglish (US)
Pages (from-to)231-237
Number of pages7
JournalOMICS A Journal of Integrative Biology
Volume10
Issue number2
DOIs
StatePublished - 2006

ASJC Scopus subject areas

  • Biotechnology
  • Biochemistry
  • Molecular Medicine
  • Molecular Biology
  • Genetics

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