The dynamics of functional classes of plant genes in rediploidized ancient polyploids.

Eric C.H. Chen, Carlos Buen Abad Najar, Chunfang Zheng, Alex Brandts, Eric Lyons, Haibao Tang, Lorenzo Carretero-Paulet, Victor A. Albert, David Sankoff

Research output: Contribution to journalArticle

10 Scopus citations

Abstract

We measure the simultaneous dynamics of duplicate orthologous gene loss in rosids, in asterids, and in monocots, as influenced by biological functional class. This pan-angiosperm view confirms common tendencies and consistency through time for both ancient and more recent whole genome polyploidization events. The gene loss analysis represents an assessment of post-polyploidization evolution, at the level of individual gene families within and across sister genomes. Functional analysis confirms universal trends previously reported for more recent plant polyploidy events: genes involved with regulation and responses were retained in multiple copies, while genes involved with metabolic and catalytic processes tended to lose copies, across all three groups of plants.To understand the particular evolutionary patterns of plant genomes, there is a need to systematically survey the fate of the subgenomes of polyploids fixed as whole genome duplicates, including patterns of retention of duplicate, triplicate, etc. genes.

Original languageEnglish (US)
Pages (from-to)S19
JournalBMC bioinformatics
Volume14 Suppl 15
DOIs
StatePublished - 2013

ASJC Scopus subject areas

  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Applied Mathematics

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    Chen, E. C. H., Buen Abad Najar, C., Zheng, C., Brandts, A., Lyons, E., Tang, H., Carretero-Paulet, L., Albert, V. A., & Sankoff, D. (2013). The dynamics of functional classes of plant genes in rediploidized ancient polyploids. BMC bioinformatics, 14 Suppl 15, S19. https://doi.org/10.1186/1471-2105-14-S15-S19