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

BMC Bioinformatics

Proceedings

Lorenzo Carretero-Paulet¹  Victor A Albert¹  Eric CH Chen²  David Sankoff³  Chunfang Zheng³  Alex Brandts³  Carlos Fernando Buen Abad Najar⁴  Haibao Tang⁵  Eric Lyons⁶ 

[1] Department of Biological Sciences, University at Buffalo, 14260, Buffalo, New York, USA;Department of Biology, University of Ottawa, 30 Marie-Curie, K1N 6N5, Ottawa, Canada;Department of Mathematics and Statistics, University of Ottawa, 585 King Edward Avenue, K1N 6N5, Ottawa, Canada;Facultad de Ciencias, Universidad Nacional Autónoma de México, Avenida Universidad 3000, Distrito Federal, México;Department of Mathematics and Statistics, University of Ottawa, 585 King Edward Avenue, K1N 6N5, Ottawa, Canada;J Craig Venter Institute, 9704 Medical Center Dr, 20850, Rockville, MD, USA;School of Plant Sciences, iPlant Collaborative Bio5 Institute, University of Arizona, 1657 E Helen St, 85745, Tucson, AZ, USA;

关键词: Whole Genome Duplication;    Foxtail Millet;    Synteny Block;    Whole Genome Duplication Event;    CoGe;   

DOI  :  10.1186/1471-2105-14-S15-S19

来源: Springer

【 摘 要 】

ndTo 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.ResultsWe 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.ConclusionsThe 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.

【 授权许可】

CC BY   
© Chen et al.; licensee BioMed Central Ltd. 2013