Genomics / Proteomics
McKain, Michael R. , Wickett, Norman , Zhang, Yeting , Ayyampalayam, Saravanaraj , McCombie, Richard , Chase, Mark , Pires, Joseph , dePamphilis, Claude , Leebens-Mack, Jim .
The effect of paleopolyploidy on genome evolution in Agavoideae.
Polyploidy has been an extremely important component to the evolution of angiosperms. Recent studies have shown that a paleopolyploid event can be traced to the lineage leading to the diversification of all angiosperms, and it has long been known that recurring polyploid events can be found throughout the angiosperm tree of life. In this study, we characterize two previously unknown polyploid events in the subfamily Agavoideae (Asparagaceae). Illumina RNA-seq data were generated for phylogenetically strategic species in Agavoideae. Paleopolyploidy was inferred in analyses of frequency plots for synonymous substitutions per synonymous site (Ks) between Hosta, Agave, and Chlorophytum paralogous and orthologous gene pairs. Phylogenies of gene families including paralogous genes for these species and outgroup species were estimated to place inferred paleopolyploid events on a species tree. This paleopolyploid event co-occurs with the origin of a bimodal karyotype, though it is unclear if this is a causal relationship or coincidental. Using a fully resolved phylogeny of intergeneric relationships, we also look at the incidence of karyotype variability from the hypothesized ancestral "Yucca-Agave" karyotype. Transcriptomes from six members of Agavoideae were used to design probes for the selective capture of genic regions from putative paralogs across Agavoideae. We discuss the relationship of polyploidy, karyotype variability, and the initial results of the sequence capture experiments on the evolution of genome structure and content.
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1 - University Of Georgia, Plant Biology, Miller Plant Science, Athens, GA, 30602, USA
2 - Chicago Botanic Garden, Department Of Ecology & Evolutionary Biology, 5108 N Ashland Ave, Apt 2, Chicago, IL, 60640, USA
3 - The Pennsylvania State University, Department of Biology, State College, PA, 16082
4 - University of Georgia, Department of Plant Biology, Athens, GA, 30602
5 - Cold Spring Harbor Laboratory, Watson School of Biological Sciences, Cold Spring Harbor, NY, 11724
6 - Royal Botanic Gardens - Kew, Jodrell Laboratory, Kew Road, Richmond, N/A, TW9 3DS, United Kingdom
7 - University Of Missouri, 371 Bond Life Sciences Center, 1201 Rollins Street, Columbia, MO, 65211-7310, USA
8 - Pennsylvania State University, Department Of Biology, 101 LIFE SCIENCES BUILDING, UNIVERSITY PARK, PA, 16802, USA
9 - University of Georgia, 2502 Miller Plant Sciences, Athens, GA, 30602, USA
Presentation Type: Oral Paper:Papers for Topics
Location: Union B/Hyatt
Date: Wednesday, July 11th, 2012
Time: 9:30 AM