Data from: Ancestral polyploidy in seed plants and angiosperms

Pamela S. Soltis, Florida Museum of Natural History, University of Florida
Sandra W. Clifton, Genome Center at Washington University
Douglas E. Soltis, Department of Biology, University of Florida
Claude W. Depamphilis, Department of Biology, Institute of Molecular Evolutionary Genetics, Pennsylvania State University
Lena Landherr, Department of Biology, Institute of Molecular Evolutionary Genetics, Pennsylvania State University
Lynn P. Tomsho, Center for Comparative Genomics, Center for Infectious Disease Dynamics, Pennsylvania State University
Jim Leebens-Mack, Department of Plant Biology, University of Georgia
André S. Chanderbali, Department of Biology, University of Florida
Haiying Liang, Department of Genetics and Biochemistry, Clemson University
Scott E. Schlarbaum, Department of Forestry, Wildlife and Fisheries, Institute of Agriculture, University of Tennessee
Paula E. Ralph, Department of Biology, Institute of Molecular Evolutionary Genetics, Pennsylvania State University
Norman J. Wickett, Department of Biology, Institute of Molecular Evolutionary Genetics, Pennsylvania State University
Saravanaraj Ayyampalayam, Department of Plant Biology, University of Georgia
Stephan C. Schuster, Center for Comparative Genomics, Center for Infectious Disease Dynamics, Pennsylvania State University
Yuannian Jiao, Intercollege Graduate Degree Program in Plant Biology, Pennsylvania State University
Yi Hu, Department of Biology, Institute of Molecular Evolutionary Genetics, Pennsylvania State University
Hong Ma, State Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University

Description

Analysis1 - alignments and trees of 9 sequenced genomesAnalysis1.zipAnalysis2 - alignments and trees when basal angiosperms are consideredAnalysis2.zipAnalysis3 - alignments and trees when gymnosperms are consideredAnalysis3.zipAnalysis4 - alignments and trees when basal angiosperms and gymnosperms are consideredAnalysis4.zip,Whole-genome duplication (WGD), or polyploidy, followed by gene loss and diploidization has long been recognized as an important evolutionary force in animals, fungi and other organisms1, 2, 3, especially plants. The success of angiosperms has been attributed, in part, to innovations associated with gene or whole-genome duplications4, 5, 6, but evidence for proposed ancient genome duplications pre-dating the divergence of monocots and eudicots remains equivocal in analyses of conserved gene order. Here we use comprehensive phylogenomic analyses of sequenced plant genomes and more than 12.6 million new expressed-sequence-tag sequences from phylogenetically pivotal lineages to elucidate two groups of ancient gene duplications—one in the common ancestor of extant seed plants and the other in the common ancestor of extant angiosperms. Gene duplication events were intensely concentrated around 319 and 192 million years ago, implicating two WGDs in ancestral lineages shortly before the diversification of extant seed plants and extant angiosperms, respectively. Significantly, these ancestral WGDs resulted in the diversification of regulatory genes important to seed and flower development, suggesting that they were involved in major innovations that ultimately contributed to the rise and eventual dominance of seed plants and angiosperms.

Publication Date

1-1-2011

Publisher

DRYAD

DOI

10.5061/dryad.8546

Language

en

Document Type

Data Set

Identifier

10.5061/dryad.8546

Embargo Date

1-1-2011

Version

1

Link to Full Text

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