Diverse genome organization following 13 independent mesopolyploid events in Brassicaceae contrasts with convergent patterns of gene retention

Terezie Mandáková, Zheng Li, Michael S Barker, Martin A. Lysak

Research output: Contribution to journalArticle

22 Citations (Scopus)

Abstract

Hybridization and polyploidy followed by genome-wide diploidization had a significant impact on the diversification of land plants. The ancient At-α whole-genome duplication (WGD) preceded the diversification of crucifers (Brassicaceae). Some genera and tribes also experienced younger, mesopolyploid WGDs concealed by subsequent genome diploidization. Here we tested if multiple base chromosome numbers originated due to genome diploidization after independent mesopolyploid WGDs and how diploidization affected post-polyploid gene retention. Sixteen species representing 10 Brassicaceae tribes were analyzed by comparative chromosome painting and/or whole-transcriptome analysis of gene age distributions and phylogenetic analyses of gene duplications. Overall, we found evidence for at least 13 independent mesopolyploidies followed by different degrees of diploidization across the Brassicaceae. New mesotetraploid events were uncovered for the tribes Anastaticeae, Iberideae and Schizopetaleae, and mesohexaploid WGDs for Cochlearieae and Physarieae. In contrast, we found convergent patterns of gene retention and loss among these independent WGDs. Our combined analyses of genomic data for Brassicaceae indicate that extant chromosome number variation in many plant groups, and especially monophyletic taxa with multiple base chromosome numbers, can result from clade-specific genome duplications followed by diploidization. Our observation of parallel gene retention and loss across multiple independent WGDs provides one of the first multi-species tests of the predictability of patterns of post-polyploid genome evolution.

Original languageEnglish (US)
Pages (from-to)3-21
Number of pages19
JournalPlant Journal
Volume91
Issue number1
DOIs
StatePublished - Jul 1 2017

Fingerprint

Brassicaceae
Genome
Polyploidy
genome
polyploidy
Genes
chromosome number
genes
Chromosomes
Chromosome Painting
Embryophyta
Gene Duplication
Age Distribution
embryophytes
Gene Expression Profiling
gene duplication
transcriptomics
hybridization
Observation
genomics

Keywords

  • biased gene retention/loss
  • Brassicaceae
  • chromosomal rearrangement
  • chromosome number variation
  • descending dysploidy
  • mesopolyploidy
  • post-polyploid diploidization
  • whole-genome duplication

ASJC Scopus subject areas

  • Genetics
  • Plant Science
  • Cell Biology

Cite this

Diverse genome organization following 13 independent mesopolyploid events in Brassicaceae contrasts with convergent patterns of gene retention. / Mandáková, Terezie; Li, Zheng; Barker, Michael S; Lysak, Martin A.

In: Plant Journal, Vol. 91, No. 1, 01.07.2017, p. 3-21.

Research output: Contribution to journalArticle

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