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- Title
Analysis of Three Sugarcane Homo/Homeologous Regions Suggests Independent Polyploidization Events of Saccharum officinarum and Saccharum spontaneum.
- Authors
de Mendonça Vilela, Mariane; Del Bem, Luiz Eduardo; Van Sluys, Marie-Anne; de Setta, Nathalia; Kitajima, João Paulo; Queiroga Cruz, Guilherme Marcelo; Sforça, Danilo Augusto; de Souza, Anete Pereira; Ferreira, Paulo Cavalcanti Gomes; Grativol, Clícia; Cardoso-Silva, Claudio Benicio; Vicentini, Renato; Vincentz, Michel
- Abstract
Whole genome duplication has played an important role in plant evolution and diversification. Sugarcane is an important crop with a complex hybrid polyploid genome, for which the process of adaptation to polyploidy is still poorly understood. In order to improve our knowledge about sugarcane genome evolution and the homo/homeologous gene expression balance, we sequenced and analyzed 27 BACs (Bacterial Artificial Chromosome) of sugarcane R570 cultivar, containing the putative single-copy genes LFY (seven haplotypes), PHYC (four haplotypes), and TOR (seven haplotypes). Comparative genomic approaches showed that these sugarcane loci presented a high degree of conservation of gene content and collinearity (synteny) with sorghum and rice orthologous regions, but wereinvadedby transposable elements (TE). All the homo/homeologous haplotypesof LFY, PHYC, and TOR are likely tobe functional, because they are all under purifying selection (dN/dS<<1). However, theywere found to participate in a nonequivalentlymanner to the overall expression of the corresponding gene. SNPs, indels, and amino acid substitutions allowed inferring the S. officinarum or S. spontaneum origin of the TOR haplotypes, which further led to the estimation that these twosugarcane ancestral species diverged between 2.5 and 3.5Ma. In addition, analysis of shared TE insertions in TOR haplotypes suggested that twoautopolyploidizationmay have occurred in the lineage that gave rise to S. officinarum, after its divergence from S. spontaneum.
- Subjects
SUGARCANE; PLANT evolution; BIOLOGICAL adaptation; POLYPLOIDY in plant chromosomes; GENE expression in plants
- Publication
Genome Biology & Evolution, 2017, Vol 9, Issue 2, p266
- ISSN
1759-6653
- Publication type
Article
- DOI
10.1093/gbe/evw293