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High homologous gene conservation despite extreme autopolyploid redundancy in sugarcane
Author(s) -
Garsmeur Olivier,
Charron Carine,
Bocs Stéphanie,
Jouffe Vincent,
Samain Sylvie,
Couloux Arnaud,
Droc Gaëtan,
Zini Cyrille,
Glaszmann JeanChristophe,
Van Sluys MarieAnne,
D’Hont Angélique
Publication year - 2011
Publication title -
new phytologist
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.742
H-Index - 244
eISSN - 1469-8137
pISSN - 0028-646X
DOI - 10.1111/j.1469-8137.2010.03497.x
Subject(s) - biology , polyploid , genome , genetics , saccharum officinarum , gene , context (archaeology) , evolutionary biology , haplotype , ploidy , botany , allele , paleontology
Summary• Modern sugarcane ( Saccharum spp.) is the leading sugar crop and a primary energy crop. It has the highest level of ‘vertical’ redundancy (2 n = 12 x = 120) of all polyploid plants studied to date. It was produced about a century ago through hybridization between two autopolyploid species, namely S. officinarum and S. spontaneum.• In order to investigate the genome dynamics in this highly polyploid context, we sequenced and compared seven hom(oe)ologous haplotypes (bacterial artificial chromosome clones). • Our analysis revealed a high level of gene retention and colinearity, as well as high gene structure and sequence conservation, with an average sequence divergence of 4% for exons. Remarkably, all of the hom(oe)ologous genes were predicted as being functional (except for one gene fragment) and showed signs of evolving under purifying selection, with the exception of genes within segmental duplications. By contrast, transposable elements displayed a general absence of colinearity among hom(oe)ologous haplotypes and appeared to have undergone dynamic expansion in Saccharum , compared with sorghum, its close relative in the Andropogonea tribe. • These results reinforce the general trend emerging from recent studies indicating the diverse and nuanced effect of polyploidy on genome dynamics.