Evolutionary dynamics of hom(oe)ologous haplotypes (bacs) within the highly polyploid sugarcane genome

Garsmeur Olivier, Charron Carine, Jouffe Vincent, Samain Sylvie, Hervouet Catherine, Van Sluys Marie-Anne, Sidibé-Bocs Stéphanie, D'Hont Angélique. 2009. Evolutionary dynamics of hom(oe)ologous haplotypes (bacs) within the highly polyploid sugarcane genome. In : International Conference on Polyploidy, Hybridization and Biodiversity, May 17 - 20, 2009, Saint-Malo, France, program and abstracts. Université de Rennes 1. Rennes : Université de Rennes 1, Résumé, 54. International Conference on Polyploidy, Hybridization and Biodiversity, Saint-Malo, France, 17 Mai 2009/20 Mai 2009.

Résumé : Sugarcane (Saccharum spp.) has been recognized as one of the world's most efficient crops in converting solar energy into chemical energy and having the most favorable input/output ratio. Beside its importance for sugar production it is thus also a primary energy crop. Sugarcane also presents one the most complex crop genomes studied to date. Modern sugarcane cultivars derive from the combination of two polyploid species: S. officinarum, the domesticated sugar-producing species with x=10 and 2n=8x=80, and S. spontaneum, a vigorous wild species with x=8 and 2n=5x=40 to 16x=128 and many aneuploid forms. Both species are thought to have an autopolyploid origin. Modern sugarcanes are highly polyploid (more than decaploid) and aneuploid, with around 120 chromosomes and a genome size of around 10 Gb. They typically display 70 to 80% of chromosomes entirely derived from S. officinarum, 10 to 20% from S. spontaneum and a few chromosomes derived from interspecific recombination. Their meiosis mainly involves bivalent pairing and chromosome assortment results from a combination of polysomy and preferential pairing. We investigated genome dynamics in this highly polyploid context by analyzing the sequence of hom(oe)ologous haplotypes (BAC clones) from the sugarcane cultivar R570. We first analyzed two homoeologous haplotypes from a gene-rich region bearing the Adh1 gene (Jannoo et al 2007), knowing that this region has been thoroughly studied within the Poaceae family. We then analyzed seven hom(oe)ologous haplotypes from a second gene-rich region. Our results indicated that the two Saccharum species diverged 1.5-2 mya from one another and 8-9 mya from sorghum. The sugarcane hom(oe)ologous haplotypes showed a very high colinearity as well as very high gene structure and sequence conservation. A high homology was also observed along the non-transcribed regions to the exception of transposable elements (TEs). Conversely, TEs that represent in average 33% of the BAC clones studied, were not conserved between hom(oe)ologous haplotypes. Compared to sorghum, the sugarcane haplotypes displayed a high colinearity and a remarkable homology in most of the non-coding parts of the genome. On this basis, the high ploidy of sugarcane does not seem to have induced a major reshaping of its genome (at least at the gene level). In addition, the coexistence of potentially in average 12 hom(oe)ologous alleles at each locus does not seems to induce a decrease of conservative selection at the gene sequence level. (Texte intégral)

Mots-clés Agrovoc : Saccharum officinarum

Classification Agris : F30 - Génétique et amélioration des plantes

Auteurs et affiliations

• Garsmeur Olivier, CIRAD-BIOS-UMR DAP (FRA) ORCID: 0000-0001-8869-3689
• Charron Carine, CIRAD-BIOS-UMR DAP (FRA) ORCID: 0000-0003-0281-9936
• Jouffe Vincent
• Samain Sylvie, Centre national de séquençage (FRA)
• Hervouet Catherine, CIRAD-BIOS-UMR DAP (FRA)
• Van Sluys Marie-Anne, USP (BRA)
• Sidibé-Bocs Stéphanie, CIRAD-BIOS-UMR DAP (FRA) ORCID: 0000-0001-7850-4426
• D'Hont Angélique, CIRAD-BIOS-UMR DAP (FRA)

Source : Cirad - Agritrop (https://agritrop.cirad.fr/551227/)

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