Analysis of genome-wide linkage disequilibrium in the highly polyploid sugarcane

Raboin Louis-Marie, Pauquet Jérôme, Butterfield Mike, D'Hont Angélique, Glaszmann Jean-Christophe. 2008. Analysis of genome-wide linkage disequilibrium in the highly polyploid sugarcane. Theoretical and Applied Genetics, 116 (5) : pp. 701-714.

Journal article ; Article de revue à facteur d'impact
[img] Published version - Anglais
Access restricted to CIRAD agents
Use under authorization by the author or CIRAD.

Télécharger (669kB)

Abstract : Linkage disequilibrium (LD) in crops, established by domestication and early breeding, can be a valuable basis for mapping the genome. We undertook an assessment of LD in sugarcane (Saccharum spp), characterized by one of the most complex crop genomes, with its high ploidy level (?8) and chromosome number (>100) as well as its interspecific origin. Using AFLP markers, we surveyed 1,537 polymorphisms among 72 modern sugarcane cultivars. We exploited information from available genetic maps to determine a relevant statistical threshold that discriminates marker associations due to linkage from other associations. LD is very common among closely linked markers and steadily decreases within a 0¿30 cM window. Many instances of linked markers cannot be recognized due to the confounding effect of polyploidy. However, LD within a sample of cultivars appears as efficient as linkage analysis within a controlled progeny in terms of assigning markers to cosegregation groups. Saturating the genome coverage remains a challenge, but applying LD-based mapping within breeding programs will considerably speed up the localization of genes controlling important traits by making use of phenotypic information produced in the course of selection. (Résumé d'auteur)

Mots-clés Agrovoc : Saccharum, Génome, Polyploïdie, Marqueur génétique, Polymorphisme génétique, Variété, Gène, Identification, Liaison génétique

Mots-clés complémentaires : Linkage disequilibrium, Gène d'intérêt, AFLP, Cultivar

Classification Agris : F30 - Plant genetics and breeding

Champ stratégique Cirad : Axe 1 (2005-2013) - Intensification écologique

Auteurs et affiliations

  • Raboin Louis-Marie, CIRAD-PERSYST-URP SCRID (MDG)
  • Pauquet Jérôme
  • Butterfield Mike, SASRI (ZAF)
  • D'Hont Angélique, CIRAD-BIOS-UMR DAP (FRA)
  • Glaszmann Jean-Christophe, CIRAD-BIOS-DIR (FRA) ORCID: 0000-0001-9918-875X

Autres liens de la publication

Source : Cirad - Agritrop (

View Item (staff only) View Item (staff only)

[ Page générée et mise en cache le 2021-04-26 ]