Genetic mapping of EST-SSRs, SSR and InDels to improve saturation of genomic regions in a previously developed sunflower map
Paola Talia1 · Verónica Nishinakamasu1 · Horacio Esteban Hopp1, 2 · Ruth Amelia Heinz1, 2 · Norma Paniego*1
de Biotecnología, CICVyA, CNIA, INTA Castelar, Buenos Aires, Argentina
*Corresponding autor: email@example.com
Financial support: This work was supported by INTA-AEBIO1330 /241331, and granted from the Agencia Nacional de Promoción Científica y Tecnológica (ANPCyT/ PAV2004-137), Argentina.
Keywords: EST-SSR, InDels, linkage map, SSR, sunflower.
In order to saturate a sunflower genetic map and facilitate marker-assisted selection (MAS) breeding for stress response, it is necessary to enhance map saturation with molecular markers localized in linkage groups associated to genomic regions involved in these traits. This work describes the identification and characterization of 1,134 simple sequence repeat (SSR) containing expressed sequence tags (ESTs) from unigenes available databases. Twelve of these functional markers as well as 41 public SSR markers were successfully localized in linkage groups, thus contributing to the saturation of specific regions on a reference genetic-linkage-map derived from recombinant inbred lines (RIL) mapping population from the cross between PAC2 x RHA266 lines. The enriched map includes 547 markers (231 SSR, 9 EST-SSR, 3 insertions/deletions (InDels) and 304 amplified fragment length polymorphisms (AFLPs) distributed in 17 linkage groups (LG), spanning genetic size to 1,942.3 cM and improving its mean density to 3.6 cM per locus. As consequence, no gaps longer than 13.2 cM remain uncovered throughout the entire map, which increases the feasibility of detecting genes or traits of agronomic importance in sunflower.