Development, characterization, validation, and mapping of SSRs derived from Theobroma cacao L.-Moniliophthora perniciosa interaction ESTs

Santos Lima Livia, Peres Gramacho Karina, Pires José Luis, Clément Didier, Lopes Uilson Vanderlei, Carels Nicolas, Da Silva Gesteira Abelmon, Gaiotto Fernanda Amato, De Mattos Cascardo Julio Cézar, Micheli Fabienne. 2010. Development, characterization, validation, and mapping of SSRs derived from Theobroma cacao L.-Moniliophthora perniciosa interaction ESTs. Tree Genetics and Genomes, 6 (5) : 663-676.

https://doi.org/10.1007/s11295-010-0282-1

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Quartile : Q1, Sujet : FORESTRY / Quartile : Q1, Sujet : HORTICULTURE / Quartile : Q3, Sujet : GENETICS & HEREDITY

Résumé : In this study, we report results of the detection and analysis of SSR markers derived of cacao-Moniliophthora perniciosa expressed sequence tags (ESTs) in relation to cacao resistance to witches' broom disease (WBD), and we compare the polymorphism of those ESTs (EST-simple sequence repeat (SSR)) with classical neutral SSR markers. A total of 3,487 ESTs was used in this investigation. SSRs were identified in 430 sequences: 277 from the resistant genotype TSH 1188 and 153 from the susceptible one Catongo, totalizing 505 EST-SSRs with three types of motifs: dinucleotides (72.1%), trinucleotides (27.3%), and tetranucleotides (0.6%). EST-SSRs were classified into 16 main categories; most of the EST-SSRs belonged to "Unknown function" and "No homology" categories (45.82%). A high frequency of SSRs was found in the 5'UTR and in the ORF (about 27%) and a low frequency was observed in the 3'UTR (about 8%). Forty-nine ESTSSR primers were designed and evaluated in 21 cacao accessions, 12 revealed polymorphism, having 47 alleles in total, with an average of 3.92 alleles per locus. On the other hand, the 11 genomic SSR markers revealed a total of 47 alleles, with an average of 5.22 alleles per locus. The association of EST-SSR with the genomic SSR enhanced the analysis of genetic distance among the genotypes. Among the 12 polymorphic EST-SSR markers, two were mapped on the F2 Sca 6×ICS 1 population reference for WBD resistance.

Mots-clés Agrovoc : Theobroma cacao, Moniliophthora

Mots-clés géographiques Agrovoc : Brésil

Mots-clés complémentaires : Moniliophthora perniciosa

Classification Agris : F30 - Génétique et amélioration des plantes
H20 - Maladies des plantes

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

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