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Development of expressed sequence tag and expressed sequence tag-simple sequence repeat marker resources for Musa acuminata

Passos Marco A.N., De Oliveira Cruz Viviane, Emediato Flavia L., De Camargo Teixeira Cristiane, Souza Jr Manoel T., Matsumoto Takashi, Rennó Azevedo Vânia C., Ferreira Claudia Fortes, Amorim Edson Perito, De Alencar Figueiredo Lucio Flavio, Martins Natalia, Barbosa Cavalcante Maria De Jesus, Baurens Franc-Christophe, Da Silva Jr Orzenil Bonfim, Pappas Junior Georgios, Pignolet Luc, Abadie Catherine, Ciampi Ana, Piffanelli Pietro, Miller Roberto Neil Gerard. 2012. Development of expressed sequence tag and expressed sequence tag-simple sequence repeat marker resources for Musa acuminata. AoB Plants, 2012 (pls030), 20 p.

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Abstract : Background and aims Banana (Musa acuminata) is a crop contributing to global food security. Many varieties lack resistance to biotic stresses, due to sterility and narrow genetic background. The objective of this study was to develop an expressed sequence tag (EST) database of transcripts expressed during compatible and incompatible banana-Mycosphaerella fijiensis (Mf) interactions. Black leaf streak disease (BLSD), caused by Mf, is a destructive disease of banana. Microsatellite markers were developed as a resource for crop improvement. Methodology cDNA libraries were constructed from in vitro-infected leaves from BLSD-resistant M. acuminata ssp. burmaniccoides Calcutta 4 (MAC4) and susceptible M. acuminata cv. Cavendish Grande Naine (MACV). Clones were 5?-end Sanger sequenced, ESTs assembled with TGICL and unigenes annotated using BLAST, Blast2GO and InterProScan. Mreps was used to screen for simple sequence repeats (SSRs), with markers evaluated for polymorphism using 20 diploid (AA) M. acuminata accessions contrasting in resistance to Mycosphaerella leaf spot diseases. Principal results A total of 9333 high-quality ESTs were obtained for MAC4 and 3964 for MACV, which assembled into 3995 unigenes. Of these, 2592 displayed homology to genes encoding proteins with known or putative function, and 266 to genes encoding proteins with unknown function. Gene ontology (GO) classification identified 543 GO terms, 2300 unigenes were assigned to EuKaryotic orthologous group categories and 312 mapped to Kyoto Encyclopedia of Genes and Genomes pathways. A total of 624 SSR loci were identified, with trinucleotide repeat motifs the most abundant in MAC4 (54.1 %) and MACV (57.6 %). Polymorphism across M. acuminata accessions was observed with 75 markers. Alleles per polymorphic locus ranged from 2 to 8, totalling 289. The polymorphism information content ranged from 0.08 to 0.81. Conclusions This EST collection offers a resource for studying functional genes, including transcripts expressed in banana-Mf interactions. Markers are applicable for genetic mapping, diversity characterization and marker-assisted breeding. (Résumé d'auteur)

Mots-clés Agrovoc : Musa acuminata, Mycosphaerella fijiensis, Séquence nucléotidique, Expression des gènes, Marqueur génétique, Polymorphisme génétique, Amélioration des plantes

Mots-clés géographiques Agrovoc : Brésil

Mots-clés complémentaires : SSR

Classification Agris : F30 - Plant genetics and breeding
H20 - Plant diseases

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

Auteurs et affiliations

  • Passos Marco A.N., UNB [Universidade de Brasilia] (BRA)
  • De Oliveira Cruz Viviane, UNB [Universidade de Brasilia] (BRA)
  • Emediato Flavia L., UNB [Universidade de Brasilia] (BRA)
  • De Camargo Teixeira Cristiane, UCB (BRA)
  • Souza Jr Manoel T., IMAZON (BRA)
  • Matsumoto Takashi, NIAS (JPN)
  • Rennó Azevedo Vânia C., EMBRAPA (BRA)
  • Ferreira Claudia Fortes, EMBRAPA (BRA)
  • Amorim Edson Perito, EMBRAPA (BRA)
  • De Alencar Figueiredo Lucio Flavio, UCB (BRA)
  • Martins Natalia, EMBRAPA (BRA)
  • Barbosa Cavalcante Maria De Jesus, EMBRAPA (BRA)
  • Baurens Franc-Christophe, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-5219-8771
  • Da Silva Jr Orzenil Bonfim, EMBRAPA (BRA)
  • Pappas Junior Georgios, UNB [Universidade de Brasilia] (BRA)
  • Pignolet Luc, CIRAD-BIOS-UMR BGPI (FRA)
  • Abadie Catherine, CIRAD-BIOS-UMR BGPI (GLP)
  • Ciampi Ana, EMBRAPA (BRA)
  • Piffanelli Pietro, Parco Tecnologico Padano (ITA)
  • Miller Roberto Neil Gerard, UNB [Universidade de Brasilia] (BRA)

Source : Cirad - Agritrop (https://agritrop.cirad.fr/567198/)

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