EST-SSR development for Digitaria exilis and its relatives D. iburua and D. longiflora from transcriptome sequences

Olodo Katina Floride, Gueye Mame Codou, Calatayud Caroline, Diop Baye Magatte, Kane Ndjido Ardo, Ngom Ablaye, Ntui Valentine O., Barreto Marie-Madeleine S., Uyoh Edak A., Abraham Salomon, Vigouroux Yves, Billot Claire, Barnaud Adeline. 2019. EST-SSR development for Digitaria exilis and its relatives D. iburua and D. longiflora from transcriptome sequences. Plant Genetic Resources, 17 (3) : 280-284.

https://doi.org/10.1017/S1479262118000400

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Url - autres données associées : https://CRAN.R-project.org/package=factoextra

Quartile : Q4, Sujet : PLANT SCIENCES

Résumé : Digitaria exilis is an important indigenous cereal in West Africa. The first fonio reference transcriptome was released and became a key tool for developing new molecular markers contributing to a better understanding of its genetic diversity. A total of 126 new putative primer pairs were successfully designed in 37,327 unigenes from the D. exilis transcriptome. Thirty-seven primer pairs were randomly selected and tested for their ability to cross-amplify to related species. Clear amplification patterns were observed on 24 primer pairs. Of these, 71, 74 and 35% showed polymorphism in three species: D. exilis, D. longiflora and D. iburua. The transferability from D. exilis was 96% to D. longiflora and 71% to D. iburua. The new SSR markers confirmed the close genetic proximity of D. exilis with D. longiflora and its stronger genetic difference of D. exilis from D. iburua. These markers will be valuable for completing future knowledge on Digitaria evolutionary history, and for testing gene flows between related species.

Mots-clés Agrovoc : Digitaria, variation génétique, diversité génétique (comme ressource), séquence nucléotidique, technique génétique, séquence d'adn, microsatellite

Mots-clés géographiques Agrovoc : Bénin, Burkina Faso, Mali, Guinée, Niger, Sénégal, Togo

Mots-clés libres : Cross-amplification, Digitaria, Diversity, EST-SSR, Microsatellite, Poaceae

Classification Agris : F30 - Génétique et amélioration des plantes

Champ stratégique Cirad : CTS 1 (2019-) - Biodiversité

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