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Article Dans Une Revue Functional and Integrative Genomics Année : 2019

An integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots: insights on nitrogen starvation responses

Tiago Benedito dos Santos
  • Fonction : Auteur
João Danillo Moura Soares
  • Fonction : Auteur
Viviane Yumi Baba
  • Fonction : Auteur
Anderson R. Meda
  • Fonction : Auteur
Luiz Vieira
  • Fonction : Auteur
Luiz Pereira
  • Fonction : Auteur

Résumé

Coffea arabica L. is an important agricultural commodity, accounting for 60% of traded coffee worldwide. Nitrogen (N) is a macronutrient that is usually limiting to plant yield; however, molecular mechanisms of plant acclimation to N limitation remain largely unknown in tropical woody crops. In this study, we investigated the transcriptome of coffee roots under N starvation, analyzing poly-A+ libraries and small RNAs. We also evaluated the concentration of selected amino acids and N-source preferences in roots. Ammonium was preferentially taken up over nitrate, and asparagine and glutamate were the most abundant amino acids observed in coffee roots. We obtained 34,654 assembled contigs by mRNA sequencing, and validated the transcriptional profile of 12 genes by RT-qPCR. Illumina small RNA sequencing yielded 8,524,332 non-redundant reads, resulting in the identification of 86 microRNA families targeting 253 genes. The transcriptional pattern of eight miRNA families was also validated. To our knowledge, this is the first catalog of differentially regulated amino acids, N sources, mRNAs, and sRNAs in Arabica coffee roots.

Dates et versions

hal-03469108 , version 1 (07-12-2021)

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Citer

Tiago Benedito dos Santos, João Danillo Moura Soares, Joni Esrom Lima, Juliana Christiny Silva, Suzana Tiemi Ivamoto, et al.. An integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots: insights on nitrogen starvation responses. Functional and Integrative Genomics, 2019, 19 (1), pp.151-169. ⟨10.1007/s10142-018-0634-8⟩. ⟨hal-03469108⟩
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