| Title |
An integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots: insights on nitrogen starvation responses
|
|---|---|
| Published in |
Functional & Integrative Genomics, September 2018
|
| DOI | 10.1007/s10142-018-0634-8 |
| Pubmed ID | |
| Authors |
Tiago Benedito dos Santos, João D. M. Soares, Joni E. Lima, Juliana C. Silva, Suzana T. Ivamoto, Viviane Y. Baba, Silvia G. H. Souza, Alan P. R. Lorenzetti, Alexandre R. Paschoal, Anderson R. Meda, Milton Y. Nishiyama Júnior, Úrsula C. de Oliveira, João B. Mokochinski, Romain Guyot, Inácio L. M. Junqueira-de-Azevedo, Antônio V. O. Figueira, Paulo Mazzafera, Osvaldo R. Júnior, Luiz G. E. Vieira, Luiz F. P. Pereira, Douglas S. Domingues |
| Abstract |
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. |
X Demographics
The data shown below were collected from the profiles of 5 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| France | 1 | 20% |
| Unknown | 4 | 80% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 4 | 80% |
| Scientists | 1 | 20% |
Mendeley readers
The data shown below were compiled from readership statistics for 28 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 28 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 5 | 18% |
| Other | 3 | 11% |
| Student > Master | 3 | 11% |
| Professor | 3 | 11% |
| Student > Doctoral Student | 2 | 7% |
| Other | 4 | 14% |
| Unknown | 8 | 29% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 9 | 32% |
| Biochemistry, Genetics and Molecular Biology | 6 | 21% |
| Computer Science | 1 | 4% |
| Medicine and Dentistry | 1 | 4% |
| Chemistry | 1 | 4% |
| Other | 0 | 0% |
| Unknown | 10 | 36% |
Attention Score in Context
This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 10 September 2018.
All research outputs
#14,425,183
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Outputs from Functional & Integrative Genomics
#160
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#188,667
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Outputs of similar age from Functional & Integrative Genomics
#3
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