ArticleSaudi journal of biological sciences2014
Computational identification of miRNA and targets from expressed sequence tags of coffee (Coffea arabica).
Article in Saudi journal of biological sciences, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 58 citations in OpenAlex.
- Prospects for improvement of coffee quality and stress resilience using genomic and genetic resources.Frontiers in plant science · 2026Review
- Identification of SNP Markers and Candidate Genes Associated with Major Agronomic Traits inPlants (Basel, Switzerland) · 2024Article
- Small RNAs: Promising Molecules to Tackle Climate Change Impacts in Coffee Production.Plants (Basel, Switzerland) · 2023Review
- Identification of conserved miRNAs and their targets in Jatropha curcas: an in silico approach.Journal, genetic engineering & biotechnology · 2023Article
- Functional role of microRNA in the regulation of biotic and abiotic stress in agronomic plants.Frontiers in genetics · 2023Review
- Novel MicroRNAs and their Functional Targets fromCurrent genomics · 2022Article
- Article
- In Silico Identification and Functional Characterization of Conserved miRNAs in the Genome ofBioinformatics and biology insights · 2021Article
- Genome wide in-silico miRNA and target network prediction from stress responsive Horsegram (Macrotyloma uniflorum) accessions.Scientific reports · 2020Article
- An integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots: insights on nitrogen starvation responses.Functional & integrative genomics · 2019Article
- Regulation of Isoflavone Biosynthesis by miRNAs in Two Contrasting Soybean Genotypes at Different Seed Developmental Stages.Frontiers in plant science · 2017Article
- A genome-wide analysis of the RNA-guided silencing pathway in coffee reveals insights into its regulatory mechanisms.PloS one · 2017Article
- Functional Roles of microRNAs in Agronomically Important Plants-Potential as Targets for Crop Improvement and Protection.Frontiers in plant science · 2017Review
- In silico identification of miRNAs and their target genes and analysis of gene co-expression network in saffron (Molecular biology research communications · 2016Article
- Prediction and characterization of microRNAs from eleven fish species by computational methods.Saudi journal of biological sciences · 2015Article
- Identification of novel and conserved microRNAs in Coffea canephora and Coffea arabica.Genetics and molecular biology · 2014Article
- Computational identification of conserved microRNAs and their targets from expression sequence tags of blueberry (Vaccinium corybosum).Plant signaling & behavior · 2014Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) are the group of ∼22 nucleotides long noncoding small endogenous and evolutionary conserved post-transcriptional regulatory RNAs, which show an enormous role in various biological and metabolic processes in both animals and plants. To date not a single miRNA has been identified in coffee (Coffea arabica), which is an economically important plant of Rubiaceae family. In this study a well-developed, powerful and comparative computational approach, EST-based homology search is applied to find potential miRNA of coffee. We blasted publicly available EST sequences obtained from NCBI GenBank against previously known plant miRNAs. For the first time, one potential miRNA from a large miRNA family with appropriate fold back structures was identified through a series of filtration criteria. A total of six potential target genes in Arabidopsis were identified based on their sequence complementarities. The target genes mainly encode transport inhibitor like protein, transcription factor, DNA-binding protein, and GRR1-like protein, and these genes play an important role in various biological processes like response to chitin, cold, salt stress, water deprivation etc. Overall, findings from this study will accelerate the way for further researches of miRNAs and their functions in coffee.
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