ArticleJournal of experimental botany2014
Genome-wide discovery and differential regulation of conserved and novel microRNAs in chickpea via deep sequencing.
Article in Journal of experimental botany, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers, 1 of them a synthesis that pooled it.
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Who cites it
36 citing papers in PubMed, 1 synthesis or guideline pooled it, 79 citations in OpenAlex.
- Exploring Chickpea Germplasm Diversity for Broadening the Genetic Base Utilizing Genomic Resourses.Frontiers in genetics · 2022Pooled it
- Identification of miRNAs associated with Aspergillus flavus infection and their targets in groundnut (Arachis hypogaea L.).BMC plant biology · 2025Article
- Exploring the drought-responsive miRNAs and their corresponding target genes in chickpea root tissue.Plant molecular biology · 2025Article
- Article
- Genome-Wide Identification and Characterization of miRNAs and Natural Antisense Transcripts Show the Complexity of Gene Regulatory Networks for Secondary Metabolism inInternational journal of molecular sciences · 2024Article
- Unravelling Differential DNA Methylation Patterns in Genotype Dependent Manner under Salinity Stress Response in Chickpea.International journal of molecular sciences · 2023Article
- CicerSpTEdb2.0: An Upgrade of Cicer Species Transposable Elements Database.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Transcriptome landscape of early inflorescence developmental stages identifies key flowering time regulators in chickpea.Plant molecular biology · 2022Article
- Genome-wide identification and functional prediction of salt- stress related long non-coding RNAs (lncRNAs) in chickpea (Physiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- Review
- Azadirachta indica MicroRNAs: Genome-Wide Identification, Target Transcript Prediction, and Expression Analyses.Applied biochemistry and biotechnology · 2021Article
- Identification and molecular characterization of miRNAs and their target genes associated with seed development through small RNA sequencing in chickpea.Functional & integrative genomics · 2021Article
- Genome-wide profiling of miRNAs during seed development reveals their functional relevance in seed size/weight determination in chickpea.Plant direct · 2021Article
- Integrated Transcriptomic and Bioinformatics Analyses Reveal the Molecular Mechanisms for the Differences in Seed Oil and Starch Content BetweenFrontiers in plant science · 2021Article
- CicerSpTEdb: A web-based database for high-resolution genome-wide identification of transposable elements in Cicer species.PloS one · 2021Article
- DNA methylation reprogramming during seed development and its functional relevance in seed size/weight determination in chickpea.Communications biology · 2020Article
- Integrated transcriptome, small RNA and degradome sequencing approaches provide insights into Ascochyta blight resistance in chickpea.Plant biotechnology journal · 2019Article
- Identification and profiling of narrow-leafed lupin (Lupinus angustifolius) microRNAs during seed development.BMC genomics · 2019Article
- Resistance to Plant-Parasitic Nematodes in Chickpea: Current Status and Future Perspectives.Frontiers in plant science · 2019Article
- Identification and expression profiling of miRNAs in two color variants of carrot (Daucus carota L.) using deep sequencing.PloS one · 2019Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) are essential components of complex gene regulatory networks that orchestrate plant development. Although several genomic resources have been developed for the legume crop chickpea, miRNAs have not been discovered until now. For genome-wide discovery of miRNAs in chickpea (Cicer arietinum), we sequenced the small RNA content from seven major tissues/organs employing Illumina technology. About 154 million reads were generated, which represented more than 20 million distinct small RNA sequences. We identified a total of 440 conserved miRNAs in chickpea based on sequence similarity with known miRNAs in other plants. In addition, 178 novel miRNAs were identified using a miRDeep pipeline with plant-specific scoring. Some of the conserved and novel miRNAs with significant sequence similarity were grouped into families. The chickpea miRNAs targeted a wide range of mRNAs involved in diverse cellular processes, including transcriptional regulation (transcription factors), protein modification and turnover, signal transduction, and metabolism. Our analysis revealed several miRNAs with differential spatial expression. Many of the chickpea miRNAs were expressed in a tissue-specific manner. The conserved and differential expression of members of the same miRNA family in different tissues was also observed. Some of the same family members were predicted to target different chickpea mRNAs, which suggested the specificity and complexity of miRNA-mediated developmental regulation. This study, for the first time, reveals a comprehensive set of conserved and novel miRNAs along with their expression patterns and putative targets in chickpea, and provides a framework for understanding regulation of developmental processes in legumes.
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