ArticlePloS one2013
The hot pepper (Capsicum annuum) microRNA transcriptome reveals novel and conserved targets: a foundation for understanding MicroRNA functional roles in hot pepper.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 69 citations in OpenAlex.
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- In silico and computational analysis of zinc finger motif-associated homeodomain (ZF-HD) family genes in chilli (Capsicum annuum L).BMC genomics · 2023Article
- Recent advances and potential applications of cross-kingdom movement of miRNAs in modulating plant's disease response.RNA biology · 2022Review
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- CRISPR/Cas9 mutants of tomato MICRORNA164 genes uncover their functional specialization in development.Plant physiology · 2021Article
- Identification of miRNAs and Their Targets Involved in Flower and Fruit Development across Domesticated and WildInternational journal of molecular sciences · 2021Article
- Integration of mRNA and miRNA profiling reveals the heterosis of three hybrid combinations ofGM crops & food · 2021Article
- Integrated Analysis of miRNAs Associated With Sugarcane Responses to Low-Potassium Stress.Frontiers in plant science · 2021Article
- High-Throughput Sequencing and Expression Analysis Suggest the Involvement ofInternational journal of molecular sciences · 2020Article
- Network analysis of noncoding RNAs in pepper provides insights into fruit ripening control.Scientific reports · 2019Article
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- Identification and expression profiling of miRNAs in two color variants of carrot (Daucus carota L.) using deep sequencing.PloS one · 2019Article
- Genome-wide comparative analysis in Solanaceous species reveals evolution of microRNAs targeting defense genes in Capsicum spp.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
- Transcriptomic analyses of rice (Oryza sativa) genes and non-coding RNAs under nitrogen starvation using multiple omics technologies.BMC genomics · 2018Article
- Analysis of the Coding and Non-Coding RNA Transcriptomes in Response to Bell Pepper Chilling.International journal of molecular sciences · 2018Article
- Small RNAs, emerging regulators critical for the development of horticultural traits.Horticulture research · 2018Article
- Expansion of Capsicum annuum fruit is linked to dynamic tissue-specific differential expression of miRNA and siRNA profiles.PloS one · 2018Article
Corrections and comments
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Authors and funding
14 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) are a class of non-coding RNAs approximately 21 nt in length which play important roles in regulating gene expression in plants. Although many miRNA studies have focused on a few model plants, miRNAs and their target genes remain largely unknown in hot pepper (Capsicum annuum), one of the most important crops cultivated worldwide. Here, we employed high-throughput sequencing technology to identify miRNAs in pepper extensively from 10 different libraries, including leaf, stem, root, flower, and six developmental stage fruits. Based on a bioinformatics pipeline, we successfully identified 29 and 35 families of conserved and novel miRNAs, respectively. Northern blot analysis was used to validate further the expression of representative miRNAs and to analyze their tissue-specific or developmental stage-specific expression patterns. Moreover, we computationally predicted miRNA targets, many of which were experimentally confirmed using 5' rapid amplification of cDNA ends analysis. One of the validated novel targets of miR-396 was a domain rearranged methyltransferase, the major de novo methylation enzyme, involved in RNA-directed DNA methylation in plants. This work provides the first reliable draft of the pepper miRNA transcriptome. It offers an expanded picture of pepper miRNAs in relation to other plants, providing a basis for understanding the functional roles of miRNAs in pepper.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.