ArticleFunctional & integrative genomics2016
PlanTE-MIR DB: a database for transposable element-related microRNAs in plant genomes.
Article in Functional & integrative genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 32 citations in OpenAlex.
- Differences in the intraspecies copy number variation of Arabidopsis thaliana conserved and nonconserved miRNA genes.Functional & integrative genomics · 2023Article
- Perspective for Studying the Relationship of miRNAs with Transposable Elements.Current issues in molecular biology · 2023Article
- Miniature Inverted-Repeat Transposable Elements: Small DNA Transposons That Have Contributed to PlantPlants (Basel, Switzerland) · 2023Review
- MicroRNA-mediated bioengineering for climate-resilience in crops.Bioengineered · 2021Review
- CicerSpTEdb: A web-based database for high-resolution genome-wide identification of transposable elements in Cicer species.PloS one · 2021Article
- Pan-genome: A promising resource for noncoding RNA discovery in plants.The plant genome · 2020Review
- miRNomes involved in imparting thermotolerance to crop plants.3 Biotech · 2018Review
- PlaNC-TE: a comprehensive knowledgebase of non-coding RNAs and transposable elements in plants.Database : the journal of biological databases and curation · 2018Article
- Non-coding RNAs and Their Roles in Stress Response in Plants.Genomics, proteomics & bioinformatics · 2017Review
- Deep sequencing of wheat sRNA transcriptome reveals distinct temporal expression pattern of miRNAs in response to heat, light and UV.Scientific reports · 2016Article
- The emergence of molecular profiling and omics techniques in seagrass biology; furthering our understanding of seagrasses.Functional & integrative genomics · 2016Review
- MicroRNAs As Potential Targets for Abiotic Stress Tolerance in Plants.Frontiers in plant science · 2016Review
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transposable elements (TEs) comprise a major fraction of many plant genomes and are known to drive their organization and evolution. Several studies show that these repetitive elements have a prominent role in shaping noncoding regions of the genome such as microRNA (miRNA) loci, which are components of post-transcriptional regulation mechanisms. Although some studies have reported initial formation of miRNA loci from TE sequences, especially in model plants, the approaches that were used did not employ systems that would allow results to be delivered by a user-friendly database. In this study, we identified 152 precursor miRNAs overlapping TEs in 10 plant species. PlanTE-MIR DB was designed to assemble this data and deliver it to the scientific community interested in miRNA origin, evolution, and regulation pathways. Users can browse the database through a web interface and search for entries using various parameters. This resource is cross-referenced with repetitive element (Repbase Update) and miRNA (miRBase) repositories, where sequences can be checked for further analysis. All data in PlanTE-MIR DB are publicly available for download in several file formats to facilitate their understanding and use. The database is hosted at http://bioinfo-tool.cp.utfpr.edu.br/plantemirdb/ .
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Registered trials
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.