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PVsiRNAdb: a database for plant exclusive virus-derived small interfering RNAs
Nikita Gupta1, Shafaque Zahra1, Ajeet Singh1
1Bioinformatics Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India.
Database : the Journal of Biological Databases and Curation
|October 12, 2018
Summary
A new database, PVsiRNAdb, has been created to catalog plant virus-derived small interfering RNAs (vsiRNAs). This resource aids research into plant antiviral defense mechanisms and the development of virus-resistant crops.
Area of Science:
- Plant molecular biology
- Virology
- Bioinformatics
Background:
- Ribonucleic acid (RNA) interference regulates gene expression in plants during stress.
- Virus-derived small interfering RNAs (vsiRNAs) are key to plant antiviral defense.
- Existing databases lack comprehensive plant-exclusive vsiRNA data.
Purpose of the Study:
- To develop PVsiRNAdb, a manually curated, plant-exclusive database for vsiRNAs.
- To provide a centralized repository for vsiRNA information from published literature.
- To support research in plant virology, host interactions, and crop improvement.
Main Methods:
- Exhaustive data mining of published literature on plant-virus interactions.
- Manual curation of vsiRNA data, including plant, tissue, virus, and sequence information.
- Development of search, browse, and analysis tools (BLAST, Smith-Waterman, Mapping).
Main Results:
- PVsiRNAdb contains 322,214 entries and 282,549 unique vsiRNA sequences.
- Detailed information is available for each vsiRNA, including sequence, location, and predicted structure.
- The database offers advanced search functionalities for user-friendly data exploration.
Conclusions:
- PVsiRNAdb is a unique resource for studying plant vsiRNAs and viral genetics.
- The database facilitates research on viral-host interactions and the development of antiviral strategies.
- PVsiRNAdb can aid in engineering virus-resistant transgenic crops for agriculture.
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