ArticleHorticulture research2022
TVIR: a comprehensive vegetable information resource database for comparative and functional genomic studies.
Article in Horticulture research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Genome-Wide Characterization of theLife (Basel, Switzerland) · 2026Article
- Comprehensive genomic analysis and database construction for Apiales.Journal of advanced research · 2026Article
- Origin and evolution ofHorticulture research · 2026Article
- TVIR 2.0: an enhanced database of the vegetables information resources.Horticulture research · 2025Article
- plantGIR: a genomic database of plants.Horticulture research · 2024Article
- Genome-wide identification and expression analysis of the MORF gene family in celery reveals their potential role in chloroplast development.Journal, genetic engineering & biotechnology · 2024Article
- PPGV: a comprehensive database of peach population genome variation.BMC plant biology · 2024Article
- Large-scale analysis of the ARF and Aux/IAA gene families in 406 horticultural and other plants.Molecular horticulture · 2024Article
- Flowering genes identification, network analysis, and database construction for 837 plants.Horticulture research · 2024Article
- AlliumDB: a central portal for comparative and functional genomics inHorticulture research · 2024Article
- Article
- MODMS: a multi-omics database for facilitating biological studies on alfalfa (Horticulture research · 2024Article
- The high-quality sequencing of theHorticulture research · 2023Article
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Authors and funding
10 authors.
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Abstract
Vegetables are an indispensable part of the daily diet of humans. Therefore, it is vital to systematically study the genomic data of vegetables and build a platform for data sharing and analysis. In this study, a comprehensive platform for vegetables with a user-friendly Web interface-The Vegetable Information Resource (TVIR, http://tvir.bio2db.com)-was built based on the genomes of 59 vegetables. TVIR database contains numerous important functional genes, including 5215 auxin genes, 2437 anthocyanin genes, 15 002 flowering genes, 79 830 resistance genes, and 2639 glucosinolate genes of 59 vegetables. In addition, 2597 N6-methyladenosine (m6A) genes were identified, including 513 writers, 1058 erasers, and 1026 readers. A total of 2 101 501 specific clustered regularly interspaced short palindromic repeat (CRISPR) guide sequences and 17 377 miRNAs were detected and deposited in TVIR database. Information on gene synteny, duplication, and orthologs is also provided for 59 vegetable species. TVIR database contains 2 346 850 gene annotations by the Swiss-Prot, TrEMBL, Gene Ontology (GO), Pfam, and Non-redundant (Nr) databases. Synteny, Primer Design, Blast, and JBrowse tools are provided to facilitate users in conducting comparative genomic analyses. This is the first large-scale collection of vegetable genomic data and bioinformatic analysis. All genome and gene sequences, annotations, and bioinformatic results can be easily downloaded from TVIR. Furthermore, transcriptome data of 98 vegetables have been collected and collated, and can be searched by species, tissues, or different growth stages. TVIR is expected to become a key hub for vegetable research globally. The database will be updated with newly assembled vegetable genomes and comparative genomic studies in the future.
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Registered trials
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