ArticleNucleic acids research2017
PMDBase: a database for studying microsatellite DNA and marker development in plants.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- Article
- Unveiling a Meaningful Form ofPlants (Basel, Switzerland) · 2025Article
- Complete chloroplast genome of eight Phaius (Orchidaceae) species from China: comparative analysis and phylogenetic relationship.BMC plant biology · 2025Article
- Microsatellites explorer: A database of short tandem repeats across genomes.Computational and structural biotechnology journal · 2024Article
- Streamlining of Simple Sequence Repeat Data Mining Methodologies and Pipelines for Crop Scanning.Plants (Basel, Switzerland) · 2024Review
- Complete chloroplast genome structural characterization of two Aerides (Orchidaceae) species with a focus on phylogenetic position of Aerides flabellata.BMC genomics · 2024Article
- Comparative and phylogenetic analysis of Chiloschista (Orchidaceae) species and DNA barcoding investigation based on plastid genomes.BMC genomics · 2023Article
- New Insights into Phylogenetic Relationship ofInternational journal of molecular sciences · 2023Article
- Comparative Phylogenetic Analysis forInternational journal of molecular sciences · 2023Article
- Omics technologies towards sesame improvement: a review.Molecular biology reports · 2023Review
- Comprehensive genome-wide identification and transferability of chromosome-specific highly variable microsatellite markers from citrus species.Scientific reports · 2023Article
- Comparative analyses of Linderniaceae plastomes, with implications for its phylogeny and evolution.Frontiers in plant science · 2023Article
- Comparative and phylogenetic analyses of six Kenya Polystachya (Orchidaceae) species based on the complete chloroplast genome sequences.BMC plant biology · 2022Article
- PlantGF: an analysis and annotation platform for plant gene families.Database : the journal of biological databases and curation · 2022Article
- Discovering favorable genes, QTLs, and genotypes as a genetic resource for sesame (Frontiers in genetics · 2022Review
- Rapid Genome-Wide Location-Specific Polymorphic SSR Marker Discovery in Black Pepper by GBS Approach.Frontiers in plant science · 2022Article
- LegumeSSRdb: A Comprehensive Microsatellite Marker Database of Legumes for Germplasm Characterization and Crop Improvement.International journal of molecular sciences · 2021Article
- Comprehensive analysis of SSRs and database construction using all complete gene-coding sequences in major horticultural and representative plants.Horticulture research · 2021Article
- Sinbase 2.0: An Updated Database to Study Multi-Omics inPlants (Basel, Switzerland) · 2021Article
- Plant-ImputeDB: an integrated multiple plant reference panel database for genotype imputation.Nucleic acids research · 2021Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Microsatellite DNAs (or SSRs) are important genomic components involved in many important biological functions. SSRs have been extensively exploited as molecular markers for diverse applications including genetic diversity, linkage/association mapping of gene/QTL, marker-assisted selection, variety identification and evolution analysis. However, a comprehensive database or web service for studying microsatellite DNAs and marker development in plants is lacking. Here, we developed a database, PMDBase, which integrates large amounts of microsatellite DNAs from genome sequenced plant species and includes a web service for microsatellite DNAs identification. In PMDBase, 26 230 099 microsatellite DNAs were identified spanning 110 plant species. Up to three pairs of primers were supplied for every microsatellite DNA. For 81 species, genomic features of the microsatellite DNAs (genic or non-genic) were supplied with the corresponding genes or transcripts from public databases. Microsatellite DNAs can be explored through browsing and searching modules with a user-friendly web interface and customized software. Furthermore, we developed MISAweb and embedded Primer3web to help users to identify microsatellite DNAs and design corresponding primers in their own genomic sequences online. All datasets of microsatellite DNAs can be downloaded conveniently. PMDBase will be updated regularly with new available genome data and can be accessed freely via the address http://www.sesame-bioinfo.org/PMDBase.
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