ArticleFrontiers in plant science2023
MegaSSR: a web server for large scale microsatellite identification, classification, and marker development.
Article in Frontiers in plant science, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Complete chloroplast genome of Crotalaria juncea, a bast fibre crop with late-acting self-incompatibility, reveals evolutionary insights and phylogenetic relationships within Fabaceae.BMC plant biology · 2026Article
- Structural analysis of clingstone and freestone peach (Prunus persica L.) plastome genome: provides insight into phylogeny and time diversification.Journal, genetic engineering & biotechnology · 2026Article
- Comprehensive analysis of chloroplast genome evolution in Poaceae: codon usage patterns, selection pressures, and phylogenomic relationships.BMC genomics · 2026Article
- Plastome diversity and phylogenetic insights among modern Egyptian wheat cultivars: Genome-Wide and Gene-Level perspectives.BMC plant biology · 2025Article
- Comparative chloroplast genomics of wild-type Panicum miliaceum cv. ATL1 and its MBMC plant biology · 2025Article
- Unlocking the African bioeconomy and strengthening biodiversity conservation through genomics and bioinformatics.npj biodiversity · 2025Review
- SSR_VibraProfiler: a Python package for accurate classification of varieties using SSRs with intra-variety specificity and inter-variety polymorphism.Plant methods · 2025Article
- Genetic Diversity and Conservation ofPlants (Basel, Switzerland) · 2025Article
- Assessment of genetic diversity in Korean field mouse (Apodemus peninsulae): A study based on microsatellite molecular markers.Molecular biology reports · 2025Article
- Krait2: a versatile software for microsatellite investigation, visualization and marker development.BMC genomics · 2025Article
- Genomic microsatellite characterization and development of polymorphic microsatellites in Eospalax baileyi.Scientific reports · 2025Article
- Unraveling the pathogenomics ofFrontiers in microbiology · 2025Article
- Streamlining of Simple Sequence Repeat Data Mining Methodologies and Pipelines for Crop Scanning.Plants (Basel, Switzerland) · 2024Review
- RiceMetaSys: Drought-miR, a one-stop solution for drought responsive miRNAs-mRNA module in rice.Database : the journal of biological databases and curation · 2024Article
- Virulence perspective genomic research unlocks the secrets ofFrontiers in plant science · 2024Article
- What are microsatellites and how to choose the best tool: a user-friendly review of SSR and 74 SSR mining tools.Frontiers in genetics · 2024Review
- The High-Quality Genome Sequencing and Analysis of Red Raspberry (International journal of genomics · 2024Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Next-generation sequencing technologies have opened new avenues for using genomic data to study and develop molecular markers and improve genetic resources. Simple Sequence Repeats (SSRs) as genetic markers are increasingly used in molecular diversity and molecular breeding programs that require bioinformatics pipelines to analyze the large amounts of data. Therefore, there is an ongoing need for online tools that provide computational resources with minimal effort and maximum efficiency, including automated development of SSR markers. These tools should be flexible, customizable, and able to handle the ever-increasing amount of genomic data. Here we introduce MegaSSR (https://bioinformatics.um6p.ma/MegaSSR), a web server and a standalone pipeline that enables the design of SSR markers in any target genome. MegaSSR allows users to design targeted PCR-based primers for their selected SSR repeats and includes multiple tools that initiate computational pipelines for SSR mining, classification, comparisons, PCR primer design,
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