ArticleGenes2023
Characterization of Simple Sequence Repeat (SSR) Markers Mined in Whole Grape Genomes.
Article in Genes, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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6 citing papers in PubMed, 17 citations in OpenAlex.
- Development of CypriSSR: a genome-wide, chromosome-level microsatellite database for multiple cyprinidae species.Database : the journal of biological databases and curation · 2026Article
- Phenotypic variation and genetic diversity assessment of proso millet (Frontiers in plant science · 2026Article
- Comparative and phylogenetic analysis of Potentilla and Dasiphora (Rosaceae) based on plastid genome.BMC plant biology · 2025Article
- High-Resolution Melting Analysis for Differentiation ofMycobiology · 2025Article
- Genetic Mapping and Characterization of the Clubroot Resistance GeneInternational journal of molecular sciences · 2024Article
- Integration of machine learning models with microsatellite markers: New avenue in world grapevine germplasm characterization.Biochemistry and biophysics reports · 2024Article
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Authors and funding
10 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
SSR (simple sequence repeat) DNA markers are widely used for genotype DNA identification, QTL mapping, and analyzing genetic biodiversity. However, SSRs in grapes are still in their early stages, with a few primer pairs accessible. With the whole-genome sequencing (WGS) of several grape varieties, characterization of grape SSR changed to be necessary not only to genomics but to also help SSR development and utility. Based on this, we identified the whole-genome SSR of nine grape cultivars ('PN40024', 'Cabernet Sauvignon', 'Carménère', 'Chardonnay', 'Merlot', 'Riesling', 'Zinfandel', 'Shine Muscat', and 'Muscat Hamburg') with whole-genome sequences released publicly and found that there are great differences in the distribution of SSR loci in different varieties. According to the difference in genome size, the number of SSRs ranged from 267,385 (Cabernet Sauvignon) to 627,429 (Carménère), the density of the SSR locus in the genome of nine cultivars was generally 1 per Kb. SSR motif distribution characteristic analysis of these grape cultivars showed that the distribution patterns among grape cultivars were conservative, mainly enriched in A/T. However, there are some differences in motif types (especially tetranucleotides, pentanucleotides, and hexanucleotides), quantity, total length, and average length in different varieties, which might be related to the size of the assembled genome or the specificity of variety domestication. The distribution characteristics of SSRs were revealed by whole-genome analysis of simple repeats of grape varieties. In this study, 32 pairs of primers with lower polymorphism have been screened, which provided an important research foundation for the development of molecular markers of grape variety identification and the construction of linkage maps of important agronomic traits for crop improvement.
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