ArticleProceedings of the National Academy of Sciences of the United States of America2007
Simple sequence repeats in prokaryotic genomes.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 75 papers.
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75 citing papers in PubMed, 163 citations in OpenAlex.
- Standardized microhaplotype databases and frameworks for assessing and mining crop genetic diversity.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- The whole genome analysis of four Orf virus strains from Europe and South America.Virus evolution · 2026Article
- The repertoire of short tandem repeats across the tree of life.Genome biology · 2025Article
- A narrative overview of Staphylococcus haemolyticus: resistance traits, virulence factors, and health impact.Molecular biology reports · 2025Review
- De novo mutations mediate phenotypic switching in an opportunistic human lung pathogen.Nature communications · 2025Article
- Mitochondrial genome analysis of the endangered Oreocharis esquirolii: insights into evolutionary adaptation and conservation.BMC plant biology · 2025Article
- Studying Human Pathogenic Cryptococcus Gattii Lineages by Utilizing Simple Sequence Repeats to Create Diagnostic Markers and Analyzing Diversity.Biochemical genetics · 2025Article
- SSR_VibraProfiler: a Python package for accurate classification of varieties using SSRs with intra-variety specificity and inter-variety polymorphism.Plant methods · 2025Article
- RAmbler resolves complex repeats in human Chromosomes 8, 19, and X.Genome research · 2025Article
- 100+ years of phase variation: the premier bacterial bet-hedging phenomenon.Microbiology (Reading, England) · 2025Review
- Pathogen contingency loci and the evolution of host specificity: Simple sequence repeats mediate Bartonella adaptation to a wild rodent host.PLoS pathogens · 2024Article
- Insights into genome plasticity and gene regulation in3 Biotech · 2023Article
- Repetitive DNA sequence detection and its role in the human genome.Communications biology · 2023Review
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- Mutation and selection processes regulating short tandem repeats give rise to genetic and phenotypic diversity across species.Journal of evolutionary biology · 2023Review
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- Simple sequence repeat insertion induced stability and potential 'gain of function' in the proteins of extremophilic bacteria.Extremophiles : life under extreme conditions · 2022Article
- Reevaluation ofPlants (Basel, Switzerland) · 2022Article
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- Low base-substitution mutation rate and predominance of insertion-deletion events in the acidophilic bacteriumEcology and evolution · 2021Article
15 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Simple sequence repeats (SSRs) in DNA sequences are composed of tandem iterations of short oligonucleotides and may have functional and/or structural properties that distinguish them from general DNA sequences. They are variable in length because of slip-strand mutations and may also affect local structure of the DNA molecule or the encoded proteins. Long SSRs (LSSRs) are common in eukaryotes but rare in most prokaryotes. In pathogens, SSRs can enhance antigenic variance of the pathogen population in a strategy that counteracts the host immune response. We analyze representations of SSRs in >300 prokaryotic genomes and report significant differences among different prokaryotes as well as among different types of SSRs. LSSRs composed of short oligonucleotides (1-4 bp length, designated LSSR(1-4)) are often found in host-adapted pathogens with reduced genomes that are not known to readily survive in a natural environment outside the host. In contrast, LSSRs composed of longer oligonucleotides (5-11 bp length, designated LSSR(5-11)) are found mostly in nonpathogens and opportunistic pathogens with large genomes. Comparisons among SSRs of different lengths suggest that LSSR(1-4) are likely maintained by selection. This is consistent with the established role of some LSSR(1-4) in enhancing antigenic variance. By contrast, abundance of LSSR(5-11) in some genomes may reflect the SSRs' general tendency to expand rather than their specific role in the organisms' physiology. Differences among genomes in terms of SSR representations and their possible interpretations are discussed.
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