ArticleBMC genomics2012
Coevolution between simple sequence repeats (SSRs) and virus genome size.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 47 citations in OpenAlex.
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- MIG-seq is an effective method for high-throughput genotyping in wheat (Triticum spp.).DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
- LegumeSSRdb: A Comprehensive Microsatellite Marker Database of Legumes for Germplasm Characterization and Crop Improvement.International journal of molecular sciences · 2021Article
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- Comparison of the Microsatellite Distribution Patterns in the Genomes of Euarchontoglires at the Taxonomic Level.Frontiers in genetics · 2021Article
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- Deciphering the SSR incidences across viral members of Coronaviridae family.Chemico-biological interactions · 2020Article
- Evolutionary dynamics of the SARS-CoV-2 ORF8 accessory gene.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2020Article
- Comparative analysis, distribution, and characterization of microsatellites in Orf virus genome.Scientific reports · 2020Article
- Relatively semi-conservative replication and a folded slippage model for short tandem repeats.BMC genomics · 2020Article
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Corrections and comments
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Authors and funding
12 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRelationship between the level of repetitiveness in genomic sequence and genome size has been investigated by making use of complete prokaryotic and eukaryotic genomes, but relevant studies have been rarely made in virus genomes.
resultsIn this study, a total of 257 viruses were examined, which cover 90% of genera. The results showed that simple sequence repeats (SSRs) is strongly, positively and significantly correlated with genome size. Certain repeat class is distributed in a certain range of genome sequence length. Mono-, di- and tri- repeats are widely distributed in all virus genomes, tetra- SSRs as a common component consist in genomes which more than 100 kb in size; in the range of genome < 100 kb, genomes containing penta- and hexa- SSRs are not more than 50%. Principal components analysis (PCA) indicated that dinucleotide repeat affects the differences of SSRs most strongly among virus genomes. Results showed that SSRs tend to accumulate in larger virus genomes; and the longer genome sequence, the longer repeat units.
conclusionsWe conducted this research standing on the height of the whole virus. We concluded that genome size is an important factor in affecting the occurrence of SSRs; hosts are also responsible for the variances of SSRs content to a certain degree.
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