ArticleBMC genomics2006
Analyses of carnivore microsatellites and their intimate association with tRNA-derived SINEs.
Article in BMC genomics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed, 20 citations in OpenAlex.
- Birth-Death Dynamics of Microsatellites: Mechanistic Insights from Orthologous Loci in Felidae.Genes · 2025Article
- The dynamic proliferation of CanSINEs mirrors the complex evolution of Feliforms.BMC evolutionary biology · 2014Article
- A helitron-like transposon superfamily from lepidoptera disrupts (GAAA)(n) microsatellites and is responsible for flanking sequence similarity within a microsatellite family.Journal of molecular evolution · 2010Article
- Talua SINE biology in the genome of the Reticulitermes subterranean termites (Isoptera, Rhinotermitidae).Journal of molecular evolution · 2009Article
- Contrast features of CpG islands in the promoter and other regions in the dog genome.Genomics · 2009Article
- Analysis of the complement and molecular evolution of tRNA genes in cow.BMC genomics · 2009Article
- Carnivore-specific SINEs (Can-SINEs): distribution, evolution, and genomic impact.The Journal of heredityReview
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe popularity of microsatellites has greatly increased in the last decade on account of their many applications. However, little is currently understood about the factors that influence their genesis and distribution among and within species genomes. In this work, we analyzed carnivore microsatellite clones from GenBank to study their association with interspersed repeats and elucidate the role of the latter in microsatellite genesis and distribution.
resultsWe constructed a comprehensive carnivore microsatellite database comprising 1236 clones from GenBank. Thirty-three species of 11 out of 12 carnivore families were represented, although two distantly related species, the domestic dog and cat, were clearly overrepresented. Of these clones, 330 contained tRNALys-derived SINEs and 357 contained other interspersed repeats. Our rough estimates of tRNA SINE copies per haploid genome were much higher than published ones. Our results also revealed a distinct juxtaposition of AG and A-rich repeats and tRNALys-derived SINEs suggesting their coevolution. Both microsatellites arose repeatedly in two regions of the interspersed repeat. Moreover, microsatellites associated with tRNALys-derived SINEs showed the highest complexity and less potential instability.
conclusionOur results suggest that tRNALys-derived SINEs are a significant source for microsatellite generation in carnivores, especially for AG and A-rich repeat motifs. These observations indicate two modes of microsatellite generation: the expansion and variation of pre-existing tandem repeats and the conversion of sequences with high cryptic simplicity into a repeat array; mechanisms which are not specific to tRNALys-derived SINEs. Microsatellite and interspersed repeat coevolution could also explain different distribution of repeat types among and within species genomes.Finally, due to their higher complexity and lower potential informative content of microsatellites associated with tRNALys-derived SINEs, we recommend avoiding their use as genetic markers.
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