ArticleGene2012
Genome-wide comparative analysis of simple sequence coding repeats among 25 insect species.
Article in Gene, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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Who cites it
11 citing papers in PubMed.
- Characterization and evolutionary insights into complete mitochondrial genome ofFrontiers in plant science · 2026Article
- Transcriptome analysis of Haemaphysalis flava female using Illumina HiSeq 4000 sequencing: de novo assembly, functional annotation and discovery of SSR markers.Parasites & vectors · 2023Article
- Low Complexity Regions in Proteins and DNA are Poorly Correlated.Molecular biology and evolution · 2023Article
- Comparison of the Microsatellite Distribution Patterns in the Genomes of Euarchontoglires at the Taxonomic Level.Frontiers in genetics · 2021Article
- Comparative analyses of simple sequence repeats (SSRs) in 23 mosquito species genomes: Identification, characterization and distribution (Diptera: Culicidae).Insect science · 2019Article
- Large-scale analysis reveals that the genome features of simple sequence repeats are generally conserved at the family level in insects.BMC genomics · 2017Article
- APMicroDB: A microsatellite database ofGenomics data · 2017Article
- Profiles of low complexity regions in Apicomplexa.BMC evolutionary biology · 2016Article
- Motif mismatches in microsatellites: insights from genome-wide investigation among 20 insect species.DNA research : an international journal for rapid publication of reports on genes and genomes · 2015Article
- iMSAT: a novel approach to the development of microsatellite loci using barcoded Illumina libraries.BMC genomics · 2014Article
- Association of microsatellite pairs with segmental duplications in insect genomes.BMC genomics · 2013Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
We present a detailed genome-scale comparative analysis of simple sequence repeats within protein coding regions among 25 insect genomes. The repetitive sequences in the coding regions primarily represented single codon repeats and codon pair repeats. The CAG triplet is highly repetitive in the coding regions of insect genomes. It is frequently paired with the synonymous codon CAA to code for polyglutamine repeats. The codon pairs that are least repetitive code for polyalanine repeats. The frequency of hexanucleotide and dinucleotide motifs of codon pair repeats is significantly (p<0.001) different in the Drosophila species compared to the non-Drosophila species. However, the frequency of synonymous and non-synonymous codon pair repeats varies in a correlated manner (r(2)=0.79) among all the species. Results further show that perfect and imperfect repeats have significant association with the trinucleotide and hexanucleotide coding repeats in most of these insects. However, only select species show significant association between the numbers of perfect/imperfect hexamers and repeat coding for single amino acid/amino acid pair runs. Our data further suggests that genes containing simple sequence coding repeats may be under negative selection as they tend to be poorly conserved across species. The sequences of coding repeats of orthologous genes vary according to the known phylogeny among the species. In conclusion, the study shows that simple sequence coding repeats are important features of genome diversity among insects.
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