ArticlePloS one2015
Genome-Wide Survey and Analysis of Microsatellite Sequences in Bovid Species.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed, 55 citations in OpenAlex.
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- Genomic distribution characteristics and interspecific differences of microsatellite landscapes in Felidae.BMC genomics · 2026Article
- Conservation Status, Plastome Diversity, and Evolutionary Diversification of Three ArabianBiology · 2026Article
- Characterization and evolutionary insights into complete mitochondrial genome ofFrontiers in plant science · 2026Article
- Simple Sequence Repeats (SSRs) and Telomeric Analysis in Somatic Organs of Reproductive and Non-Reproductive Castes of TermiteBiology · 2025Article
- Genome-Wide Microsatellites inAnimals : an open access journal from MDPI · 2024Article
- Genome-Wide In Silico Analysis of Microsatellite Loci in Rabbits.Animals : an open access journal from MDPI · 2024Article
- Comparison of the Distribution Patterns of Microsatellites Across the Genomes of Reptiles.Ecology and evolution · 2024Article
- Development and Application of Potentially Universal Microsatellite Markers for Pheasant Species.Animals : an open access journal from MDPI · 2023Article
- Germplasm resources and genetic improvement ofPlant diversity · 2023Review
- Comprehensive Comparative Analysis Sheds Light on the Patterns of Microsatellite Distribution across Birds Based on the Chromosome-Level Genomes.Animals : an open access journal from MDPI · 2023Article
- Characterization of Microsatellites in theFrontiers in plant science · 2022Article
- Phylogenetic significance of the characteristics of simple sequence repeats at the genus level based on the complete chloroplast genome sequences of Cyatheaceae.Ecology and evolution · 2021Article
- Genome-wide characterization of microsatellite DNA in fishes: survey and analysis of their abundance and frequency in genome-specific regions.BMC genomics · 2021Article
- Convergent Evolution of Himalayan Marmot with Some High-Altitude Animals through ND3 Protein.Animals : an open access journal from MDPI · 2021Article
- Genome-wide characterization of simple sequence repeats in Palmae genomes.Genes & genomics · 2020Article
- Article
- Development of genome-wide polymorphic microsatellite markers for Trichinella spiralis.Parasites & vectors · 2020Article
- Mining the red deer genome (CerEla1.0) to develop X-and Y-chromosome-linked STR markers.PloS one · 2020Article
- Genome-wide mining of microsatellites in king cobra (Ophiophagus hannah) and cross-species development of tetranucleotide SSR markers in Chinese cobra (Naja atra).Molecular biology reports · 2019Article
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Microsatellites or simple sequence repeats (SSRs) have become the most popular source of genetic markers, which are ubiquitously distributed in many eukaryotic and prokaryotic genomes. This is the first study examining and comparing SSRs in completely sequenced genomes of the Bovidae. We analyzed and compared the number of SSRs, relative abundance, relative density, guanine-cytosine (GC) content and proportion of SSRs in six taxonomically different bovid species: Bos taurus, Bubalus bubalis, Bos mutus, Ovis aries, Capra hircus, and Pantholops hodgsonii. Our analysis revealed that, based on our search criteria, the total number of perfect SSRs found ranged from 663,079 to 806,907 and covered from 0.44% to 0.48% of the bovid genomes. Relative abundance and density of SSRs in these Bovinae genomes were non-significantly correlated with genome size (Pearson, r < 0.420, p > 0.05). Perfect mononucleotide SSRs were the most abundant, followed by the pattern: perfect di- > tri- > penta- > tetra- > hexanucleotide SSRs. Generally, the number of SSRs, relative abundance, and relative density of SSRs decreased as the motif repeat length increased in each species of Bovidae. The most GC-content was in trinucleotide SSRs and the least was in the mononucleotide SSRs in the six bovid genomes. The GC-contents of tri- and pentanucleotide SSRs showed a great deal of similarity among different chromosomes of B. taurus, O. aries, and C. hircus. SSR number of all chromosomes in the B. taurus, O.aries, and C. hircus is closely positively correlated with chromosome sequence size (Pearson, r > 0.980, p < 0.01) and significantly negatively correlated with GC-content (Pearson, r < -0.638, p < 0.01). Relative abundance and density of SSRs in all chromosomes of the three species were significantly negatively correlated with GC-content (Pearson, r < -0.333, P < 0.05) but not significantly correlated with chromosome sequence size (Pearson, r < -0.185, P > 0.05). Relative abundances of the same nucleotide SSR type showed great similarity among different chromosomes of B. taurus, O. aries, and C. hircus.
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