ArticleScientific reports2018
Distribution patterns and variation analysis of simple sequence repeats in different genomic regions of bovid genomes.
Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed, 48 citations in OpenAlex.
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- 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
- The Complete Chloroplast Genome Sequence ofGenes · 2022Article
- De novo transcriptome assembly, gene annotation, and EST-SSR marker development of an important medicinal and edible crop, Amomum tsaoko (Zingiberaceae).BMC plant biology · 2022Article
- Microsatellite Variation in the Most Devastating Beetle Pests (Coleoptera: Curculionidae) of Agricultural and Forest Crops.International journal of molecular sciences · 2022Article
- Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species.BMC plant biology · 2022Article
- Genome skimming-based simple sequence repeat (SSR) marker discovery and characterization inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- De novo whole-genome assembly and resequencing resources for the roan (Hippotragus equinus), an iconic African antelope.G3 (Bethesda, Md.) · 2021Article
- Comparison of the Microsatellite Distribution Patterns in the Genomes of Euarchontoglires at the Taxonomic Level.Frontiers in genetics · 2021Article
- Genome-wide characterization of simple sequence repeats in Palmae genomes.Genes & genomics · 2020Article
- Complete Chloroplast Genomes ofPlants (Basel, Switzerland) · 2020Article
- Full-length transcriptome sequencing provides insights into the evolution of apocarotenoid biosynthesis inComputational and structural biotechnology journal · 2020Article
- IDSSR: An Efficient Pipeline for Identifying Polymorphic Microsatellites from a Single Genome Sequence.International journal of molecular sciences · 2019Article
- Comprehensive Analysis ofPlants (Basel, Switzerland) · 2019Article
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7 authors at 4 institutions in 1 country.
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Abstract
As the first examination of distribution, guanine-cytosine (GC) pattern, and variation analysis of microsatellites (SSRs) in different genomic regions of six bovid species, SSRs displayed nonrandomly distribution in different regions. SSR abundances are much higher in the introns, transposable elements (TEs), and intergenic regions compared to the 3'-untranslated regions (3'UTRs), 5'UTRs and coding regions. Trinucleotide perfect SSRs (P-SSRs) were the most frequent in the coding regions, whereas, mononucleotide P-SSRs were the most in the introns, 3'UTRs, TEs, and intergenic regions. Trifold P-SSRs had more GC-contents in the 5'UTRs and coding regions than that in the introns, 3'UTRs, TEs, and intergenic regions, whereas mononucleotide P-SSRs had the least GC-contents in all genomic regions. The repeat copy numbers (RCN) of the same mono- to hexanucleotide P-SSRs showed significantly different distributions in different regions (P < 0.01). Except for the coding regions, mononucleotide P-SSRs had the most RCNs, followed by the pattern: di- > tri- > tetra- > penta- > hexanucleotide P-SSRs in the same regions. The analysis of coefficient of variability (CV) of SSRs showed that the CV variations of RCN of the same mono- to hexanucleotide SSRs were relative higher in the intronic and intergenic regions, followed by the CV variation of RCN in the TEs, and the relative lower was in the 5'UTRs, 3'UTRs, and coding regions. Wide SSR analysis of different genomic regions has helped to reveal biological significances of their distributions.
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