ArticleInternational journal of genomics2014
Identification and characterization of microsatellites in expressed sequence tags and their cross transferability in different plants.
Article in International journal of genomics, 2014. 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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Who cites it
16 citing papers in PubMed, 35 citations in OpenAlex.
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- Transcriptome analysis and development of EST-SSR markers in the mushroom Auricularia heimuer.Scientific reports · 2024Article
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- First de novo genome specific development, characterization and validation of simple sequence repeat (SSR) markers in Genus Salvadora.Molecular biology reports · 2020Article
- Genome-wide identification of microsatellite markers from cultivated peanut (Arachis hypogaea L.).BMC genomics · 2019Article
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- Translation initiation codon (ATG) or SCoT markers-based polymorphism study within and across variousJournal of genetics · 2019Article
- Exploring the heat-responsive chaperones and microsatellite markers associated with terminal heat stress tolerance in developing wheat.Functional & integrative genomics · 2017Article
- Genome-Wide Discovery of Microsatellite Markers from Diploid Progenitor Species,Frontiers in plant science · 2017Article
- Microsatellite loci for Urochloa decumbens (Stapf) R.D. Webster and cross-amplification in other Urochloa species.BMC research notes · 2016Article
- Assessment of Functional EST-SSR Markers (Sugarcane) in Cross-Species Transferability, Genetic Diversity among Poaceae Plants, and Bulk Segregation Analysis.Genetics research international · 2016Article
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Expressed sequence tags (EST) are potential source for the development of genic microsatellite markers, gene discovery, comparative genomics, and other genomic studies. In the present study, 7630 ESTs were examined from NCBI for SSR identification and characterization. A total of 263 SSRs were identified with an average density of one SSR/4.2 kb (3.4% frequency). Analysis revealed that trinucleotide repeats (47.52%) were most abundant followed by tetranucleotide (19.77%), dinucleotide (19.01%), pentanucleotide (9.12%), and hexanucleotide repeats (4.56%). Functional annotation was done through homology search and gene ontology, and 35 EST-SSRs were selected. Primer pairs were designed for evaluation of cross transferability and polymorphism among 11 plants belonging to five different families. Total 402 alleles were generated at 155 loci with an average of 2.6 alleles/locus and the polymorphic information content (PIC) ranged from 0.15 to 0.92 with an average of 0.75. The cross transferability ranged from 34.84% to 98.06% in different plants, with an average of 67.86%. Thus, the validation study of annotated 35 EST-SSR markers which correspond to particular metabolic activity revealed polymorphism and evolutionary nature in different families of Angiospermic plants.
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