ArticleGenetics2000
Computational and experimental characterization of physically clustered simple sequence repeats in plants.
Article in Genetics, 2000. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 153 papers.
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Who cites it
153 citing papers in PubMed, 424 citations in OpenAlex.
- Article
- Development of Roselle (Plants (Basel, Switzerland) · 2024Article
- Article
- Validation of candidate gene-based EST-SSR markers for sugar yield in sugarcane.Frontiers in plant science · 2023Article
- Development of simple sequence repeat markers for sugarcane from data mining of expressed sequence tags.Frontiers in plant science · 2023Article
- Development and utility of SSR markers based onFrontiers in plant science · 2023Article
- Development of Genomic Resources in MexicanGenes · 2022Article
- Development of a new set of genic SSR markers in the genus3 Biotech · 2021Article
- Transcriptome wide SSR discovery cross-taxa transferability and development of marker database for studying genetic diversity population structure of Lilium species.Scientific reports · 2020Article
- Development of nuclear SSR and chloroplast genome markers in diverse Liriodendron chinense germplasm based on low-coverage whole genome sequencing.Biological research · 2020Article
- Article
- Development of a Large Gene-Associated SSR Marker Set and in-Depth Genetic Characterization in Scarlet Sage.Frontiers in genetics · 2020Article
- Draft genome of multiple resistance donor plant Sinapis alba: An insight into SSRs, annotations and phylogenetics.PloS one · 2020Article
- Article
- Development and Characterization of EST-SSR Markers From RNA-Seq Data inFrontiers in plant science · 2019Article
- Comparative analysis of microsatellite, SNP, and InDel markers in fourBreeding science · 2018Article
- Mining and comparative survey of EST-SSR markers among members of Euphorbiaceae family.Molecular biology reports · 2018Article
- Characterization of leaf transcriptome, development and utilization of unigenes-derived microsatellite markers in sugarcane (Physiology and molecular biology of plants : an international journal of functional plant biology · 2018Article
- Genomic and transcriptomic sequencing of Rosa hybrida provides microsatellite markers for breeding, flower trait improvement and taxonomy studies.BMC plant biology · 2018Article
- Plastome characteristics of Cannabaceae.Plant diversity · 2018Article
93 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The type and frequency of simple sequence repeats (SSRs) in plant genomes was investigated using the expanding quantity of DNA sequence data deposited in public databases. In Arabidopsis, 306 genomic DNA sequences longer than 10 kb and 36,199 EST sequences were searched for all possible mono- to pentanucleotide repeats. The average frequency of SSRs was one every 6.04 kb in genomic DNA, decreasing to one every 14 kb in ESTs. SSR frequency and type differed between coding, intronic, and intergenic DNA. Similar frequencies were found in other plant species. On the basis of these findings, an approach is proposed and demonstrated for the targeted isolation of single or multiple, physically clustered SSRs linked to any gene that has been mapped using low-copy DNA-based markers. The approach involves sample sequencing a small number of subclones of selected randomly sheared large insert DNA clones (e.g., BACs). It is shown to be both feasible and practicable, given the probability of fortuitously sequencing through an SSR. The approach is demonstrated in barley where sample sequencing 34 subclones of a single BAC selected by hybridization to the Big1 gene revealed three SSRs. These allowed Big1 to be located at the top of barley linkage group 6HS.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.