ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2006
Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
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48 citing papers in PubMed, 128 citations in OpenAlex.
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- Celebrating Professor Rajeev K. Varshney's transformative research odyssey from genomics to the field on his induction as Fellow of the Royal Society.Plant biotechnology journal · 2024Article
- SSR markers development and their application in genetic diversity evaluation of garlic (Plant diversity · 2022Article
- Occurrence of simple sequence repeats in cDNA sequences of safflower (Frontiers in plant science · 2022Article
- Genic microsatellite marker characterization and development in little millet (Panicum sumatrense) using transcriptome sequencing.Scientific reports · 2021Article
- Draft genome of multiple resistance donor plant Sinapis alba: An insight into SSRs, annotations and phylogenetics.PloS one · 2020Article
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- Mining and Development of Novel SSR Markers Using Next Generation Sequencing (NGS) Data in Plants.Molecules (Basel, Switzerland) · 2018Review
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- RNA-Seq of Guar (Frontiers in plant science · 2017Article
- Development of Novel SSR Markers for Flax (Frontiers in plant science · 2016Article
- Sequencing of 15 622 gene-bearing BACs clarifies the gene-dense regions of the barley genome.The Plant journal : for cell and molecular biology · 2015Article
- Identification, validation and cross-species transferability of novel Lavandula EST-SSRs.Planta · 2015Article
- Coding sequence density estimation via topological pressure.Journal of mathematical biology · 2015Article
- Development and Characterization of 1,906 EST-SSR Markers from Unigenes in Jute (Corchorus spp.).PloS one · 2015Article
- Development of genic SSR markers from transcriptome sequencing of pear buds.Journal of Zhejiang University. Science. B · 2014Article
- The barley Frost resistance-H2 locus.Functional & integrative genomics · 2014Article
- Characterization of flower-bud transcriptome and development of genic SSR markers in Asian lotus (Nelumbo nucifera Gaertn.).PloS one · 2014Article
- Fine mapping of the Rrs1 resistance locus against scald in two large populations derived from Spanish barley landraces.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Article
- Assessment of genetic diversity in the sorghum reference set using EST-SSR markers.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Article
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Authors and funding
9 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A set of 111,090 barley expressed sequence tags (ESTs) was searched for the presence of microsatellite motifs [simple sequence repeat (SSRs)] and yielded 2,823 non-redundant SSR-containing ESTs (SSR-ESTs). From this, a set of 754 primer pairs was designed of which 525 primer pairs yielded an amplicon and as a result, 185 EST-derived microsatellite loci (EST-SSRs) were placed onto a genetic map of barley. The markers show a uniform distribution along all seven linkage groups ranging from 21 (7H) to 35 (3H) markers. Polymorphism information content values ranged from of 0.24 to 0.78 (average 0.48). To further investigate the physical distribution of the EST-SSRs in the barley genome, a bacterial artificial chromosomes (BAC) library was screened. Out of 129 markers tested, BAC addresses were obtained for 127 EST-SSR markers. Twenty-seven BACs, forming eight contigs, were hit by two or three EST-SSRs each. This unexpectedly high incidence of EST-SSRs physically linked at the sub-megabase level provides additional evidence of an uneven distribution of genes and the segmentation of the barley genome in gene-rich and gene-poor regions.
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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.