ArticleFunctional & integrative genomics2008
EST-derived single nucleotide polymorphism markers for assembling genetic and physical maps of the barley genome.
Article in Functional & integrative genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed.
- Professor Andreas Graner: driven by the quest to unlock crop plant genomes for conservation and utilization of germplasm for breeding.Plant biotechnology journal · 2023Review
- The barley immune receptor Mla recognizes multiple pathogens and contributes to host range dynamics.Nature communications · 2021Article
- Genetic variation of HvXYN1 associated with endoxylanase activity and TAX content in barley (Hordeum vulgare L.).BMC plant biology · 2019Article
- High Resolution Mapping ofFrontiers in plant science · 2019Article
- Development and application of genomic resources for comparative and translational genomics in legumes through leveraging genomic sequence ofJournal of genetics · 2018Article
- Genetic variations of HvP5CS1 and their association with drought tolerance related traits in barley (Hordeum vulgare L.).Scientific reports · 2017Article
- SNP-based association analysis for seedling traits in durum wheat (Breeding science · 2017Article
- Single nucleotide polymorphism in sugar pathway and disease resistance genes in sugarcane.Plant cell reports · 2016Article
- Isolation and fine mapping of Rps6: an intermediate host resistance gene in barley to wheat stripe rust.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2016Article
- Article
- Association of Agronomic Traits with SNP Markers in Durum Wheat (Triticum turgidum L. durum (Desf.)).PloS one · 2015Article
- Integrated genomics and molecular breeding approaches for dissecting the complex quantitative traits in crop plants.Journal of biosciences · 2013Review
- Genomics-based high-resolution mapping of the BaMMV/BaYMV resistance gene rym11 in barley (Hordeum vulgare L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Article
- Genetic diversity revealed by single nucleotide polymorphism markers in a worldwide germplasm collection of durum wheat.International journal of molecular sciences · 2013Article
- Developing tools for investigating the multiple roles of ethylene: identification and mapping genes for ethylene biosynthesis and reception in barley.Molecular genetics and genomics : MGG · 2012Article
- Integration of gene-based markers in a pearl millet genetic map for identification of candidate genes underlying drought tolerance quantitative trait loci.BMC plant biology · 2012Article
- Phenotyping for drought tolerance of crops in the genomics era.Frontiers in physiology · 2012Article
- Discovery and mapping of a new expressed sequence tag-single nucleotide polymorphism and simple sequence repeat panel for large-scale genetic studies and breeding of Theobroma cacao L.DNA research : an international journal for rapid publication of reports on genes and genomes · 2012Article
- High-Resolution Genotyping of Wild Barley Introgression Lines and Fine-Mapping of the Threshability Locus thresh-1 Using the Illumina GoldenGate Assay.G3 (Bethesda, Md.) · 2011Article
- Defining the transcriptome assembly and its use for genome dynamics and transcriptome profiling studies in pigeonpea (Cajanus cajan L.).DNA research : an international journal for rapid publication of reports on genes and genomes · 2011Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In a panel of seven genotypes, 437 expressed sequence tag (EST)-derived DNA fragments were sequenced. Single nucleotide polymorphisms (SNPs) that were polymorphic between the parents of three mapping populations were mapped by heteroduplex analysis and a genome-wide consensus map comprising 216 EST-derived SNPs and 4 InDel (insertion/deletion) markers was constructed. The average frequency of SNPs amounted to 1/130 bp and 1/107.8 bp for a set of randomly selected and a set of mapped ESTs, respectively. The calculated nucleotide diversities (pi) ranged from 0 to 40.0 x 10(-3) (average 3.1 x 10(-3)) and 0.52 x 10(-3) to 39.51 x 10(-3) (average 4.37 x 10(-3)) for random and mapped ESTs, respectively. The polymorphism information content value for mapped SNPs ranged from 0.24 to 0.50 with an average of 0.34. As expected, combination of SNPs present in an amplicon (haplotype) exhibited a higher information content ranging from 0.24 to 0.85 with an average of 0.50. Cleaved amplified polymorphic sequence assays (including InDels) were designed for a total of 87 (39.5%) SNP markers. The high abundance of SNPs in the barley genome provides avenues for the systematic development of saturated genetic maps and their integration with physical maps.
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