ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2004
Single nucleotide polymorphism, haplotype diversity and recombination in the Isa gene of barley.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
21 citing papers in PubMed, 53 citations in OpenAlex.
- Genetic variation of HvXYN1 associated with endoxylanase activity and TAX content in barley (Hordeum vulgare L.).BMC plant biology · 2019Article
- Comparison of SNP and CAPS markers application in genetic research in wheat and barley.BMC plant biology · 2016Review
- Development of SNP markers for genes of the phenylpropanoid pathway and their association to kernel and malting traits in barley.BMC genetics · 2013Article
- Single nucleotide polymorphisms in HSP17.8 and their association with agronomic traits in barley.PloS one · 2013Article
- 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
- SNP discovery and genetic mapping of T-DNA insertional mutants in Fragaria vesca L.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2010Article
- Cloning and genetic diversity analysis of a new P5CS gene from common bean (Phaseolus vulgaris L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2010Article
- Genetic variants of HvCbf14 are statistically associated with frost tolerance in a European germplasm collection of Hordeum vulgare.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2009Article
- EST-derived single nucleotide polymorphism markers for assembling genetic and physical maps of the barley genome.Functional & integrative genomics · 2008Article
- High level of conservation between genes coding for the GAMYB transcription factor in barley (Hordeum vulgare L.) and bread wheat (Triticum aestivum L.) collections.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- Cotton (Gossypium spp.) R2R3-MYB transcription factors SNP identification, phylogenomic characterization, chromosome localization, and linkage mapping.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- Molecular evolution of dimeric alpha-amylase inhibitor genes in wild emmer wheat and its ecological association.BMC evolutionary biology · 2008Article
- Transcriptome profiling, sequence characterization, and SNP-based chromosomal assignment of the EXPANSIN genes in cotton.Molecular genetics and genomics : MGG · 2007Article
- Adaptive climatic molecular evolution in wild barley at the Isa defense locus.Proceedings of the National Academy of Sciences of the United States of America · 2007Article
- Article
- Nucleotide diversity in starch synthase IIa and validation of single nucleotide polymorphisms in relation to starch gelatinization temperature and other physicochemical properties in rice (Oryza sativa L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2006Article
- Haplotype structure at seven barley genes: relevance to gene pool bottlenecks, phylogeny of ear type and site of barley domestication.Molecular genetics and genomics : MGG · 2006Article
- Characterisation of single nucleotide polymorphisms in sugarcane ESTs.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2006Article
- Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress.Molecular genetics and genomics : MGG · 2005Article
- Replicative homeostasis II: influence of polymerase fidelity on RNA virus quasispecies biology: implications for immune recognition, viral autoimmunity and other "virus receptor" diseases.Virology journal · 2005Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The Isa gene from barley--an intronless gene expressed in maternal tissues of the seed--has a likely role in defence against pathogens. The protein product--bi-functional alpha-amylase/subtilisin inhibitor--inhibits the seed's own amylase in addition to the bacterial protease subtilisin and fungal xylanase. Sixteen barley genotypes were targeted to amplify and sequence the Isa gene region to detect sequence polymorphisms, since little is known about genetic diversity at this locus. A total of 80 single nucleotide polymorphisms (SNPs) and 23 indels were detected in 2,164 bp of sequence containing the Isa transcript, promoter and 3' non-transcribed region (overall one SNP per 27 bp and one indel per 94 bp), with eight sequence-based haplotypes distinguishable amongst the 16 varieties. Sequencing a polymorphic region in the promoter in an additional 27 barley genotypes increased the number of sequence-based haplotypes discovered to 11. However there is low haplotype diversity amongst the cultivated barley varieties sampled, with most varieties represented by a single haplotype. There was minor amino acid diversity in the protein, with five out of ten SNP sites in the coding region predicted to produce amino acid substitutions. SNP analysis indicated a history of recombination events--a minimum of seven based on the initial eight haplotypes from the whole sequenced region. Most of the recombination events occurred in the highly polymorphic regions, the 3' non-transcribed region and sequences flanking a microsatellite in the Isa promoter.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.