ArticleBMC genomics2017
Exome QTL-seq maps monogenic locus and QTLs in barley.
Article in BMC genomics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 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
13 citing papers in PubMed, 37 citations in OpenAlex.
- Versatile mapping-by-sequencing with Easymap v.2.Frontiers in plant science · 2023Article
- Chlorophyll deficiency delays but does not prevent melanogenesis in barley seed melanoplasts.Protoplasma · 2022Article
- Review
- Bulked Segregant RNA Sequencing Revealed Difference Between Virulent and Avirulent Brown Planthoppers.Frontiers in plant science · 2022Article
- Whole Exome-Sequencing of Pooled Genomic DNA Samples to Detect Quantitative Trait Loci in Esotropia and Exotropia of Strabismus in Japanese.Life (Basel, Switzerland) · 2021Article
- Genome-wide association mapping of Pyrenophora teres f. maculata and Pyrenophora teres f. teres resistance loci utilizing natural Turkish wild and landrace barley populations.G3 (Bethesda, Md.) · 2021Article
- Genomic resources in plant breeding for sustainable agriculture.Journal of plant physiology · 2021Review
- QTL-seq analysis of powdery mildew resistance in a Korean cucumber inbred line.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- History and future perspectives of barley genomics.DNA research : an international journal for rapid publication of reports on genes and genomes · 2020Review
- Research advances in the Pyrenophora teres-barley interaction.Molecular plant pathology · 2020Review
- Identification of quantitative trait loci governing subgynoecy in cucumber.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Article
- QTLs maintaining grain fertility under salt stress detected by exome QTL-seq and interval mapping in barley.Breeding science · 2018Article
- A Targeted Capture Linkage Map Anchors the Genome of the Schistosomiasis Vector Snail,G3 (Bethesda, Md.) · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundQTL-seq, in combination with bulked segregant analysis and next-generation sequencing (NGS), is used to identify loci in small plant genomes, but is technically challenging to perform in species with large genomes, such as barley. A combination of exome sequencing and QTL-seq (exome QTL-seq) was used to map the mono-factorial Mendelian locus black lemma and pericarp (Blp) and QTLs for resistance to net blotch disease, a common disease of barley caused by the fungus Pyrenophora teres, which segregated in a population of 100 doubled haploid barley lines.
methodsThe provisional exome sequences were prepared by ordering the loci of expressed genes based on the genome information and concatenating genes with intervals of 200-bp spacer "N" for each chromosome. The QTL-seq pipeline was used to analyze short reads from the exome-captured library.
resultsIn this study, short NGS reads of bulked total DNA samples from segregants with extreme trait values were subjected to exome capture, and the resulting exome sequences were aligned to the reference genome. SNP allele frequencies were compared to identify the locations of genes/QTLs responsible for the trait value differences between lines. For both objective traits examined, exome QTL-seq identified the monogenic Mendelian locus and associated QTLs. These findings were validated using conventional mapping approaches.
conclusionsExome QTL-seq broadens the utility of NGS-based gene/QTL mapping in organisms with large genomes.
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.