ArticlePlant biotechnology journal2016
Genome distribution of differential homoeologue contributions to leaf gene expression in bread wheat.
Article in Plant biotechnology journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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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.
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Who cites it
17 citing papers in PubMed.
- Ancient wheat DNA: How and what for?Journal, genetic engineering & biotechnology · 2026Article
- Analysis of allohexaploid wheatgrass genome reveals its Y haplome origin in Triticeae and high-altitude adaptation.Nature communications · 2025Article
- Genome-wide association analysis of wheat stem traits using 55K microarrays.Frontiers in plant science · 2025Article
- Co-expression network analysis of diverse wheat landraces reveals markers of early thermotolerance and a candidate master regulator of thermotolerance genes.The Plant journal : for cell and molecular biology · 2023Article
- Transcription factor retention through multiple polyploidization steps in wheat.G3 (Bethesda, Md.) · 2022Article
- Chromosome-scale assembly and evolution of the tetraploid Salvia splendens (Lamiaceae) genome.Horticulture research · 2021Article
- New insights into homoeologous copy number variations in the hexaploid wheat genome.The plant genome · 2021Article
- Asymmetric Divergence in Transmitted SNPs of DNA Replication/Transcription and Their Impact on Gene Expression in PolyploidFrontiers in genetics · 2021Article
- AFrontiers in plant science · 2020Article
- Competition of Parental Genomes in Plant Hybrids.Frontiers in plant science · 2020Review
- Cas9-mediated mutagenesis of potato starch-branching enzymes generates a range of tuber starch phenotypes.Plant biotechnology journal · 2019Article
- Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm.BMC genomics · 2019Article
- Transcriptome analysis reveals potential mechanisms for different grain size between natural and resynthesized allohexaploid wheats with near-identical AABB genomes.BMC plant biology · 2018Article
- Selection and evaluation of reference genes for qRT-PCR analysis inPlant methods · 2018Article
- Extensive homoeologous genome exchanges in allopolyploid crops revealed by mRNAseq-based visualization.Plant biotechnology journal · 2017Article
- Elucidation of the genetic basis of variation for stem strength characteristics in bread wheat by Associative Transcriptomics.BMC genomics · 2016Article
- Molecular markers for tolerance of European ash (Fraxinus excelsior) to dieback disease identified using Associative Transcriptomics.Scientific reports · 2016Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Using a combination of de novo transcriptome assembly, a newly developed 9495-marker transcriptome SNP genetic linkage map and comparative genomics approaches, we developed an ordered set of nonredundant transcripts for each of the subgenomes of hexaploid wheat: A (47 160 unigenes), B (59 663 unigenes) and D (40 588 unigenes). We used these as reference sequences against which to map Illumina mRNA-Seq reads derived from young leaf tissue. Transcript abundance was quantified for each unigene. Using a three-way reciprocal BLAST approach, 15 527 triplet sets of homoeologues (one from each genome) were identified. Differential expression (P < 0.05) was identified for 5248 unigenes, with 2906 represented at greater abundance than their two homoeologues and 2342 represented at lower abundance than their two homoeologues. Analysis of gene ontology terms revealed no biases between homoeologues. There was no evidence of genomewide dominance effects, rather the more highly transcribed individual genes were distributed throughout all three genomes. Transcriptome display tile plot, a visualization approach based on CMYK colour space, was developed and used to assess the genome for regions of skewed homoeologue transcript abundance. Extensive striation was revealed, indicative of many small regions of genome dominance (transcripts of homoeologues from one genome more abundant than the others) and many larger regions of genome repression (transcripts of homoeologues from one genome less abundant than the others).
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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.