| Azhurnaya development |
Developmental time-course of Azhurnaya |
70 tissue/timepoints from Azhurnaya developmental stages |
The transcriptional landscape of polyploid wheat |
| PAMP |
PAMP innoculation of seedlings |
Leaves innoculated with flg22, chitin and water to study PAMP responses |
The transcriptional landscape of polyploid wheat |
| spike drought |
Spikes with water stress |
Water stress was applied to a double haploid population at early booting. RNA was sequenced from spikes. |
The transcriptional landscape of polyploid wheat |
| CS seedlings spike |
Chinese Spring seedling (leaves and roots) and spikes at anthesis |
Seedlings of Chinese Spring were divided into leaves and roots, and spikes were collected at anthesis. |
The transcriptional landscape of polyploid wheat |
| CS vegetative |
Chinese Spring leaves and roots from seven leaf stage |
Vegetative (seven leaf stage) roots and leaves were harvested from Chinese Spring. |
The transcriptional landscape of polyploid wheat |
| phosphate |
Phosphate starvation in roots and shoots |
Transcriptome profiles of wheat variety Chinese Spring (CS) in response to Pi starvation (−P) for 10 days. |
Characterisation of the wheat (Triticum aestivum L.) transcriptome by de novo assembly for the discovery of phosphate starvation-responsive genes: gene expression in Pi-stressed wheat |
| CS grain |
Grain tissue-specific developmental timecourse |
Analysis of the cell type specific expression of homeologous genes in the developing wheat grain |
Genome interplay in the grain transcriptome of hexaploid bread wheat |
| 12dpa grain |
Grain tissue-specific expression at 12 days post anthesis |
Inner pericarp, outer pericarp and endosperm layers from developing grain of bread wheat cv. Holdfast at 12 days post-anthesis. |
Heterologous expression and transcript analysis of gibberellin biosynthetic genes of grasses reveals novel functionality in the GA3ox family |
| flag leaf |
Flag leaf downregulation of GPC |
Wild type bread wheat plants and GPC RNAi plants 12 days after anthesis |
Effect of the down-regulation of the high Grain Protein Content (GPC) genes on the wheat transcriptome during monocarpic senescence |
| grain dissection |
Grain tissue-specific developmental timecourse |
Transcriptomes of the aleurone and starchy endosperm tissues of the wheat seed (Triticum aestivum) at time points critical to the development of the aleurone layer of 6, 9 and 14 days post anthesis. |
Gene expression in the developing aleurone and starchy endosperm of wheat |
| stripe rust |
Stripe rust infected seedlings |
Pool of stripe rust infected wheat leaves |
Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors |
| septoria |
Septoria tritici infected seedlings |
Molecular mechanisms underlying the interplay between fungal pathogenicity and host responses at specific growth phases and the factors triggering disease transition. |
Transcriptional Reprogramming of Wheat and the Hemibiotrophic Pathogen Septoria tritici during Two Phases of the Compatible Interaction |
| fusarium 30 50h |
Fusarium head blight infected spikelets |
Near isogenic wheat lines, differing in the presence of the Fusarium graminearum FHB-resistance QTL Fhb1 and Qfhs.ifa-5A, under disease pressure (30 and 50 hai) as well as with mock-inoculation |
Quantitative trait loci-dependent analysis of a gene co-expression network associated with Fusarium head blight resistance in bread wheat (Triticum aestivum L.) |
| nullitetra |
Shoots and leaves of nulli tetra group 1 and group 5 |
RNAseq of nulli-tetrasomic wheat lines (shoots and leaves) |
Patterns of homoeologous gene expression shown by RNA sequencing in hexaploid bread wheat |
| early grain |
Grain tissue-specific developmental timecourse |
Gene expression profiling of morphological stage of developing wheat grain |
Evaluation of Assembly Strategies Using RNA-Seq Data Associated with Grain Development of Wheat (Triticum aestivum L.) |
| stamen pistil |
Comparison of stamen, pistil and pistilloidy expression |
Transcriptional profiling of pistillody stamen, pistil and stamen in wheat line HTS-1 |
Pistillody mutant reveals key insights into stamen and pistil development in wheat (Triticum aestivum L.) |
| stripe rust powdery mildew |
Stripe rust and powdery mildew timecourse of infection in seedlings |
Transcriptome Divergence and Overlap for Wheat in Response to Stripe rust and Powdery Mildew Pathogen Stress |
Large-scale transcriptome comparison reveals distinct gene activations in wheat responding to stripe rust and powdery mildew. |
| drought heat |
Drought and heat stress time-course in seedlings |
RNAseq of 1-week old wheat seedling leaves subjected to drought stress, heat stress and their combination before (0h) and after stress (1h or 6h) |
Temporal transcriptome profiling reveals expression partitioning of homeologous genes contributing to heat and drought acclimation in wheat (Triticum aestivum L.) |
| 4A dormancy |
Grain developmental timecourse with 4A dormancy QTL |
This study was to identify candidate genes underlying the 4AL QTL for grain dormancy in wheat. RNA was sequenced from pooled NILs segregating for the QTL |
Transcriptomic analysis of wheat near-isogenic lines identifies PM19-A1 and A2 as candidates for a major dormancy QTL |
| CS development |
Developmental time-course of Chinese Spring |
Whole transcriptome sequencing of wheat 3B chromosome |
Structural and functional partitioning of bread wheat chromosome 3B |
| CS 6 tissues |
Six unreplicated tissues from Chinese Spring. |
Seedlings, roots, leaves, stem, spike and grain from Chinese Spring |
An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations |
| fusarium 0h to 48h |
Timecourse of spikelets inoculated with fusarium head blight |
Spikes from NILs for Fhb1 were inoculated with Fusarium graminearum. They were sequenced from 0 to 48 h post innoculation. |
Suppressed recombination and unique candidate genes in the divergent haplotype encoding Fhb1, a major Fusarium head blight resistance locus in wheat |
| crown rot |
Coleoptile infection with Fusarium pseudograminearum (crown rot) |
Coleoptiles inoculated with Fusarium pseudograminearum, mock and treatment were sequenced 3 days post infection. |
The Fusarium crown rot pathogen Fusarium pseudograminearum triggers a suite of transcriptional and metabolic changes in bread wheat (Triticum aestivum L.) |
| magnaporthe |
Leaves naturally infected with Magnaporthe oryzae |
Symptomatic (Magnaporthe oryzae) and nonsymptomatic leaves were sequenced from Bangladesh. |
Emergence of wheat blast in Bangladesh was caused by a South American lineage of Magnaporthe oryzae |
| PEG |
Seedlings with PEG to simulate drought |
Seedlings had PEG 6000 applied from 2 to 12 hours. |
N/A |
| fusarium hormones |
spikes innoculated with fusarium head blight and ABA/GA |
Spikes were inoculated with Fusarium graminearum and ABA or GA. |
Exogenous Abscisic Acid and Gibberellic Acid Elicit Opposing Effects on Fusarium graminearum Infection in Wheat |
| CS flag leaf |
Chinese Spring flag leaves, 6 timepoints |
Chinese Spring flag leaves harvested from ear emergence to 30 days post anthesis. |
N/A |
| microspores |
Microspores in tissue culture and cold |
Microspores were harvested after tissue culture and cold treatment. |
Analysis of wheat microspore embryogenesis induction by transcriptome and small RNA sequencing using the highly responsive cultivar “Svilena” |
| septoria 2 |
Zymoseptoria tritici infected seedlings |
Riband seedlings infected with Zymoseptoria tritici. |
Transcriptome and Metabolite Profiling of the Infection Cycle of Zymoseptoria tritici on Wheat Reveals a Biphasic Interaction with Plant Immunity Involving Differential Pathogen Chromosomal Contributions and a Variation on the Hemibiotrophic Lifestyle Definition |
| CS fusarium |
CS spikes inoculated with fusarium head blight |
CS spikes innoculated with Fusarium graminearum. |
Development and Validation of Thinopyrum elongatum–Expressed Molecular Markers Specific for the Long Arm of Chromosome 7E |
| crown rot 2 |
Shoots from NILs segregating for crown rot resistance |
Shoots from NILs segregating for resistance to Fusarium pseudograminearum. Inoculated and mock samples. |
Transcriptome and Allele Specificity Associated with a 3BL Locus for Fusarium Crown Rot Resistance in Bread Wheat |
| cold |
Shoots after 2 weeks cold |
Shoots after 2 weeks cold to examine cold-induced lipid pathways. |
Understanding the Biochemical Basis of Temperature-Induced Lipid Pathway Adjustments in Plants |
| stripe rust 2 |
Stripe rust infected seedlings |
Timecourse of Vuka and Avocet+Yr5 innoculated with stripe rust. |
The host-pathogen interaction between wheat and yellow rust induces temporally coordinated waves of gene expression |
| synthetic |
Developmental time-course of synthetic hexaploid |
RNAseq of three tissues of nascent allohexaploid wheat and its following generations, their progenitors, and Chinese Spring |
mRNA and Small RNA Transcriptomes Reveal Insights into Dynamic Homoeolog Regulation of Allopolyploid Heterosis in Nascent Hexaploid Wheat |
| flag leaf senescence |
Gene expression during a timecourse of flag leaf senescence |
Triticum aestivum flag leaf senescence |
Identification of transcription factors regulating senescence in wheat through gene regulatory network modelling |
| CS meiosis |
Chinese Spring early meiosis, early prophase |
Transcriptome analysis of early meiosis in wheat in the presence and absence of the Ph1 locus |
Genome-wide transcription during early wheat meiosis is independent of synapsis, ploidy level and the Ph1 locus |
