biostudies-arrayexpressPetros SigalasTriticum aestivumhttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15557This dataset contains 48 RNA-seq samples from Triticum aestivum cv. Paragon plants grown under field conditions as part of the WGIN 2016 diversity trial. Flag leaf node tissues were harvested at eight time points following anthesis to capture transcriptional changes associated with senescence progression. Plants were subjected to two nitrogen fertilisation treatments (100 and 200 kg N ha⁻¹), with three biological replicates per treatment and time point. The selected time points for each nitrogen level were: N100 – 0, 7, 14, 21, 25, 28, 31, and 34 days post-anthesis (DPA); N200 – 0, 7, 14, 21, 28, 32, 35, and 38 DPA. This time-course RNA-seq dataset enables the investigation of gene expression dynamics during post-anthesis senescence in wheat flag leaf nodes, which serve as central hubs for nutrient trafficking during grain filling.biostudies-arrayexpressNucleic Acid Extraction - The frozen plant material was ground using a SPEX SamplePrep 6870 freezer mill (SPEX SamplePrep). The total RNA isolation was conducted according to Verwoerd et al. (1989) with the modifications described in Buchner and Hawkesford (2014). To ensure no DNA carryover, DNase treatment was performed using RQ1 RNase-Free DNase (Promega). After DNase treatment RNA was further purified by phenol/chloroform/isoamyl-alcohol purification. Prior the sample submission, the extracted RNA was further purified with Plant RNeasy kit (Qiagen) following the provided RNA clean-up protocol. RNA concentration was determined using the Qubit Broad Range Assay (Invitrogen), and purity was assessed via A260/A280 ratio using a NanoDrop 2000 spectrophotometer (Thermo Scientific). RNA integrity was also evaluated by electrophoresis of 500 ng RNA on a 1% agarose TAE gel.Growth Protocol - Triticum aestivum cv. Paragon was grown in a field trial under two nitrogen fertilisation levels: 100 and 200 kg N ha⁻¹, with three replicate plots per treatment. Each plot was 2.75 m × 9 m. The trial was part of the Defra-funded Wheat Genetic Improvement Network (WGIN) Diversity 2016 field experiment (https://grassroots.tools/fieldtrial/study/60827ff102700f28ce3c1198). The experiment was conducted during the 2015/2016 growing season at Blackhorse Field (coordinates: 51.804819, -0.398773), located at Rothamsted Research Experimental Farm in Harpenden, UK. Standard farm practices were followed for herbicide, fungicide, and insecticide applications.Sequencing - Sequencing was performed by the High-Throughput Genomics Group at the Wellcome Trust Centre for Human Genetics, Oxford University. Libraries underwent multiplexing and were loaded onto flow cells. Next-generation sequencing was performed on the Illumina HiSeq 4000 platform, using a 2x150 bp pair-end configuration. Raw paired-end data were delivered in fastq format.Library Construction - Quality control, poly-A selection for rRNA removal, library preparation, and multiplexing were performed by the High-Throughput Genomics Group at the Wellcome Trust Centre for Human Genetics, Oxford University, according to their established standard procedures. RNA library preparation utilized the Illumina TruSeq Stranded mRNA kit.Sample Collection - Flag leaf nodes were carefully dissected and immediately frozen in liquid nitrogen to preserve RNA integrity. Each biological replicate consisted of 20 flag leaf nodes collected from plants randomly selected within each plot. Stems had been labelled at anthesis to track developmental timing. Sampling was conducted at eight distinct time points after anthesis, chosen based on the progression of senescence. The selected time points for each nitrogen treatment were as follows: N100 – 0, 7, 14, 21, 25, 28, 31, and 34 days post-anthesis (DPA); N200 – 0, 7, 14, 21, 28, 32, 35, and 38 DPA. Samples were stored in -80 oC until RNA extraction.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - The kallisto tool used for pseudo-alignment directly reports transcript abundance as Transcripts Per Million (TPM) values. The package tximport v1.24.0 was used to create gene-level abundance from the transcript abundances (Soneson et al., 2015).Sequence Alignment - Raw reads were pseudo-aligned to the reference transcriptome using Kallisto, and transcript-level abundances were quantified. Gene-level summarization was performed using the Tximport tool, with expression values reported in transcripts per million (TPM).MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina HiSeq 4000RNA-seq of coding RNATriticum aestivumMalcolm HawkesfordPeter BuchnerPetros SigalasfalseTime-course RNA-seq of flag leaf node during senescence in field-grown Triticum aestivum cv. Paragon under two nitrogen fertilisation levelsThis dataset contains 48 RNA-seq samples from Triticum aestivum cv. Paragon plants grown under field conditions as part of the WGIN 2016 diversity trial. Flag leaf node tissues were harvested at eight time points following anthesis to capture transcriptional changes associated with senescence progression. Plants were subjected to two nitrogen fertilisation treatments (100 and 200 kg N ha⁻¹), with three biological replicates per treatment and time point. The selected time points for each nitrogen level were: N100 – 0, 7, 14, 21, 25, 28, 31, and 34 days post-anthesis (DPA); N200 – 0, 7, 14, 21, 28, 32, 35, and 38 DPA. This time-course RNA-seq dataset enables the investigation of gene expression dynamics during post-anthesis senescence in wheat flag leaf nodes, which serve as central hubs for nutrient trafficking during grain filling.2026-05-01T00:00:00Z2026-05-01T01:04:05.584Z2025-09-05T14:44:32.479ZE-MTAB-15557ERP179692EFO_0002944EFO_0004170EFO_0003789EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184