biostudies-arrayexpressJunyu BaiSolanum lycopersicumhttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-17154This experiment investigates FERONIA-dependent transcriptional responses in tomato roots under salt stress. Wild-type and feronia mutant seedlings were grown under control conditions or treated with 150 mM NaCl, and root tissues were collected from four experimental groups: WT control, WT salt-treated, fer control, and fer salt-treated, each with three biological replicates. RNA-seq was performed to quantify transcript abundance and identify genotype-dependent transcriptional responses associated with salt stress.biostudies-arrayexpressNucleic Acid Extraction - Total RNA was extracted from tomato root tissues using the RNAprep Pure Plant Kit according to the manufacturer's instructions. RNA quality was assessed before library construction.Sequencing - Libraries were sequenced on an Illumina platform in paired-end mode with a read length of 2 × 150 nt.Library Construction - RNA-seq libraries were constructed from total RNA using a standard mRNA-seq library preparation workflow.Sample Treatment - Seedlings were maintained under control conditions or subjected to progressive salt treatment culminating in 150 mM NaCl. Root tissues were harvested after 5 days of salt treatment. Control plants were maintained in 1/4-strength Hoagland's medium.Growth Protocol - Tomato seedlings were grown under controlled greenhouse conditions with a 16 h light/8 h dark photoperiod at 30°C during the light period and 25°C during the dark period. Plants were maintained in 1/4-strength Hoagland's medium before treatment. At 3–4 weeks after sowing, seedlings were assigned to control or progressive salt treatment culminating in 150 mM NaCl. Control plants were maintained in 1/4-strength Hoagland's medium.Sample Collection - Root tissues were collected from wild-type and fer tomato seedlings grown under control or 150 mM NaCl treatment. Samples were harvested after 5 days of salt treatment, with three biological replicates per condition.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - RNA-seq reads were aligned to the tomato SL4.0 genome with ITAG4.0 annotation using STAR in two-pass mode. Exon-level gene counts were obtained with featureCounts, using unstranded counting and excluding multi-mapping and multi-overlap reads.Data Transformation - The submitted processed data file contains unnormalized gene-level raw counts. RNA-seq reads were aligned to the tomato SL4.0 genome with ITAG4.0 annotation using STAR in two-pass mode, and exon-level gene counts were generated with featureCounts in unstranded mode. No normalization or transformation was applied to the submitted raw count matrix. For downstream quality-control visualization, raw counts were TMM-normalized and transformed to logCPM using edgeR; differential transcript-abundance analysis was performed from raw counts using DESeq2.UnknownTranscriptomicsGenomicsProteomicsHiSeq X TenRNA-seq of coding RNASolanum lycopersicumJunyu BaifalseRNA-seq of wild-type and feronia mutant tomato roots under salt stressThis experiment investigates FERONIA-dependent transcriptional responses in tomato roots under salt stress. Wild-type and feronia mutant seedlings were grown under control conditions or treated with 150 mM NaCl, and root tissues were collected from four experimental groups: WT control, WT salt-treated, fer control, and fer salt-treated, each with three biological replicates. RNA-seq was performed to quantify transcript abundance and identify genotype-dependent transcriptional responses associated with salt stress.2026-06-12T00:00:00Z2026-06-12T21:46:14.178Z2026-06-12T11:13:51.011ZE-MTAB-17154ERP194980EFO_0002944EFO_0004170EFO_0003789EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184EFO_0003969