biostudies-arrayexpressJunya MizoiSolanum lycopersicumhttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16425Coral sand–based hydroponic cultivation of tomato can increase fruit sugar content while minimizing yield loss. To investigate the physiological effects of coral sand on tomato plants, we compared gene expression profiles in immature fruits grown on standard coconut peat medium (control) with those grown on coral sand as the solid substrate.biostudies-arrayexpressSample Collection - Pericarp tissues were separated from fruits using a scalpel, and the samples were frozen in liquid nitrogen.Growth Protocol - Tomato seedlings were transplanted at the age of 4 w old and grown for 2 w hydroponically with different concentrations of nutrients. The phosphate concentration in the control solution (P100%) and low phosphate solution (P1%) were 100% and 1%, respectively.Library Construction - Library was constructed as described in Lasy-seq protocol (https://sites.google.com/view/lasy-seq/)Sequencing - Nucleic acid sequencing was performed as described in Lasy-seq protocol (https://sites.google.com/view/lasy-seq/).Nucleic Acid Extraction - Samples were ground in liquid nitrogen into powder. Total RNA was isolated from the powdered samples using RNA iso plus (TaKaRa). One sample is from one fruit.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Original read data were quality-filtered using fastp (v0.21.1) and aligned to the Solanum lycopersicum ITAG4.0 cDNA reference with Bowtie (v1.2.3). Transcript and gene expression levels were quantified using RSEM (v1.3.1) based on an expectation–maximization algorithm. Expression values were normalized as TPM and FPKM. Transcript-level alignments were processed using samtools (v1.9).UnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq XRNA-seq of coding RNASolanum lycopersicumJunya MizoifalseTranscriptomic profiling of immature tomato fruits grown hydroponically with coral sand as the solid mediumCoral sand–based hydroponic cultivation of tomato can increase fruit sugar content while minimizing yield loss. To investigate the physiological effects of coral sand on tomato plants, we compared gene expression profiles in immature fruits grown on standard coconut peat medium (control) with those grown on coral sand as the solid substrate.2026-01-06T00:00:00Z2026-01-06T10:48:27.148Z2025-12-18T19:57:03.595ZE-MTAB-16425ERP186788EFO_0002944EFO_0004170EFO_0003789EFO_0005518EFO_0003816EFO_0003738EFO_0004184