{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Muhammad Yasir"],"instrument_platform":["NextSeq 500"],"study_type":["DNA-seq"],"organism":["Escherichia coli str. K-12 substr. MG1655"],"species":["Escherichia coli str. K-12 substr. MG1655"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15219"],"description":["In past, heat stress mechanisms have been identified by analysis of RNA-seq or proteomics. Recently, high-throughput transposon mutagenesis coupled with sequencing (TraDIS-Xpress) is another approach proving useful for elucidating the roles of genes involved in the overall cellular response to a particular stress. In this study, we used TraDIS-Xpress to determine the role played by genes following exposure to heat stress at different temperatures. We used two approaches for heat stress, direct heat (heat shock) and stepwise heat increase (gradient heat) stress. Approximately 10^8 cells from the mutant library were inoculated into LB broth at 37C, 44C, 47C, 50C, 44C to 47C and 44C to 50C. Experiments were performed with induction using 0.2mM of Isopropyl β-D-1-thiogalactopyranoside (IPTG). All experiments were performed in triplicate."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - The DNA was extracted using Zymo kit for bacterial / fungal DNA extraction.","Sample Collection - All the samples were grown in LB medium at different temperature conditions.","Growth Protocol - All the samples were grown in LB medium","Sequencing - The DNA tagmented, and amplified with customised primers to select for 300bp-500bp and sequenced on an Illumina NextSeq 500 sequencing instrument using a NextSeq 500/550 High Output v2 kit (75 cycles).","Library Construction - The library was made using modified Illumina protocol to sequence from the transposon and identifying transposon-genome junctions."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Muhammad Yasir"],"additional_accession":[]},"is_claimable":false,"name":"Prior exposure strongly influences mechanisms underpinning survival of heat shock in Escherichia coli","description":"In past, heat stress mechanisms have been identified by analysis of RNA-seq or proteomics. Recently, high-throughput transposon mutagenesis coupled with sequencing (TraDIS-Xpress) is another approach proving useful for elucidating the roles of genes involved in the overall cellular response to a particular stress. In this study, we used TraDIS-Xpress to determine the role played by genes following exposure to heat stress at different temperatures. We used two approaches for heat stress, direct heat (heat shock) and stepwise heat increase (gradient heat) stress. Approximately 10^8 cells from the mutant library were inoculated into LB broth at 37C, 44C, 47C, 50C, 44C to 47C and 44C to 50C. Experiments were performed with induction using 0.2mM of Isopropyl β-D-1-thiogalactopyranoside (IPTG). All experiments were performed in triplicate.","dates":{"release":"2026-05-29T00:00:00Z","modification":"2026-05-29T01:00:48.817Z","creation":"2025-06-11T12:09:52.511Z"},"accession":"E-MTAB-15219","cross_references":{"ENA":["ERP173358"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0002693","EFO_0005518","EFO_0004184"]}}