{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Young MG"],"funding":["U.S. Department of Health &amp; Human Services | NIH | National Institute of Allergy and Infectious Diseases (NIAID)","NIDDK NIH HHS","U.S. Department of Health &amp; Human Services | NIH | National Institute of Allergy and Infectious Diseases","NIAID NIH HHS"],"pagination":["9466"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC11530686"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["15(1)"],"pubmed_abstract":["Low-abundance members of microbial communities are difficult to study in their native habitats, including Escherichia coli, a minor but common inhabitant of the gastrointestinal tract, and key opportunistic pathogen of the urinary tract. While multi-omic analyses have detailed interactions between uropathogenic Escherichia coli (UPEC) and the bladder mediating urinary tract infection (UTI), little is known about UPEC in its pre-infection reservoir, the gastrointestinal tract, partly due to its low relative abundance (<1%). To sensitively explore the genomes and transcriptomes of diverse gut E. coli, we develop E. coli PanSelect, which uses probes designed to specifically capture E. coli's broad pangenome. We demonstrate its ability to enrich diverse E. coli by orders of magnitude, in a moc"],"journal":["Nature communications"],"pubmed_title":["Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pangenome hybrid selection."],"pmcid":["PMC11530686"],"funding_grant_id":["U19AI110818","R01 DK121822","R01 AI165915","R01AI165915","R01DK121822","U19 AI110818"],"pubmed_authors":["Metsky HC","Young MG","Azimzadeh P","van Dijk LR","Matranga C","Worby CJ","Bronson RA","Qu J","Villicana JB","Gnirke A","Kau A","Schreiber HL","Manson AL","Desjardins CA","Dodson KW","Hultgren SJ","Earl AM","Straub TJ"],"additional_accession":[]},"is_claimable":false,"name":"Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pangenome hybrid selection.","description":"Low-abundance members of microbial communities are difficult to study in their native habitats, including Escherichia coli, a minor but common inhabitant of the gastrointestinal tract, and key opportunistic pathogen of the urinary tract. While multi-omic analyses have detailed interactions between uropathogenic Escherichia coli (UPEC) and the bladder mediating urinary tract infection (UTI), little is known about UPEC in its pre-infection reservoir, the gastrointestinal tract, partly due to its low relative abundance (<1%). To sensitively explore the genomes and transcriptomes of diverse gut E. coli, we develop E. coli PanSelect, which uses probes designed to specifically capture E. coli's broad pangenome. We demonstrate its ability to enrich diverse E. coli by orders of magnitude, in a moc","dates":{"release":"2024-01-01T00:00:00Z","publication":"2024 Nov","modification":"2026-07-16T09:33:10.354Z","creation":"2025-04-06T14:22:42.604Z"},"accession":"S-EPMC11530686","cross_references":{"pubmed":["39487120"],"doi":["10.1038/s41467-024-53829-7"]}}