GEOapplication/xmlftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE343nnn/GSE343114/primaryOK200TranscriptomicsBacteroides thetaiotaomicron mouse gut metagenomeExpression profiling by high throughput sequencinghttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE343114GEOGSEfalseMining Microbial Transcriptomes to Engineer Cell-Based Bacterial Biosensors in Gut-Resident Bacteroidaceae [DSS RNAseq]The gastrointestinal tract is rich in metabolic, immune, and microbiome-derived signals that can inform the design of live biotherapeutics and diagnosis of intestinal disorders. Engineered cell-based biosensors can tap into this molecular information and report on their environment, yet their development in gut-resident symbionts has been limited by a lack of validated sensor systems. Here, we present a generalizable pipeline that leverages bacterial transcriptional profiling to identify environment-responsive systems for biosensor engineering. Candidate Sensors Systems (CSSs) mined from healthy, disease, and in vitro transcriptomes were assembled into a barcoded library in Bacteroidaceae chassis and screened in high-throughput in vivo to identify responsive promoters. A unique Bacteroidales ECF-type sigma factor operon with ties to sphingolipid metabolism and flux was highly responsive in chemically-induced colitis models. The biosensor responded robustly to disease and returned to baseline upon recovery, establishing an in vivo-driven strategy for discovering functional biosensors in non-model gut-resident bacteria.2026/08/24GSE343114GSM9946280GSM9946287GSM9946288GSM9946285GSM9946286GSM9946283GSM9946284GSM9946281GSM9946282GSM9946269GSM9946267GSM9946289GSM9946268GSM9946290GSM9946291GSM9946276GSM9946277GSM9946274GSM9946275GSM9946294GSM9946272GSM9946273GSM9946295GSM9946270GSM9946292GSM9946293GSM9946271GSM9946278GSM99462793735037336343114Bacteroides thetaiotaomicron mouse gut metagenome