{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Scholz SA"],"funding":["NIH Predoctoral Training Program in Genetics","NIAID NIH HHS","NIH Cellular and Molecular Biology Training","NIH","NIGMS NIH HHS"],"pagination":["10360-10375"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9561378"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["50(18)"],"pubmed_abstract":["Recent experiments have shown that in addition to control by cis regulatory elements, the local chromosomal context of a gene also has a profound impact on its transcription. Although this chromosome-position dependent expression variation has been empirically mapped at high-resolution, the underlying causes of the variation have not been elucidated. Here, we demonstrate that 1 kb of flanking, non-coding synthetic sequences with a low frequency of guanosine and cytosine (GC) can dramatically reduce reporter expression compared to neutral and high GC-content flanks in Escherichia coli. Natural and artificial genetic context can have a similarly strong effect on reporter expression, regardless of cell growth phase or medium. Despite the strong reduction in the maximal expression level from t"],"journal":["Nucleic acids research"],"pubmed_title":["Genetic context effects can override canonical cis regulatory elements in Escherichia coli."],"pmcid":["PMC9561378"],"funding_grant_id":["R03-AI130610","R35 GM128637","T32-GM007315","R03 AI130610","T32 GM007544","T32 GM007315","R35-GM128637","T32-GM007544"],"pubmed_authors":["Lindeboom CD","Scholz SA","Freddolino L"],"additional_accession":[]},"is_claimable":false,"name":"Genetic context effects can override canonical cis regulatory elements in Escherichia coli.","description":"Recent experiments have shown that in addition to control by cis regulatory elements, the local chromosomal context of a gene also has a profound impact on its transcription. Although this chromosome-position dependent expression variation has been empirically mapped at high-resolution, the underlying causes of the variation have not been elucidated. Here, we demonstrate that 1 kb of flanking, non-coding synthetic sequences with a low frequency of guanosine and cytosine (GC) can dramatically reduce reporter expression compared to neutral and high GC-content flanks in Escherichia coli. Natural and artificial genetic context can have a similarly strong effect on reporter expression, regardless of cell growth phase or medium. Despite the strong reduction in the maximal expression level from t","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Oct","modification":"2025-08-31T03:06:14.31Z","creation":"2025-04-06T17:07:10.373Z"},"accession":"S-EPMC9561378","cross_references":{"pubmed":["36134716"],"doi":["10.1093/nar/gkac787"]}}