title: Direct detection of abortive RNA transcripts in vivo.
abstract: During transcription initiation in vitro, prokaryotic and eukaryotic RNA polymerase (RNAP) can engage in abortive initiation-the synthesis and release of short (2 to 15 nucleotides) RNA transcripts-before productive initiation. It has not been known whether abortive initiation occurs in vivo. Using hybridization with locked nucleic acid probes, we directly detected abortive transcripts in bacteria. In addition, we show that in vivo abortive initiation shows characteristics of in vitro abortive initiation: Abortive initiation increases upon stabilizing interactions between RNAP and either promoter DNA or sigma factor, and also upon deleting elongation factor GreA. Abortive transcripts may have functional roles in regulating gene expression in vivo.
authors.affiliation: Department of Genetics and Waksman Institute, Rutgers University, Piscataway, NJ 08854, USA.
authors.forename: Seth R
authors.initials: SR
authors.lastname: Goldman
authors.forename: Richard H
authors.initials: RH
authors.lastname: Ebright
authors.forename: Bryce E
authors.initials: BE
authors.lastname: Nickels
mesh_terms: D012321:DNA-Directed RNA Polymerases / Q000378:metabolism*; D004926:Escherichia coli / Q000235:genetics* / Q000378:metabolism; D029968:Escherichia coli Proteins / Q000235:genetics / Q000378:metabolism; D015964:Gene Expression Regulation, Bacterial; D009693:Nucleic Acid Hybridization; D015341:Nucleic Acid Probes; D010957:Plasmids; D011401:Promoter Regions, Genetic; D012329:RNA, Bacterial / Q000235:genetics* / Q000378:metabolism; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism; D014158:Transcription, Genetic
chemical_list: D029968:Escherichia coli Proteins; C079668:GreA protein, E coli; D015341:Nucleic Acid Probes; D012329:RNA, Bacterial; D014157:Transcription Factors; D012321:DNA-Directed RNA Polymerases