| Title: | Genome-Wide Transcription Start Sites Mapping in Methylorubrum Grown with Dichloromethane and Methanol |
| Author(s): | Maucourt B; Roche D; Chaignaud P; Vuilleumier S; Bringel F; |
| Address: | "Genetique Moleculaire, Genomique, Microbiologie, Universite de Strasbourg, UMR 7156 CNRS, 67000 Strasbourg, France. LABGeM, Genomique Metabolique, Genoscope, Institut de Biologie Francois Jacob, Commissariat a l'Energie Atomique (CEA), CNRS, Universite Evry, Universite Paris-Saclay, 91057 Evry, France" |
| DOI: | 10.3390/microorganisms10071301 |
| ISSN/ISBN: | 2076-2607 (Print) 2076-2607 (Electronic) 2076-2607 (Linking) |
| Abstract: | "Dichloromethane (DCM, methylene chloride) is a toxic halogenated volatile organic compound massively used for industrial applications, and consequently often detected in the environment as a major pollutant. DCM biotransformation suggests a sustainable decontamination strategy of polluted sites. Among methylotrophic bacteria able to use DCM as a sole source of carbon and energy for growth, Methylorubrum extorquens DM4 is a longstanding reference strain. Here, the primary 5'-ends of transcripts were obtained using a differential RNA-seq (dRNA-seq) approach to provide the first transcription start site (TSS) genome-wide landscape of a methylotroph using DCM or methanol. In total, 7231 putative TSSs were annotated and classified with respect to their localization to coding sequences (CDSs). TSSs on the opposite strand of CDS (antisense TSS) account for 31% of all identified TSSs. One-third of the detected TSSs were located at a distance to the start codon inferior to 250 nt (average of 84 nt) with 7% of leaderless mRNA. Taken together, the global TSS map for bacterial growth using DCM or methanol will facilitate future studies in which transcriptional regulation is crucial, and efficient DCM removal at polluted sites is limited by regulatory processes" |
| Keywords: | dRNA-seq dehalogenation dichloromethane gene expression genome methanol methylotrophy organohalide pollutant transcriptional start site; |
| Notes: | "PubMed-not-MEDLINEMaucourt, Bruno Roche, David Chaignaud, Pauline Vuilleumier, Stephane Bringel, Francoise eng Switzerland 2022/07/28 Microorganisms. 2022 Jun 27; 10(7):1301. doi: 10.3390/microorganisms10071301" |
