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Genome-wide transcription start sites mapping in Methylorubrum grown using dichloromethane and methanol

ABSTRACT: Genome-wide transcription start sites mapping in Methylorubrum grown using dichloromethane and methanol

PROVIDER: PRJEB52788 | ENA |

REPOSITORIES: ENA

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Genome-wide transcription start sites mapping in Methylorubrum grown using dichloromethane and methanol

Project description: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 offers a sustainable decontamination strategy of polluted sites. Among methylotrophic bacteria able to use DCM as sole source of carbon and energy for growth, Methylorubrum extorquens DM4 (formerly named Methyobacterium extorquens) is a longstanding reference Alphaproteobacteria strain. Here, its primary transcriptome was 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.

2022-06-27 | E-MTAB-11726 | biostudies-arrayexpress

Genome-Wide Transcription Start Sites Mapping in <i>Methylorubrum</i> Grown with Dichloromethane and Methanol.

Project description: Not available

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Comparative proteomics of Desulfotomaculum kuznetsovii grown on methanol and ethanol

Project description:The aim of this study was to unravel the methanol metabolism of Desulfotomaculum kuznetsovii. Anaerobic methylotrophs, such as methanogens and acetogens, use a pathway initiated by a cobalamine-containing methanol methyltransferase, whereas aerobic methylotrophs generally oxidize methanol to formaldehyde through a pathway initiated by a methanol dehydrogenase. Sulfate-respiring cells grown with methanol in the presence and absence of cobalt and vitamin B12 were analyzed and compared with cells grown with lactate or ethanol. Proteome analysis showed the presence of two methanol degrading pathways in D. kuznetsovii: a cobalt-dependent methanol methyltransferase and a cobalt-independent alcohol dehydrogenase. This is the first time that two methanol pathways have been shown to be present in a single microorganism, and we hypothesize this can give D. kuznetsovii a competitive advantage.

2018-01-22 | PXD006899 | Pride

Pichia angusta cells glucose- vs methanol-grown

Project description:Transcriptional profiling of Pichia angusta NCYC 495 leu1.1 cells growing exponentially on mineral medium containing 0.5% glucose versus a shift for 2 hours to mineral medium containing 0.5% methanol. Two-conditions experiment, 4 individual glucose-grown cultures were shifted at OD660nm 2.3 to fresh mineral medium OD 0.2 containing 0.5% methanol for 2 hours. Transcriptional profiling was performed using total RNA from the glucose-grown cells at the moment of the shift versus cells adapted to methanol for 2 hours.

2010-06-19 | E-GEOD-19036 | biostudies-arrayexpress

Methylorubrum extorquens supernatant extract use case

Project description:Three independent cultures of Methylorubrum extorquens PA1 delta cel were grown on ammonium mineral salts with either methanol or succinate provided as the sole carbon and energy source. The supernatant was subsequently extracted with acidified ethyl acetate and analyzed by LC-MS.

2021-02-10 | MSV000086834 | MassIVE

Pichia pastoris Glucose/Methanol comparison

2015-08-31 | GSE67690 | GEO

Pichia angusta cells glucose- vs methanol-grown

2009-11-17 | GSE19036 | GEO

RNA-seq analysis of methanol-adapted Sporomusa ovata DSM-2662

Project description:Expression profile of wild-type S. ovata and methanol-adapted strain grown autotrophically with H2 as the source of electron.

2016-02-22 | GSE66194 | GEO

Genome-wide mapping of transcription start sites in a ∆set2 strain

Project description:Here we quantified the transcription start site usage in a WT strain (BY4741) and a ∆set2 strain associated with the appearence of cryptic transcription start sites.

2015-01-14 | GSE62735 | GEO

Pichia pastoris Glucose/Methanol comparison

Project description:Comparison of transcription profile of Pichia pastoris cells grown on Glucose medium with Pichia pastoris cells grown on Methanol/Glycerol medium, the fermentations were done in a chemostat. 2 color experiment in reference design. Pichia pastoris reference mix [mixed pool of Pichia pastoris cells sampled from various conditions including cells grown on glycerine, glucose and methanol, on full andminimal medium, in stationary and exponential growth phase, and in different stress states]

2015-08-31 | E-GEOD-67690 | biostudies-arrayexpress

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