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Methylorubrum extorquens DM4

ABSTRACT: Genome-wide identification of genes essential for growth with dichloromethane or methanol in Methylorubrum extorquens DM4

PROVIDER: PRJNA940386 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23693677_1.fastq.gz	Fastqsanger.gz
	SRR23693677_2.fastq.gz	Fastqsanger.gz
	SRR23693678_1.fastq.gz	Fastqsanger.gz
	SRR23693678_2.fastq.gz	Fastqsanger.gz

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Differential analysis of Methylobacterium extorquens DM4 in methanol versus dichloromethane condition

Project description:Differential analysis of Methylobacterium extorquens DM4 in methanol versus dichloromethane condition using shotgun label free MS1 quantification approach

2018-04-25 | PXD006838 | Pride

Methylorubrum extorquens strain:DM4 polA

Project description:Genome sequencing of Methylorubrum extorquens DM4 polA strains that acquired the ability to grow with dichloromethane after experimental evolution.

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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

The endosymbiont Methylorubrum extorquens DSM13060 reprograms development and stress responses of Scots pine seedlings

Project description:The meristem-associated endosymbiont M. extorquens DSM13060 significantly increases needle and root growth of Scots pine (Pinus sylvestris L.) seedlings without producing plant hormones, but by aggregating around host nuclei. Here we studied gene expression of the pine host induced by M. extorquens DSM13060 infection. We selected the time point of 90 days post-inoculation for our analysis based, because at this point, Methylorubrum extorquens DSM13060 has systemically colonized the pine seedlings, being found throughout tissues of roots and shoots.

2021-04-15 | GSE170995 | GEO

Methylorubrum extorquens AM1

Project description:Transition from succinate to methanol growth in Methylobacterium Extorquens AM1

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Methylorubrum extorquens PA1 and Methylorubrum populi BJ001 data

Project description:.raw and .mzML files for data from Methylorubrum extorquens PA1 and Methylorubrum populi BJ001.

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Transcriptomic elucidation of itaconic acid production by Methylorubrum extorquens AM1 and its phaR mutant derivative

Project description:Methylorubrum extorquens AM1 is engineered to produce itaconic acid by heterologous expression of cis-aconitic acid decarboxylase. Mutation was also performed on phaR in Methylorubrum extorquens AM1, which regulate poly-beta-hydroxybutyrate accumulation, in attempt to increase carbon flux toward itaconic acid production. However, in our case, itaconic acid production by phaR mutant strain was not higher than that of the wildtype. Transcriptomic analysis was utilized in order to examine the cause for this phenomenon. RNA-seq analysis revealed that phaR mutation in the itaconic acid-producing strain might result in a complex regulatory rewiring at the gene expression level, which could cause a reduced resource flux toward ITA production. Also, RNA profiling gave a hint at the broad regulatory role of PhaR.

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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

Methylorubrum extorquens AM1

Project description:Methylorubrum extorquens AM1 Genome sequencing and assembly

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Hyperaccumulation of gadolinium by Methylorubrum extorquens AM1 reveals impacts of lanthanides on cellular processes beyond methylotrophy

Project description:We report a genetic variant of Methylorubrum extorquens AM1 that hyperaccumulates the heavy lanthanide gadolinium. Using RNA-seq transcriptomics we identified wide-spread metabolic and physiological changes in this strain and experimentally validate several of them, including increased gadolinium transport and storage in an intracellular compartment we name the lanthasome.

2022-01-17 | GSE193171 | GEO

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