GEO DataSets

(Submitter supplied) 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.

Organism:

Methylorubrum extorquens AM1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31182

8 Samples

Download data: TXT

(Submitter supplied) We report gene expression profiles for cultures grown in minimal salts medium with 125 mM methanol with and without addition of 2 uM lanthanum chloride

Organism:

Methylorubrum extorquens AM1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26093

5 Samples

Download data: TXT

(Submitter supplied) 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. more...

Organism:

Methylorubrum extorquens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25388

9 Samples

Download data: TXT

(Submitter supplied) Many bacteria secrete metallophores, low-molecular weight organic compounds that bind ions with high selectivity and affinity, in order to access essential metals from the environment. The biosynthetic machinery to produce metallophores as well as their structures have been elucidated for iron, zinc, nickel, molybdenum, and copper specific molecules. No lanthanide-specific metallophore has been discovered despite the knowledge that lanthanide metals (Ln) have recently been revealed to be essential cofactors for certain alcohol dehydrogenases across a diverse range of phyla. more...

Organism:

Methylorubrum extorquens AM1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33789

9 Samples

Download data: CSV

(Submitter supplied) In order for bacteria to thrive, they must be well-adapted to their environmental niche, which may involve specialized metabolism, timely adaptation to shifting environments, and/or the ability to mitigate numerous stressors. These attributes are highly dependent on cellular machinery that can sense both the external and intracellular environment. Methylorubrum extorquens is an extensively studied facultative methylotroph, an organism that can use single-carbon compounds as their sole source of carbon and energy. more...

Organism:

Methylorubrum extorquens PA1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29261

6 Samples

Download data: XLSX

(Submitter supplied) Several of the metabolic enzymes in methanotrophic bacteria rely on metals for both their expression and their catalysis. The MxaFI methanol dehydrogenase enzyme complex uses calcium as a cofactor to oxidize methanol, while the alternative methanol dehydrogenase XoxF uses lanthanide metals such as lanthanum and cerium for the same function. Lanthanide metals, abundant in the earth’s crust and widely used in electronic devices, strongly repress the transcription of mxaF yet activate the transcription of xoxF. more...

Organism:

Methylotuvimicrobium buryatense

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26131

8 Samples

Download data: TXT

(Submitter supplied) The potency and indiscriminate nature of formaldehyde reactivity upon biological molecules make it a universal stressor. However, some organisms such as Methylorubrum extorquens possess means to rapidly and effectively mitigate formaldehyde-induced damage. EfgA is a recently identified formaldehyde sensor predicted to halt translation in response to elevated formaldehyde as a means to protect cells. more...

Organism:

Methylorubrum extorquens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25388 GPL29545

81 Samples

Download data: TXT