GEO DataSets

(Submitter supplied) Purpose: Klebsiella oxytoca M5a1 (previously Klebsiella pneumonia M5a1) is a principle model organism for free-living biological nitrogen fixation. This strain has been used for decades in the characterisation of nitrogenase function and the genetic regulation of nitrogen fixation physiology. Currently it represents a key model for synthetic biology and biotechnology approaches. This project involves a multi-omics approach to modelling nitrogen physiology in Klebsiella oxytoca M5a1, in order to inform rational genetic engineering for improved nitrogen fixation activity. more...

Organism:

Klebsiella oxytoca

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29593

3 Samples

Download data: XLS

(Submitter supplied) A whole genome DNA microarray was used to undertake a global transcriptional analysis of nitrogen fixation and ammonium repression in Pseudomonas stutzeri A1501. The aim of this study was to identify the genes that are up-regulated under nitrogen fixation conditions and rapidly down-regulated as soon as 10 min after ammonia shock. The expression changed genes may be the candidate genes for the ammonia signal transmission or be involved in the nitrogen regulatory mechanism.

Organism:

Stutzerimonas stutzeri A1501

Type:

Expression profiling by array

Platform:

GPL4677

6 Samples

Download data: GPR

(Submitter supplied) A1501 NFI is a genomic island derived from Pseudomonas stutzeri A1501. To study the molecular interactions of the P. stutzeri nif genes with the E. coli genome during nitrogen fixation, the NIF of A1501 was transferred into E. coli and comparative transcriptomics analyses were performed between nitrogen fixation conditions and nitrogen excess conditions.

Organism:

Escherichia coli; Escherichia coli str. K-12 substr. DH10B

Type:

Expression profiling by array

Platform:

GPL3154

6 Samples

Download data: CEL

(Submitter supplied) The transcriptional differences found during stationary-phase ammonium accumulation show a strong contrast between the deregulated (nifL disrupted) and wild-type strain, and to what was reported for the wild-type strain under exponential growth related to key processes involved in driving the process of nitrogen fixation in A. vinelandii. These results further illuminate a number of additional genes associated with siderophore synthesis, molybdate transfer and electron transfer that are likely associated with biological nitrogen fixation.

Organism:

Azotobacter vinelandii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23257

15 Samples

Download data: TXT

(Submitter supplied) To address the question of how photosynthetic bacterium Rhodopseudomonas palustris differentially regulates gene expression of three nitrogenase isozymes (Mo, V, and Fe nitrogenases), we constructed Mo strain (Mo nitrogenase only strain), V strain (V nitrogenase only strain), and Fe strain (Fe nitrogenase only strain), and analyzed the whole genome transcriptome profiles of each mutant and wild-type cells grown under nitrogen-fixing conditions. more...

Organism:

Rhodopseudomonas palustris

Type:

Expression profiling by array

Platform:

GPL2697

50 Samples

Download data: XLS