GEO DataSets

(Submitter supplied) A shotgun metagenome microarray was created and used to investigate gene transcription during vinyl chloride (VC) dechlorination by a microbial enrichment culture called KB1. The array was constructed by spotting genomic fragments amplified from short-insert libraries of KB1 metagenomic DNA. Subsequently, the microarrays were interrogated with RNA extracted from KB1 during VC dechlorination (VC+methanol), and in the absence of VC (methanol-only). more...

Organism:

dechlorinating enrichment culture KB-1

Type:

Expression profiling by array

Platform:

GPL9981

6 Samples

Download data: GPR

(Submitter supplied) Microbial reductive dechlorination of trichloroethene (TCE) in groundwater often results in the accumulation of dichloroethenes (DCEs). Dehalococcoides mccartyi (Dhc) are the only known bacteria capable of dechlorination beyond DCE to non-toxic ethene. In this study, two newly isolated Dhc strains (11a and 11a5) with dissimilar functional abilities are described. Strain 11a reductively dechlorinates TCE, 1,1-DCE, cis-DCE, trans-DCE, and vinyl chloride (VC) to ethene, while strain 11a5 dechlorinates TCE and all three DCE isomers only to VC. more...

Organism:

Dehalococcoides mccartyi BAV1; Dehalococcoides mccartyi CBDB1; Dehalococcoides mccartyi VS; Dehalococcoides; Dehalococcoides mccartyi 195

Type:

Genome variation profiling by array

Platform:

GPL10838

6 Samples

Download data: CEL, CHP

(Submitter supplied) The aim of this study is to obtain a systems level understanding of the interactions between Dehalococcoides and corrinoid-supplying microorganisms by analyzing community structures and functional compositions, activities and dynamics in trichloroethene (TCE)-dechlorinating enrichments. Metagenomes and metatranscriptomes of the dechlorinating enrichments with and without exogenous cobalamin were compared. more...

Organism:

Dehalococcoides mccartyi; Dehalococcoides mccartyi BAV1; Dehalococcoides mccartyi CBDB1; Dehalococcoides mccartyi 195; Dehalococcoides mccartyi VS

Type:

Expression profiling by array

Platform:

GPL10838

12 Samples

Download data: CEL

(Submitter supplied) The chlorinated ethene-respiring bacteria of the genus Dehalococcoides are important for bioremediation. A microarray targeting genes from all available sequenced genomes of the Dehalococcoides genus was designed with 4305 probe sets to target 98.6% of all genes from strains 195, CBDB1, BAV1, and VS. The microarrays were validated with genomic DNA (gDNA) of strains 195 and BAV1 and satisfactory analytical reproducibility, quantitative response and gene detection accuracy were obtained. more...

Organism:

Dehalococcoides; Anaeromyxobacter dehalogenans 2CP-C; Dehalococcoides mccartyi VS; Dehalococcoides mccartyi 195; Dehalococcoides sp. ANAS2; Dehalococcoides sp. ANAS1; Dehalococcoides mccartyi BAV1; Dehalococcoides mccartyi CBDB1

Type:

Genome variation profiling by array

Platform:

GPL10838

24 Samples

Download data: CEL, CHP

(Submitter supplied) Transcriptional profiling of Dehalococcoides mccartyi in the commercially available KB-1™ consortia comparing control standard TCE batch fed culture to treatments either introducing the culture to a standard batch feeding, stressful condition, or continous feed rate.

Organism:

Dehalococcoides mccartyi

Type:

Expression profiling by array

Platform:

GPL16261

36 Samples

Download data: TXT

(Submitter supplied) Tetrachloroethene (PCE) and trichloroethene (TCE) are prevalent groundwater contaminants that can be completely reductively dehalogenated by Dehalococcoides organisms. A Dehalococcoides-containing microbial consortium (ANAS) with the ability to degrade TCE to ethene, an innocuous end-product, was previously enriched from contaminated soil. A whole-genome photolithographic microarray was developed based on the genome of Dehalococcoides ethenogenes 195 (strain 195). more...

Organism:

Dehalobacter restrictus; Dehalococcoides; Dehalococcoides mccartyi 195

Type:

Genome variation profiling by array

Platform:

GPL6116

9 Samples

Download data: CEL

(Submitter supplied) Dehalococcoides bacteria can reductively dehalogenate a wide range of halogenated organic pollutants. In this study, DNA microarrays were applied to monitor dynamic changes in the transcriptome as Dehalococcoides ethenogenes strain 195 transitioned from exponential growth into the stationary phase. In total, 415 non-redundant genes were identified as differentially expressed. As expected, genes involved with translation and energy metabolism were down-regulated while genes involved with general stress response, transcription, and signal transduction were up-regulated. more...

Organism:

Dehalococcoides mccartyi 195

Type:

Expression profiling by array

Platform:

GPL6336

15 Samples

Download data: CEL