Project description:A functional microarray targeting 24 genes involved in chlorinated solvent biodegradation pathways has been developed and used to monitor the gene diversity present in four trichloroethylene (TCE) contaminated sites under ERD (enhanced reductive dechlorination) treatment. The microarray format provided by NimbleGen and used in this study is 12x135K. 2 M-BM-5g of labelled gDNA from 30 groundwater samples were hybridized on the microarrays. A 30-chip study was performed, each chip corresponding to hybridization with 2 M-BM-5g of labelled gDNA retrieved from a monitoring well from one of the four contaminated sites. Each probe (760nt) on the microarray was synthesized in eight replicates, and a total of 5,707 random probes was used to determine the background noise. Groundwater samples were collected from four contaminated sites (B, F, G and H), four monitoring wells per site (P1, P2, P3 and P4). P1: well located upstream to the contamination source. P2: well in the contamination source. P3 and P4: wells located downstream to the contamination source. For site B, the monitoring of ERD demonstration was performed through a total of 5 sampling campaigns: C1 (T=0), C2 (T=104 days), C3 (T=231 days), C4 (T=291 days) and C5 (T=378 days). For the three other sites (F, G and H), only one sampling campaign was performed after the treatment.

2012-04-02 | E-GEOD-28606 | biostudies-arrayexpress

biocathode bacteria

Project description:biocathode bacteria Raw sequence reads

| PRJNA473235 | ENA

biocathode metagenome

Project description:biocathode metagenome Raw sequence reads

| PRJNA573801 | ENA

biocathode metagenome

Project description:biocathode metagenome Raw sequence reads

| PRJNA553992 | ENA

biocathode metagenome

Project description:metatranscriptome analysis of thermophilic electromethanogenic biocathode

| PRJDB8993 | ENA

biocathode metagenome

Project description:metagenome analysis of thermophilic electromethanogenic biocathode

| PRJDB8994 | ENA

biocathode metagenome

Project description:Acidophilic autotrophic biocathode Raw sequence reads

| PRJNA281262 | ENA

Immunotoxicity Evaluation of Trihalophenolic Disinfection By-Products in Mouse and Human Mononuclear Macrophage Systems: The Role of RNA Epitranscriptomic Modification in Mammalian Immunity

Project description:Purpose: Detect transcriptome-wide mapping of m6A modifications of mouse macrophage RAW264.7 cells by MeRIP-seq after 24 h-treatment with 100 μM 2,4,6-trichlorophenol (TCP), 100 μM 2,4,6-tribromophenol (TBP) and 100 μM 2,4,6-triiodophenol (TIP). Methods: Total RNA was extracted using TRIzol Reagent. Poly (A) RNA was purified from 50 μg total RNA using Dynabeads. Then the poly(A) RNA was fragmented into small pieces using Magnesium RNA Fragmentation Module.The fragmented RNA was incubated with m6A-specific antibody. The desired m6A-enriched RNA eluate was used to construct cDNA library in parallel with input control. Conclusion: Our study revealed the difference of gene expression at transcriptional level and m6A-methylated RNA among TCP, TBP and TIP treated RAW264.7 cells by RNA-seq and MeRIP-seq technologies.

2023-01-20 | GSE223045 | GEO

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