Project description:Metagenome-assembled genome sequences (MAGs) were generated from two wastewater treatment systems in two German cities (Göttingen and Greifswald), based on metagenomes derived from hospital effluent, different wastewater treatment stages, and adjacent water bodies. The MAGs mainly originated from bacterial members of Proteobacteria, Bacteroidota, Firmicutes, "Candidatus Patescibacteria," Actinobacteriota, Chloroflexota, Desulfobacterota, and Verrucomicrobiota.

| S-EPMC8265224 | biostudies-literature

wastewater metagenome

Project description:Influence of wastewater treatment plant effluents on bacterial community composition and antibiotic resistance in the environment

| PRJNA189662 | ENA

Antibiotic Resistance Profile and Genomic Characteristics of Multidrug-Resistant Bacteria from the Sludge of a Pharmaceutical Wastewater Treatment Plant

Project description:Incomplete antibiotic removal in pharmaceutical wastewater treatment plants (PWWTPs) could lead to the development and spread of antibiotic-resistant bacteria (ARBs) and genes (ARGs) in the environment, posing a growing public health threat. In this study, two multiantibiotic-resistant bacteria, Ochrobactrum intermedium (N1) and Stenotrophomonas acidaminiphila (N2), were isolated from the sludge of a PWWTP in Guangzhou, China. The N1 strain was highly resistant to ampicillin, cefazolin, chloramphenicol, tetracycline, and norfloxacin, while the N2 strain exhibited high resistance to ampicillin, chloramphenicol, and cefazolin. Whole-genome sequencing revealed that N1 and N2 had genome sizes of 0.52 Mb and 0.37 Mb, respectively, and harbored 33 and 24 ARGs, respectively. The main resistance mechanism in the identified ARGs included efflux pumps, enzymatic degradation, and target bypass, with the N1 strain possessing more multidrug-resistant efflux pumps than the N2 strain (22 vs 12). This also accounts for the broader resistance spectrum of N1 than of N2 in antimicrobial susceptibility tests. Additionally, both genomes contain numerous mobile genetic elements (89 and 21 genes, respectively) and virulence factors (276 and 250 factors, respectively), suggesting their potential for horizontal transfer and pathogenicity. Overall, this research provides insights into the potential risks posed by ARBs in pharmaceutical wastewater and emphasizes the need for further studies on their impact and mitigation strategies.

2024-10-20 | E-MTAB-14497 | biostudies-arrayexpress

Metagenome Sequences of a Wastewater Treatment Plant Digester Sludge-Derived Enrichment Culture.

Project description:We sequenced the metagenome of a microbial community enriched under strictly anaerobic conditions from wastewater treatment plant-derived digester sludge. The metagenomic analysis of the enrichment revealed that Acetobacterium and methanogenic archaea belonged to the dominant prokaryotes, and genes encoding components of the Wood-Ljungdahl pathway were identified.

| S-EPMC7409856 | biostudies-literature

Reducing inherent biases introduced during DNA viral metagenome analyses of municipal wastewater.

Project description:Metagenomics is a powerful tool for characterizing viral composition within environmental samples, but sample and molecular processing steps can bias the estimation of viral community structure. The objective of this study is to understand the inherent variability introduced when conducting viral metagenomic analyses of wastewater and provide a bioinformatic strategy to accurately analyze sequences for viral community analyses. A standard approach using a combination of ultrafiltration, membrane filtration, and DNase treatment, and multiple displacement amplification (MDA) produced DNA preparations without any bacterial derived genes. Results showed recoveries in wastewater matrix ranged between 60-100%. A bias towards small single stranded DNA (ssDNA; polyomavirus) virus types vs larger double stranded DNA (dsDNA; adenovirus) viruses was also observed with a total estimated recovery of small circular viruses to be as much as 173-fold higher. Notably, ssDNA abundance decreased with sample dilution while large dsDNA genomes (e.g., Caudovirales) initially increased in abundance with dilution before gradually decreasing with further dilution in wastewater samples. The present study revealed the inherent biases associated with different components of viral metagenomic methods applied to wastewater. Overall, these results provide a well-characterized approach for effectively conducting viral metagenomics analysis of wastewater and reveal that dilution can effectively mitigate MDA bias.

| S-EPMC5882159 | biostudies-literature

Profiles of JARID1B target genes in MCF-7 cell line

Project description:Using ChIP-DSL technology from AVIVA SYSTEMS BIOLOGY to find out the targets of JARID1B on whole genome.

2010-11-10 | GSE25214 | GEO

Profiling the target genes for ZIP repressor in MCF-7

Project description:Using ChIP-DSL technology from Aviva Systems Biology to find out the whole genome targets for ZIP transcription repressor

2009-08-21 | GSE13905 | GEO