Metagenome-assembled genome: SRP300315_co1_33
uncultured Janibacter sp.
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs SRR13355620,SRR13355622 of study SRP300315.
ENA first public
2024-12-11
INSDC center name
CMR
INSDC status
public
Submitter Id
SRP300315_co1_33
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes;3.15.4;default
binning parameters
coverage and kmer
binning software
MetaBAT2;2.15;default
broad-scale environmental context
aquatic
collection date
2018-02-15
completeness score
81.98
completeness software
CheckM2;1.0.2;default
contamination score
5.81
environmental medium
aquatic
geographic location (country and/or sea)
Cyprus
geographic location (latitude)
35.150243
geographic location (longitude)
33.391634
investigation type
metagenome-assembled genome
isolation_source
wastewater metagenome
local environmental context
wastewater biome
metagenomic source
wastewater metagenome
project name
Antibiotic resistance is an emerging global issue of utmost importance. Wastewater treatment plants are considered evolutionary hotspots for microbial multi-drug resistance of strains with known pathogenic potential, gradually depriving the arsenal of chemotherapeutic weapons. Membrane bioreactors (MBR) are good alternatives to conventional activated sludge (CAS) systems in reducing the load of antibiotic resistance genes (ARGs) and pathogens in treated effluents. So far, limited information is available regarding the removal of pathogens and ARGs, based mainly on bench-scale experimental setups. To this end, the performance of two full-scale urban wastewater treatment plants (UWTPs), a membrane bioreactor (MBR) and a conventional activated sludge (CAS) system, were investigated for the removal and ecological correlations of putative pathogenic bacteria, antibiotic resistance genes (ARGs), biocide resistance genes (BRGs) and mobile genetic elements (MGEs), using a shotgun metagenomic approach. Total prokaryotic, eukaryotic and viral marker genes in the influent and effluent of the two full-scale systems were also analyzed. Vertical (along the treatment line) and horizontal (between UWTPs) comparisons determined the efficiency of the two systems. Correlation tests revealed links between identified putative pathogens and: (i) ARGs/BRGs/MGEs, denoting associations of clinical importance and inferring potential roles of MGEs in pathogen dispersal (ii) bacteriophages/protists/ predatory bacteria defining specific and significant predator-prey interactions, for the homeostasis of the engineered systems. A strong decline in the abundance of pathogen-containing taxa and ARGs was observed in the MBR-treated effluents compared with the CAS-treated ones. MBR treatment favored ARGs associated with the commonly found in urban wastewater triclosan or antimicrobials of natural occurrence like streptothricin. On the other hand, CAS effluents contained a diverse set of ARGs associated with antibiotics of clinical importance. The conducted correlation tests showed that: (i) opportunistic pathogens like Clostridia and Nocardia may be developing resistance against first-line treatments in the tested environments and (ii) that bacteriophages play an important role in controlling bacterial populations in such systems and thus may be considered as a natural mechanism for pathogen-specific removal in UWTPs. Overall, our findings reinforce the capacity of MBR systems of retaining pathogenic loads, hence reducing the potential health risks associated with the release or reuse of treated wastewaters.
sample derived from
SAMN17167484,SAMN17167482
sample name
SRP300315_co1_33
scientific_name
uncultured Janibacter sp.
sequencing method
Illumina HiSeq 2500
taxonomic identity marker
multi-marker approach