Metagenome-assembled genome: ERP122455_co2_152
uncultured Christensenella sp.
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs ERR5322706,ERR5325469 of study ERP122455.
ENA first public
2024-12-11
INSDC center name
CMR
INSDC status
public
Submitter Id
ERP122455_co2_152
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
MetaBAT;2.15;default
broad-scale environmental context
engineered
collection date
2017-08-01
completeness score
93.82
completeness software
CheckM2;1.0.2;default
contamination score
1.23
environmental medium
engineered
geographic location (country and/or sea)
United Kingdom
geographic location (latitude)
52.83877326
geographic location (longitude)
-1.24955258
investigation type
metagenome-assembled genome
isolation_source
metagenome
local environmental context
metagenome
metagenomic source
metagenome
project name
Our vision is to establish a strategic research programme in antimicrobial resistance (AMR) in waste from agricultural farm environments. Our aim is to quantify and mitigate the risks of emergence of resistant pathogens and AMR gene reservoirs associated with mixing antimicrobials with waste matter in these environments.The project is focussed on the University of Nottingham's (UoN) dairy and arable farm, which is typical of high performance UK dairy production, with ~200 high yielding cows. Slurry is stored in a 3M L slurry tank and subsequently spread on surrounding fields. We hypothesise that conditions in the slurry tank environment drive the evolution and acquisition of antimicrobial resistance, and the slurry acts as a reservoir for AMR that is regularly distributed into the environmentThe project consists of six integrated Research Questions:RQ1: What are the levels and nature of antimicrobial and virulence genes present in the slurry tank, their prevalence, carriage, and bacterial hosts?RQ2: What are the chemical agents in the tank? What is their persistence?RQ3: To what extent is resistance maintained after slurry application to soil?RQ4: How can we elicit culturally embedded ways in which scientists and stakeholders know AMR risks? How can we use narrative and visual methods of engaging across these ways of knowing to develop resources for deliberation on AMR risk management?RQ5: To what extent can we reduce resistance profiles through changes in slurry tank composition?RQ6: Can we quantify the risk of emergence of AMR pathogens and what factors are predicted to control this risk best?
sample derived from
SAMEA8023932
sample name
ERP122455_co2_152
scientific_name
uncultured Christensenella sp.
sequencing method
Illumina NovaSeq 6000
taxonomic identity marker
multi-marker approach