2025-11-28
ENA first public
ERC000047
ENA-CHECKLIST
EMG
INSDC center name
public
INSDC status
ERS28161372
SRA accession
ERR2193701_binner23_Refined_1
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
metaSPADES_v3.15.5
assembly software
default
binning parameters
MGnify-genomes-generation-pipeline_v1.0.0
binning software
poultry
broad-scale environmental context
EBI-EMG
broker name
2016-01-04
collection date
75.68
%
completeness score
CheckM2_v1.0.1
completeness software
1.81
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic run ERR2193701 of study ERP105105.
description
chicken gut
environmental medium
India
geographic location (country and/or sea)
22.98041000
DD
geographic location (latitude)
72.72283000
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
chicken gut metagenome
isolation_source
chicken
local environmental context
chicken gut metagenome
metagenomic source
uncultured Bacteroides sp.
organism
There is rich genetic diversity in India’s native poultry breeds, and the hybrid exotic lines often used in Indian commercial production are distinct from the majority of poultry reared in the UK. The prevalence and dynamics of gastrointestinal infection at farm-level has a direct bearing on economic risk to individual farmers and contributes to overall global concerns of food security and food safety.Changes to diet, use of vaccines or antimicrobials, and flock-level interventions such as ‘thinning’, can have profound effects on intestinal health and the evolution and spread of disease-causing microbes and may be amplified by genetic variation in host and microbe populations. Whilst major advances in genomics and genotyping of commercial poultry lines is facilitating the identification of loci linked to susceptibility or resistance, the impact of host and pathogen diversity on disease and production outcomes remains largely unexplored.
project name
SAMEA104378461
sample derived from
uncultured Bacteroides sp.
scientific_name
Illumina MiSeq
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: ERR2193701_binner23_Refined_1
title