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Metagenome-assembled genome: ERR1135178_bin.122_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14080441; SRA: ERS11683697
Organism
uncultured Prevotella sp.
cellular organisms; Bacteria; FCB group; Bacteroidota/Chlorobiota group; Bacteroidota; Bacteroidia; Bacteroidales; Prevotellaceae; Prevotella; environmental samples
Attributes
collection date2012-01-01
broad-scale environmental contextHost-associated
local-scale environmental contextMammals
environmental mediumDigestive system
geographic locationFrance
investigation typemetagenome-assembled genome
isolation sourcegut metagenome
project namePig is a main species for livestock and biomedicine. The pig genome sequence was recently reported. To boost research, we established a catalogue of the genes of the gut microbiome based on faecal samples of 287 pigs from France, Denmark and China. More than 7.6 million non-redundant genes representing 719 metagenomic species were identified by deep metagenome sequencing, highlighting more similarities with the human than with the mouse catalogue. The pig and human catalogues share only 12.6 and 9.3 % of their genes, respectively, but 70 and 95% of their functional pathways. The pig gut microbiota is influenced by gender, age and breed. Analysis of the prevalence of antibiotics resistance genes (ARGs) reflected antibiotics supplementation in each farm system, and revealed that non-antibiotics-fed animals still harbour ARGs. The pig catalogue creates a resource for whole metagenomics-based studies, highly valuable for research in biomedicine and for sustainable knowledge-based pig farming.
sample nameERR1135178_bin.122_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14080441
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:33:01Z
INSDC last update2023-01-03T00:33:01Z
INSDC statuspublic
Submitter IdERR1135178_bin.122_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaSPAdes version 3.10.139
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score97.57
completeness softwareCheckM
contamination score0.49
geographic location (latitude)16.20735
geographic location (longitude)-61.648144
metagenomic sourcegut metagenome
sample derived fromSAMEA3663005
scientific_nameuncultured Prevotella sp.
sequencing methodIllumina HiSeq 2000
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR1135178 of study ERP013165.

BioProject
PRJEB51895 Large-scale analysis of novel cellular microbes from the mammal gut biome
Retrieve all samples from this project

Submission
EBI; 2023-01-04
Accession:
SAMEA14080441
ID:
32558129

BioProject Nucleotide

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