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Metagenome-assembled genome: SRR15725434_bin.14_metaWRAP_v1.3_MAG

Identifiers
BioSample: SAMEA110426460; SRA: ERS12524386
Organism
uncultured Clostridia bacterium
cellular organisms; Bacteria; Bacillati; Bacillota; Clostridia; environmental samples
Attributes
broad-scale environmental contextPig digestive system
collection datenot provided
environmental mediumFeces
geographic locationChina
investigation typemetagenome-assembled genome
isolation sourcepig gut metagenome
project nameLipid accumulation and high oxidative stress has become a serious health and economic problem in pig production. Fatness traits are very important in pig production since they are closely related to meat quality. Gut microbiome is generally recognized as a factor in fat deposition. However, the linkage of gut microbiota with fat accumulation in pigs remains elusive. To investigate the association among gut microbiome, lipogenic characteristics, and oxidative stress in Jinhua pigs, we selected 5 high-fat pigs and 5 low-fat pigs from 60 250-day-old Jinhua pigs in the present study and collected colon contents for metagenomic analysis, serum samples for the oxidative stress assay, and liver and abdominal fat tissues for RT-qPCR analysis.Collectively, this study would give a deep insight into how gut microbiome influence fat deposition in Jinhua pigs and would give a hint for improving growth performance and fatness traits by manipulating gut microbiome.
sample nameSRR15725434_bin.14_metaWRAP_v1.3_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2022-07-28
ENA-LAST-UPDATE2022-07-28
External IdSAMEA110426460
INSDC center aliasEMG
INSDC center nameEMG
INSDC first public2022-07-28T16:25:47Z
INSDC last update2022-07-28T16:25:47Z
INSDC statuspublic
Submitter IdSRR15725434_bin.14_metaWRAP_v1.3_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaSPAdes v3.15.3
binning parametersMaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.
binning softwaremetaWRAP v1.3
broker nameEMG broker account, EMBL-EBI
completeness score75.74
completeness softwareCheckM
contamination score0.0
geographic location (latitude)29.12
geographic location (longitude)119.64
local environmental contextIntestine
metagenomic sourcepig gut metagenome
sample derived fromSAMN21220120
sequencing methodIllumina HiSeq 2500
taxonomic classificationThe taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR15725434 of study SRP335768.

BioProject
PRJEB53141
Retrieve all samples from this project

Submission
EBI; 2022-07-29
Accession:
SAMEA110426460
ID:
30039813

BioProject Nucleotide

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