ENA-FIRST-PUBLIC
2022-07-28
ENA-LAST-UPDATE
2022-07-28
External Id
SAMEA110426445
INSDC center alias
EMG
INSDC center name
EMG
INSDC first public
2022-07-28T16:25:47Z
INSDC last update
2022-07-28T16:25:47Z
INSDC status
public
Submitter Id
SRR15725432_bin.17_metaWRAP_v1.3_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes v3.15.3
binning parameters
MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.
binning software
metaWRAP v1.3
broad-scale environmental context
Pig digestive system
broker name
EMG broker account, EMBL-EBI
collection date
not provided
completeness score
96.31
completeness software
CheckM
contamination score
0.0
environmental medium
Feces
geographic location (country and/or sea)
China
geographic location (latitude)
29.12
geographic location (longitude)
119.64
investigation type
metagenome-assembled genome
isolation_source
pig gut metagenome
local environmental context
Intestine
metagenomic source
pig gut metagenome
project name
Lipid 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 derived from
SAMN21220122
sample name
SRR15725432_bin.17_metaWRAP_v1.3_MAG
sequencing method
Illumina HiSeq 2500
taxonomic classification
The 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 marker
multi-marker approach