2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21057893
SRA accession
spire_mag_00718957
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
megahit 1.2.9
assembly software
default
binning parameters
metabat 2.12.1
binning software
human digestive system
broad-scale environmental context
EBI-EMG
broker name
2015-06-22
collection date
88.44
%
completeness score
checkm2 0.1.3
completeness software
0.12
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run SRR5575536 of study SRP107323.
description
stool
environmental medium
Luxembourg
geographic location (country and/or sea)
49.00000000
DD
geographic location (latitude)
6.00000000
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
human gut metagenome
isolation_source
human gut
local environmental context
human gut metagenome
metagenomic source
Phocaeicola vulgatus
organism
Differences in microbial colonization of the gut triggered by earliest exposure have been linked to adverse health effects later in life. At present, the transfer of microbiota from mother to infant, its role in early colonization and subsequent effects on the host remain unresolved because of the lack of data reflecting earliest microbial exposure. Here, we recruited 12 mother-neonate pairs, 4 neonates each born vaginally, by caesarean section and born by caesarean section and small for gestational age. We collected stool and a vaginal swab from mothers one hour prior to delivery, as well as stool from their respective neonates during the first 24 hours, and after 3 and 5 days in order to obtain whole metagenome random shotgun sequence data for a total of 51 samples. We additionally collected stool samples from neonates at days 28, 150 and 1 year after birth for 16S and 18S rRNA gene amplicon sequencing analyses.
project name
SAMN06909379
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina MiSeq
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00718957
title