uncultured Muribaculaceae bacterium
MAG_BA_Muribaculaceae_24: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.
16S recovery software
barrnap (version 0.9)
16s recovered
No
23s recovered
no
5s recovered
no
ENA first public
2024-03-27
GC content
50.5
INSDC center name
CAU
INSDC status
public
MAG coverage software
Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)
Submitter Id
ena-SAMPLE-TAB-22-03-2024-10:43:23:862-115595
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes hybrid (SPAdes version 3.13.1)
binning parameters
coverage depth and k-mer binning. Scaffolds were filtered for min. length 1000bp and min. coverage 7.7815. Quality-controlled metagenomic reads were mapped back to the filtered scaffolds with Bowtie (version 2.2.5); the insert size was 0–1000 bp in very sensitive, non-deterministic, “fr” stranded mode with end-to-end alignment. Non-unique mappings and unaligned reads were discarded. The scaffold coverage depth was determined with the jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1). Scaffolds were broken into 10 kbp chunks for CONCOCT.
binning software
MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)
broad-scale environmental context
host associated gut microbiome
collection date
2017-02-14
completeness score
98.3
completeness software
CheckM (version 1.1.2)
contamination score
0.4
environmental medium
host associated gut microbiome
geographic location (country and/or sea)
Germany
geographic location (latitude)
50.9
geographic location (longitude)
11.6
isolation_source
mouse colon contents
local environmental context
host associated gut microbiome
metagenomic source
mouse gut metagenome
number of standard tRNAs extracted
19
project name
Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice
sample derived from
ERS18444878,ERS18444879,ERS18444880,ERS18444881,ERS18444882,ERS18444883,ERS18444884,ERS18444885,ERS18444886,ERS18444887,ERS18444888,ERS18444889,ERS18444890,ERS18444891,ERS18444892,ERS18444893,ERS18444894,ERS18444895,ERS18444896,ERS18444897,ERS18444898,ERS18444899,ERS18444900,ERS18444901,ERS18444902,ERS18444903,ERS18444904,ERS18444905,ERS18444906,ERS18444907,ERS18444908,ERS18444909,ERS18444910,ERS18444911,ERS18444912,ERS18444913,ERS18444914,ERS18444915,ERS18444916,ERS18444917,ERS18444918,ERS18444919,ERS18444920,ERS18444921,ERS18444922,ERS18444923,ERS18444924,ERS18444925,ERS18444926,ERS18444927,ERS18444928,ERS18444929,ERS18590020,ERS18590021,ERS18590022,ERS18590023,ERS18590024,ERS18590025,ERS18590026,ERS18590027
sample name
ena-SAMPLE-TAB-22-03-2024-10:43:23:862-115595
scientific_name
uncultured Muribaculaceae bacterium
tRNA extraction software
tRNAscan-SE (version 2.0.9)
taxonomic classification
GTDB-Tk, r214
taxonomic identity marker
multi-marker approach