uncultured Parasutterella sp.
MAG_BA_Parasutterella_01: 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.
assembly software
metaSPAdes hybrid (SPAdes version 3.13.1)
broad-scale environmental context
host associated gut microbiome
collection date
2017-02-14
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
geographic location (longitude)
11.6
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.
contamination score
3.1
tRNA extraction software
tRNAscan-SE (version 2.0.9)
number of standard tRNAs extracted
21
GC content
49.2
taxonomic classification
GTDB-Tk, r214
16S recovery software
barrnap (version 0.9)
completeness software
CheckM (version 1.1.2)
geographic location (country and/or sea)
Germany
23s recovered
no
5s recovered
no
binning software
MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)
organism
uncultured Parasutterella sp.
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
taxonomic identity marker
multi-marker approach
completeness score
98.8
environmental medium
host associated gut microbiome
geographic location (latitude)
50.9
scientific_name
uncultured Parasutterella sp.
local environmental context
host associated gut microbiome
MAG coverage software
Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)
metagenomic source
mouse gut metagenome
project name
Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice
16s recovered
Yes
isolation_source
mouse colon contents