text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:850-115541

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Gastranaerophilales_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

characteristic: sample derived from

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


status: PUBLIC

text: barrnap (version 0.9)

tag: attribute

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:850-115542

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Helicobacter_ganmani_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: Helicobacter ganmani

characteristic: organism

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

characteristic: project name

text: 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

text: Helicobacter ganmani

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:851-115543

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Helicobacter_hepaticus_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Helicobacter hepaticus

characteristic: sample derived from

text: Helicobacter hepaticus

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:851-115544

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Helicobacter_typhlonius_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: Helicobacter typhlonius

characteristic: organism

characteristic: project name

text: Helicobacter typhlonius

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:851-115545

characteristic: Submitter Id

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Desulfovibrio_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Desulfovibrio sp.

characteristic: sample derived from

text: uncultured Desulfovibrio sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:851-115546

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Mucispirillum_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Mucispirillum sp.

characteristic: organism

characteristic: project name

text: uncultured Mucispirillum sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:852-115547

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Turicimonas_muris_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Turicimonas muris

characteristic: sample derived from

text: Turicimonas muris

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:852-115549

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alphaproteobacteria_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alphaproteobacteria bacterium

characteristic: organism

characteristic: project name

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:852-115550

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alphaproteobacteria_02: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

text: 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

characteristic: sample derived from

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:852-115551

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alphaproteobacteria_03: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

characteristic: organism

characteristic: project name

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:853-115552

characteristic: Submitter Id

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alphaproteobacteria_04: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

characteristic: sample derived from

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:853-115553

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Enterousia_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

characteristic: organism

characteristic: project name

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:853-115554

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Enterousia_02: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

characteristic: sample derived from

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:853-115555

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Enterousia_03: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alphaproteobacteria bacterium

characteristic: organism

characteristic: project name

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:854-115556

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Akkermansia_muciniphila_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Akkermansia muciniphila

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

text: 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

characteristic: sample derived from

text: Akkermansia muciniphila

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:854-115557

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Cryptobacteroides_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Bacteroidales bacterium

characteristic: organism

characteristic: project name

text: uncultured Bacteroidales bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:854-115558

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Cryptobacteroides_02: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Bacteroidales bacterium

characteristic: sample derived from

text: uncultured Bacteroidales bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:854-115559

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Avirikenella_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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Rikenellaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Rikenellaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:854-115560

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alistipes_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Alistipes sp.

characteristic: sample derived from

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:855-115561

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alistipes_02: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alistipes sp.

characteristic: organism

characteristic: project name

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:855-115562

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alistipes_03: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Alistipes sp.

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

text: 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

characteristic: sample derived from

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:855-115563

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alistipes_04: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alistipes sp.

characteristic: organism

characteristic: project name

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:855-115564

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alistipes_05: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Alistipes sp.

characteristic: sample derived from

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:856-115565

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alistipes_06: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alistipes sp.

characteristic: organism

characteristic: project name

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:856-115566

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alistipes_07: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Alistipes sp.

characteristic: sample derived from

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:856-115567

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alistipes_08: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alistipes sp.

characteristic: organism

characteristic: project name

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:856-115568

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Alistipes_09: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Alistipes sp.

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

characteristic: sample derived from

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:856-115569

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alistipes_10: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Alistipes sp.

characteristic: organism

characteristic: project name

text: 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

text: uncultured Alistipes sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:857-115570

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Odoribacter_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Odoribacter sp.

characteristic: sample derived from

text: uncultured Odoribacter sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:857-115571

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Odoribacter_02: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Odoribacter sp.

characteristic: organism

characteristic: project name

text: uncultured Odoribacter sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:857-115572

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:857-115573

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_02: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:857-115574

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_03: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:858-115575

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_04: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: 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

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:858-115576

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_05: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:858-115577

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_06: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:858-115578

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_07: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:859-115579

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_08: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:859-115580

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_09: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:859-115581

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_10: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:859-115582

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_11: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

text: 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

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:859-115583

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_12: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:860-115584

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_13: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Bowtie (version 2.2.5) with jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1)

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:860-115585

text: MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), MaxBin (version 2.2.4), DASTool (version 1.1.2)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_14: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:860-115586

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_15: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:860-115587

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_16: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Baseline aging (BA); Aging-associated loss of metabolic host-microbiome-interactions in mice

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:861-115588

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_17: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:861-115589

text: metaSPAdes hybrid (SPAdes version 3.13.1)

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_18: 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.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: 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

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:861-115590

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: 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.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_19: 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.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker