text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

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-22-03-2024-10:43:23:839-115492

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_Ruminiclostridium_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 Oscillospiraceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Oscillospiraceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


status: PUBLIC

text: barrnap (version 0.9)

tag: attribute

characteristic: 16S recovery software

text: Yes

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-22-03-2024-10:43:23:839-115493

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

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

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_Enterenecus_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

unit: DD

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Oscillospiraceae bacterium

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 Oscillospiraceae 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-22-03-2024-10:43:23:840-115494

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Oscillospiraceae_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 Oscillospiraceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Oscillospiraceae 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-22-03-2024-10:43:23:840-115495

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_Pelethomonas_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 Oscillospiraceae bacterium

characteristic: sample derived from

text: uncultured Oscillospiraceae 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-22-03-2024-10:43:23:840-115496

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Pelethomonas_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 Oscillospiraceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Oscillospiraceae 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-22-03-2024-10:43:23:840-115497

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_Pelethomonas_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 Oscillospiraceae bacterium

characteristic: sample derived from

text: uncultured Oscillospiraceae 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: 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-22-03-2024-10:43:23:840-115498

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_Butyricicoccus_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 Butyricicoccus sp.

characteristic: organism

characteristic: project name

text: uncultured Butyricicoccus 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-22-03-2024-10:43:23:841-115499

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_Butyricicoccaceae_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 Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:841-115500

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

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.

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_Clostridia_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 Clostridia bacterium

characteristic: organism

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

characteristic: project name

text: uncultured Clostridia 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: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:841-115501

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_Gallimonas_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 Clostridia 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 Clostridia 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: 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-22-03-2024-10:43:23:841-115502

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Gallimonas_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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:842-115503

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

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_Coproplasma_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 Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:842-115504

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Coproplasma_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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:842-115505

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_Coproplasma_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 Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:842-115506

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

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.

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Coproplasma_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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:842-115507

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

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

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_Coproplasma_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 Clostridia bacterium

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

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:843-115508

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Coproplasma_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 Clostridia 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 Clostridia 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-22-03-2024-10:43:23:843-115509

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

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_Christensenellales_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 Clostridia bacterium

characteristic: sample derived from

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

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:843-115510

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_Anaerocaecibacter_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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:843-115511

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_Anaerocaecibacter_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 Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:843-115512

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.

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Pumilibacteraceae_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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:844-115513

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

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

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_Fimimonas_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 Clostridia bacterium

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

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:844-115514

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Fimimonas_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 Clostridia 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 Clostridia 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: 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-22-03-2024-10:43:23:844-115515

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

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_Christensenellales_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 Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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: 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-22-03-2024-10:43:23:844-115516

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Christensenellales_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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:845-115517

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_Christensenellales_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

text: uncultured Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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-22-03-2024-10:43:23:845-115518

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.

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Christensenellales_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.

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 Clostridia bacterium

characteristic: organism

characteristic: project name

text: uncultured Clostridia 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

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:845-115519

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

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

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_Christensenellales_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.

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 Clostridia bacterium

characteristic: sample derived from

text: uncultured Clostridia 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: 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-22-03-2024-10:43:23:845-115520

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Christensenellales_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.

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 Clostridia bacterium

characteristic: organism

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

characteristic: project name

text: uncultured Clostridia 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-22-03-2024-10:43:23:845-115521

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_Avidehalobacter_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: Candidatus Avidehalobacter sp.

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: Candidatus Avidehalobacter 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-22-03-2024-10:43:23:846-115522

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_Lactobacillus_johnsonii_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: Lactobacillus johnsonii

characteristic: organism

characteristic: project name

text: Lactobacillus johnsonii

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-22-03-2024-10:43:23:846-115523

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_Lactobacillus_intestinalis_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: Lactobacillus intestinalis

characteristic: sample derived from

text: Lactobacillus intestinalis

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-22-03-2024-10:43:23:846-115524

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.

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Enterococcus_gallinarum_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: Enterococcus gallinarum

characteristic: organism

characteristic: project name

text: Enterococcus gallinarum

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: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:846-115525

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

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

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_Ligilactobacillus_murinus_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: Ligilactobacillus murinus

characteristic: sample derived from

text: Ligilactobacillus murinus

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-22-03-2024-10:43:23:847-115526

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_Bacilli_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 Bacilli bacterium

characteristic: organism

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

characteristic: project name

text: uncultured Bacilli 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

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-22-03-2024-10:43:23:847-115527

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_Bacilli_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 Bacilli 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 Bacilli 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-22-03-2024-10:43:23:847-115528

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_Bacilli_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 Bacilli bacterium

characteristic: organism

characteristic: project name

text: uncultured Bacilli 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-22-03-2024-10:43:23:847-115529

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_Bacilli_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

text: uncultured Bacilli bacterium

characteristic: sample derived from

text: uncultured Bacilli 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-22-03-2024-10:43:23:847-115530

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.

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Coprovivens_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 Bacilli bacterium

characteristic: organism

characteristic: project name

text: uncultured Bacilli 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-22-03-2024-10:43:23:848-115531

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

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

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_Pelethenecus_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 Anaeroplasmataceae bacterium

characteristic: sample derived from

text: uncultured Anaeroplasmataceae 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-22-03-2024-10:43:23:848-115532

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Fimiplasma_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 Erysipelotrichales bacterium

characteristic: organism

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

characteristic: project name

text: uncultured Erysipelotrichales 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: 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-22-03-2024-10:43:23:848-115533

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_Coprobacillaceae_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 Erysipelotrichales bacterium

characteristic: sample derived from

text: uncultured Erysipelotrichales 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-22-03-2024-10:43:23:848-115534

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_Clostridium_innocuum_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 Erysipelotrichaceae 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: 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-22-03-2024-10:43:23:849-115535

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_Dubosiella_newyorkensis_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: Dubosiella newyorkensis

characteristic: sample derived from

text: Dubosiella newyorkensis

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-22-03-2024-10:43:23:849-115536

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_Dubosiella_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 Dubosiella sp.

characteristic: organism

characteristic: project name

text: uncultured Dubosiella 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

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:849-115537

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_Allobaculum_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 Allobaculum sp.

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

characteristic: sample derived from

text: uncultured Allobaculum 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-22-03-2024-10:43:23:849-115538

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Gastranaerophilaceae_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 Gastranaerophilales 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-22-03-2024-10:43:23:850-115539

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

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_Gastranaerophilaceae_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: 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-22-03-2024-10:43:23:850-115540

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Gastranaerophilaceae_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: 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: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title