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-22-03-2024-10:43:23:861-115591

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

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_20: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


status: PUBLIC

text: barrnap (version 0.9)

tag: attribute

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-22-03-2024-10:43:23:861-115592

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

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: coverage depth and k-mer binning. Scaffolds were filtered for min. length 1000bp and min. coverage 7.7815. Quality-controlled metagenomic reads were mapped back to the filtered scaffolds with Bowtie (version 2.2.5); the insert size was 0–1000 bp in very sensitive, non-deterministic, “fr” stranded mode with end-to-end alignment. Non-unique mappings and unaligned reads were discarded. The scaffold coverage depth was determined with the jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1). Scaffolds were broken into 10 kbp chunks for CONCOCT.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_21: 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 Muribaculaceae 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 Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: 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-22-03-2024-10:43:23:862-115593

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

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_22: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:862-115594

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_23: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:862-115595

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_24: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

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

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:862-115596

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Muribaculaceae_25: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:863-115597

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

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_26: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:863-115598

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: coverage depth and k-mer binning. Scaffolds were filtered for min. length 1000bp and min. coverage 7.7815. Quality-controlled metagenomic reads were mapped back to the filtered scaffolds with Bowtie (version 2.2.5); the insert size was 0–1000 bp in very sensitive, non-deterministic, “fr” stranded mode with end-to-end alignment. Non-unique mappings and unaligned reads were discarded. The scaffold coverage depth was determined with the jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1). Scaffolds were broken into 10 kbp chunks for CONCOCT.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Amulumruptor_01: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: 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-22-03-2024-10:43:23:863-115599

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculum_intestinale_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: Muribaculum intestinale

characteristic: organism

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

characteristic: project name

text: ERS18444878,ERS18444879,ERS18444880,ERS18444881,ERS18444882,ERS18444883,ERS18444884,ERS18444885,ERS18444886,ERS18444887,ERS18444888,ERS18444889,ERS18444890,ERS18444891,ERS18444892,ERS18444893,ERS18444894,ERS18444895,ERS18444896,ERS18444897,ERS18444898,ERS18444899,ERS18444900,ERS18444901,ERS18444902,ERS18444903,ERS18444904,ERS18444905,ERS18444906,ERS18444907,ERS18444908,ERS18444909,ERS18444910,ERS18444911,ERS18444912,ERS18444913,ERS18444914,ERS18444915,ERS18444916,ERS18444917,ERS18444918,ERS18444919,ERS18444920,ERS18444921,ERS18444922,ERS18444923,ERS18444924,ERS18444925,ERS18444926,ERS18444927,ERS18444928,ERS18444929,ERS18590020,ERS18590021,ERS18590022,ERS18590023,ERS18590024,ERS18590025,ERS18590026,ERS18590027

text: Muribaculum intestinale

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-22-03-2024-10:43:23:863-115600

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_Muribaculum_arabinoxylanisolvens_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 Muribaculum sp.

characteristic: sample derived from

text: uncultured Muribaculum sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

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

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:863-115601

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculum_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 Muribaculum sp.

characteristic: organism

characteristic: project name

text: uncultured Muribaculum sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:864-115602

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_Duncaniella_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 Duncaniella sp.

characteristic: sample derived from

text: uncultured Duncaniella sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:864-115603

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_Duncaniella_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 Duncaniella sp.

characteristic: organism

characteristic: project name

text: uncultured Duncaniella sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:864-115604

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: coverage depth and k-mer binning. Scaffolds were filtered for min. length 1000bp and min. coverage 7.7815. Quality-controlled metagenomic reads were mapped back to the filtered scaffolds with Bowtie (version 2.2.5); the insert size was 0–1000 bp in very sensitive, non-deterministic, “fr” stranded mode with end-to-end alignment. Non-unique mappings and unaligned reads were discarded. The scaffold coverage depth was determined with the jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1). Scaffolds were broken into 10 kbp chunks for CONCOCT.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Duncaniella_freteri_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: Duncaniella freteri

characteristic: sample derived from

text: Duncaniella freteri

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-22-03-2024-10:43:23:864-115605

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Duncaniella_muris_01: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

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: Duncaniella muris

characteristic: organism

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

characteristic: project name

text: Duncaniella muris

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-22-03-2024-10:43:23:865-115606

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_Duncaniella_dubosii_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: Duncaniella dubosii

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: Duncaniella dubosii

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

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:865-115607

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Muribaculaceae_27: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:865-115608

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_Paramuribaculum_01: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

text: host associated gut microbiome

text: Germany

text: mouse colon contents

text: host associated gut microbiome

text: mouse gut metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:865-115609

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_Paramuribaculum_02: Metagenomic assembled genome (MAG) from colon contents of n=52, untreated, wild-type, male C57BL/6J/Ukj mice, aged 2-30 months. Full cohort assembly of all metagenomic samples assembled together from short and long read sequencing with metaSpades hybrid. Coverage and k-mer binning with MetaBAT (version 2.12.1), CONCOCT (version 1.1.0), and MaxBin (version 2.2.4) produced 252 bins which were refined into 181, high to medium quality MAGs via DASTool.

characteristic: description

text: host associated gut microbiome

characteristic: environmental medium

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mouse colon contents

text: host associated gut microbiome

characteristic: local environmental context

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

characteristic: project name

text: uncultured Muribaculaceae bacterium

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: 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-22-03-2024-10:43:23:865-115610

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: coverage depth and k-mer binning. Scaffolds were filtered for min. length 1000bp and min. coverage 7.7815. Quality-controlled metagenomic reads were mapped back to the filtered scaffolds with Bowtie (version 2.2.5); the insert size was 0–1000 bp in very sensitive, non-deterministic, “fr” stranded mode with end-to-end alignment. Non-unique mappings and unaligned reads were discarded. The scaffold coverage depth was determined with the jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1). Scaffolds were broken into 10 kbp chunks for CONCOCT.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Paramuribaculum_intestinale_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: Paramuribaculum intestinale

characteristic: sample derived from

text: Paramuribaculum intestinale

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-22-03-2024-10:43:23:866-115611

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Parabacteroides_distasonis_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: Parabacteroides distasonis

characteristic: organism

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

characteristic: project name

text: Parabacteroides distasonis

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-22-03-2024-10:43:23:866-115612

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_Parabacteroides_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 Parabacteroides sp.

characteristic: sample derived from

text: uncultured Parabacteroides sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: no

characteristic: 23s recovered

text: no

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

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

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:866-115613

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Parabacteroides_goldsteinii_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: Parabacteroides goldsteinii

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: Parabacteroides goldsteinii

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-22-03-2024-10:43:23:866-115614

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_Prevotella_rodentium_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 Prevotella sp.

characteristic: sample derived from

text: uncultured Prevotella sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:867-115615

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

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

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Prevotella_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 Prevotella sp.

characteristic: organism

characteristic: project name

text: uncultured Prevotella 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-22-03-2024-10:43:23:867-115616

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes hybrid (SPAdes version 3.13.1)

characteristic: assembly software

text: coverage depth and k-mer binning. Scaffolds were filtered for min. length 1000bp and min. coverage 7.7815. Quality-controlled metagenomic reads were mapped back to the filtered scaffolds with Bowtie (version 2.2.5); the insert size was 0–1000 bp in very sensitive, non-deterministic, “fr” stranded mode with end-to-end alignment. Non-unique mappings and unaligned reads were discarded. The scaffold coverage depth was determined with the jgi_summarize_bam_contig_depths script from MetaBAT (version 2.12.1). Scaffolds were broken into 10 kbp chunks for CONCOCT.

characteristic: binning parameters

characteristic: binning software

text: host associated gut microbiome

characteristic: completeness score

text: CheckM (version 1.1.2)

characteristic: completeness software

characteristic: contamination score

text: MAG_BA_Prevotella_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: uncultured Prevotella sp.

characteristic: sample derived from

text: uncultured Prevotella sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:867-115617

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Paraprevotella_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 Paraprevotella sp.

characteristic: organism

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

characteristic: project name

text: uncultured Paraprevotella 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-22-03-2024-10:43:23:867-115618

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_Phocaeicola_sartorii_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: Phocaeicola sartorii

characteristic: sample derived from

text: Phocaeicola sartorii

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-22-03-2024-10:43:23:867-115619

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

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Bacteroides_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 Bacteroides sp.

characteristic: organism

characteristic: project name

text: ERS18444878,ERS18444879,ERS18444880,ERS18444881,ERS18444882,ERS18444883,ERS18444884,ERS18444885,ERS18444886,ERS18444887,ERS18444888,ERS18444889,ERS18444890,ERS18444891,ERS18444892,ERS18444893,ERS18444894,ERS18444895,ERS18444896,ERS18444897,ERS18444898,ERS18444899,ERS18444900,ERS18444901,ERS18444902,ERS18444903,ERS18444904,ERS18444905,ERS18444906,ERS18444907,ERS18444908,ERS18444909,ERS18444910,ERS18444911,ERS18444912,ERS18444913,ERS18444914,ERS18444915,ERS18444916,ERS18444917,ERS18444918,ERS18444919,ERS18444920,ERS18444921,ERS18444922,ERS18444923,ERS18444924,ERS18444925,ERS18444926,ERS18444927,ERS18444928,ERS18444929,ERS18590020,ERS18590021,ERS18590022,ERS18590023,ERS18590024,ERS18590025,ERS18590026,ERS18590027

text: uncultured Bacteroides sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: No

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

text: CAU

text: public

characteristic: MAG coverage software

characteristic: SRA accession

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:868-115620

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_Bacteroides_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 Bacteroides sp.

characteristic: sample derived from

text: uncultured Bacteroides sp.

text: tRNAscan-SE (version 2.0.9)

characteristic: tRNA extraction software

text: GTDB-Tk, r214

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker


text: barrnap (version 0.9)

characteristic: 16S recovery software

text: Yes

characteristic: 16s recovered

text: yes

characteristic: 23s recovered

text: yes

characteristic: 5s recovered

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: GC content

text: CAU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-22-03-2024-10:43:23:868-115621

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

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

text: host associated gut microbiome

characteristic: broad-scale environmental context

characteristic: collection date

text: CheckM (version 1.1.2)

text: MAG_BA_Alloprevotella_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 Alloprevotella sp.

characteristic: organism

characteristic: project name

text: uncultured Alloprevotella sp.

text: tRNAscan-SE (version 2.0.9)

text: GTDB-Tk, r214

text: multi-marker approach

characteristic: title


text: CENTRO DE GENOMICA Y BIOINFORMATICA

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: yellow lupine

characteristic: common name

text: photosynthetic young leaf

text: Chile

text: L. luteus seeds were scarified and hydrated for 20 minutes in water, washed with 70% ethanol for one minute, in 2.5% sodium hypochlorite, and finally washed three times with sterile distilled water. Then, seeds were put in Petri dishes with moistened filter paper (Whatman) and kept in darkness at 23°C for 24h to germination. The germinated seeds were grown in controlled conditions with a 16-h day and 8-h night photoperiod at 23°C

characteristic: isolation and growth condition

text: Lupinus luteus

text: leaf (PO_0025034)

characteristic: plant developmental stage

characteristic: plant growth medium

text: leaf (PO_0025034)

characteristic: plant structure

text: Lupinus luteus

text: Lupinus luteus genome


LarScl-PacBio

characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: SLU

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: LarScl-PacBio

text: Anna Rising

characteristic: collection date

text: Adult female spider collected from  Skarholmen in Uppsala, Sweden, with the purpose of whole genome sequencing using PacBio sequencing.

text: adult

text: Sweden

text: Skarholmen, Uppsala

characteristic: geographic location (region and locality)

text: L. sclopetarius adult female spiders were collected in the wild in a small habitat in Uppsala, Sweden, and were then kept in big containers that allowed them to spin webs.

text: Larinioides sclopetarius

text: Larinioides sclopetarius

text: female

characteristic: sex

text: whole body

text: PacBio data from L. sclopetarius WGS


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

characteristic: description

text: Lebanon

characteristic: geographic location (country and/or sea)

text: healthy

characteristic: host health state

text: Gallus gallus

characteristic: host scientific name

characteristic: isolate

text: Escherichia coli

characteristic: organism

text: Escherichia coli

text: E. coli strain A10CTX1


text: INRAE Nouzilly

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: E. coli

characteristic: common name

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain A17FEP

characteristic: title


characteristic: ENA first public

text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain A6CTX


characteristic: ENA-CHECKLIST

text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B10CTX1


text: INRAE Nouzilly

characteristic: INSDC center name

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B11FEP


text: INRAE Nouzilly

text: public

characteristic: INSDC status

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B18CTX


text: INRAE Nouzilly

text: public

characteristic: collection date

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B18FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B22FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B30FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B31CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B31FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B34FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B36CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B38CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B39FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B40FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B6CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain B8FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain Bb10CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain Bb17FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain Bb19CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain Bb7CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain Bb7FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain M28CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain M28FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain N11CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain N12CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain N15CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain ND24FEP


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain ND45CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain S25CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain S34CTX


text: INRAE Nouzilly

text: public

text: E. coli

text: Cephalosporin-resistant strain

text: Lebanon

text: healthy

text: Gallus gallus

text: Escherichia coli

text: Escherichia coli

text: E. coli strain S35CTX


text: UAM

text: public

text: Argentina

text: Bacillus subtilis

text: Bacillus subtilis


text: Radboud University Nijmegen

text: public

text: Annotated Genome

text: Italy

text: Candidatus Methylocalor cossyra

text: Candidatus Methylocalor cossyra


CARP

text: Institute of Evolutionary Biology

text: public

text: CARP

text: Marta Novo

text: Universidad Complutense de Madrid

characteristic: collecting institution

text: Adult Carpetania matritensis used to generate genomic data

text: Spain

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Molar (Madrid)

characteristic: geographic location (region and locality)

text: Underground

characteristic: habitat

text: adult

characteristic: lifestage

text: Carpetania matritensis

text: Body wall

characteristic: organism part

text: Genomic data generated for Carpetania matritensis

characteristic: project name

text: Carpetania matritensis

text: Hermaphrodite

text: NOT COLLECTED

text: Carpetania matritensis sample


Basilisk (CIAT 606)

text: EI

text: public

characteristic: SRA accession

text: Basilisk (CIAT 606)

text: Uganda

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: glasshouse JIC, Norwich

characteristic: isolation and growth condition

text: Urochloa decumbens

characteristic: organism

text: signal grass

characteristic: organism common name

text: mature adult

characteristic: plant developmental stage

text: soil

characteristic: plant growth medium

text: adult vascular leaf ( PO:0006340)

characteristic: plant structure

text: tetraploid

characteristic: ploidy

text: Urochloa decumbens


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: Kilimanjaro Christian Medical Centre

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Yes

characteristic: Is the sequenced pathogen host associated?

characteristic: Submitter Id

text: SeqAfrica

characteristic: broker name

text: Kilimanjaro Christian Medical Centre

characteristic: collection date

text: Staphylococcus aureus isolated from chronic leg ulcer in a male patient in Tanzania

characteristic: description

text: No

text: Tanzania

text: Moshi, Kilimanjaro

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: male

characteristic: host sex

characteristic: isolate

text: chronic leg ulcer

characteristic: isolation source host-associated

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

characteristic: scientific name

text: Staphylococcus aureus

characteristic: strain

text: Staphylococcus aureus ST8 strain SOMR-OS001K

characteristic: title


characteristic: ENA first public

text: Kilimanjaro Christian Medical Centre

text: public

text: Yes

characteristic: SRA accession

text: SeqAfrica

text: Mawenzi Regional Referral Hospital

text: Staphylococcus aureus isolated from chronic leg ulcer in a female patient in Tanzania

text: No

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Moshi, Kilimanjaro

characteristic: geographic location (region and locality)

text: diseased

text: Homo sapiens

text: female

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

characteristic: organism

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus ST8 strain SOMR-OS002M


characteristic: ENA-CHECKLIST

text: Kilimanjaro Christian Medical Centre

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Yes

characteristic: Is the sequenced pathogen host associated?

characteristic: Submitter Id

text: SeqAfrica

characteristic: broker name

text: Kilimanjaro Christian Medical Centre

characteristic: collection date

text: No

text: Tanzania

text: Moshi, Kilimanjaro

text: diseased

text: Homo sapiens

text: male

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus strain SOMR-OS003D


text: Kilimanjaro Christian Medical Centre

text: public

text: Yes

text: SeqAfrica

text: Kilimanjaro Christian Medical Centre

characteristic: description

text: No

text: Tanzania

text: Moshi, Kilimanjaro

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: male

characteristic: host sex

characteristic: isolate

text: chronic leg ulcer

characteristic: isolation source host-associated

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

characteristic: scientific name

text: Staphylococcus aureus

text: Staphylococcus aureus ST152 strain SOMR-OS006DA2


characteristic: ENA first public

text: Kilimanjaro Christian Medical Centre

text: public

text: Yes

characteristic: SRA accession

text: SeqAfrica

text: Kilimanjaro Christian Medical Centre

text: No

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Moshi, Kilimanjaro

text: diseased

text: Homo sapiens

text: male

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus

characteristic: strain

text: Staphylococcus aureus ST8 strain SOMR-OS006DB

characteristic: title


characteristic: ENA-CHECKLIST

text: Kilimanjaro Christian Medical Centre

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Yes

characteristic: Is the sequenced pathogen host associated?

characteristic: Submitter Id

text: SeqAfrica

text: Kilimanjaro Christian Medical Centre

text: No

text: Tanzania

text: Moshi, Kilimanjaro

characteristic: geographic location (region and locality)

text: diseased

text: Homo sapiens

text: male

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

characteristic: organism

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus ST152 strain SOMR-OS007KB


text: Kilimanjaro Christian Medical Centre

text: public

text: Yes

text: SeqAfrica

characteristic: broker name

text: Mawenzi Regional Referral Hospital

characteristic: collection date

characteristic: description

text: No

text: Tanzania

text: Moshi, Kilimanjaro

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: male

characteristic: host sex

characteristic: isolate

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus strain SOMR-OS007M


characteristic: ENA first public

text: Kilimanjaro Christian Medical Centre

text: public

text: Yes

characteristic: SRA accession

text: SeqAfrica

text: Kilimanjaro Christian Medical Centre

text: No

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Moshi, Kilimanjaro

text: diseased

text: Homo sapiens

text: male

text: chronic leg ulcer

characteristic: isolation source host-associated

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

characteristic: scientific name

text: Staphylococcus aureus

text: Staphylococcus aureus strain SOMR-OS008KA


characteristic: ENA-CHECKLIST

text: Kilimanjaro Christian Medical Centre

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Yes

characteristic: Is the sequenced pathogen host associated?

characteristic: Submitter Id

text: SeqAfrica

text: Kilimanjaro Christian Medical Centre

text: No

text: Tanzania

text: Moshi, Kilimanjaro

text: diseased

text: Homo sapiens

text: male

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus

characteristic: strain

text: Staphylococcus aureus ST8 strain SOMR-OS009D

characteristic: title


text: Kilimanjaro Christian Medical Centre

text: public

text: Yes

text: SeqAfrica

characteristic: broker name

text: Kilimanjaro Christian Medical Centre

characteristic: collection date

characteristic: description

text: No

text: Tanzania

text: Moshi, Kilimanjaro

characteristic: geographic location (region and locality)

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: female

text: chronic leg ulcer

text: chronic leg ulcer

text: Staphylococcus aureus

characteristic: organism

text: Staphylococcus aureus

text: Staphylococcus aureus

text: Staphylococcus aureus strain SOMR-OS009K


characteristic: ENA first public

text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

characteristic: collector name

text: Enterovirus D NFW 4C 72h

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

text: missing: data agreement established pre-2023

characteristic: host sex

text: not collected

characteristic: host subject id

characteristic: isolate

text: Enterovirus D

text: Enterovirus D


characteristic: ENA-CHECKLIST

text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D SHIELD 4C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D

characteristic: title


text: VIDRL

text: public

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Enterovirus D LATER 4C 72h

characteristic: description

text: Australia

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D NFW 4C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Enterovirus D

characteristic: organism

text: Enterovirus D


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

characteristic: collector name

text: Enterovirus D SHIELD 4C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D LATER 4C 1w

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

text: Enterovirus D

text: Enterovirus D


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D NFW 20C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: host subject id

characteristic: isolate

text: Enterovirus D

text: Enterovirus D


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D SHIELD 20C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D


text: VIDRL

text: public

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Enterovirus D LATER 20C 72h

characteristic: description

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D

characteristic: title


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D NFW 20C 1w

text: Australia

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Enterovirus D

text: Enterovirus D


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Enterovirus D SHIELD 20C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

characteristic: organism

text: Enterovirus D


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Enterovirus D LATER 20C 1w

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D NFW 36C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

characteristic: host subject id

text: Enterovirus D

text: Enterovirus D


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D LATER 36C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: isolate

text: Enterovirus D

text: Enterovirus D


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Enterovirus D NFW 36C 1w

characteristic: description

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Enterovirus D LATER 36C 1w

text: Australia

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Enterovirus D

text: Enterovirus D

characteristic: title


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Human respirovirus 3  NFW 4C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Human respirovirus 3  SHIELD 4C 72h

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human respirovirus 3

characteristic: organism

text: Human respirovirus 3


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  LATER 4C 72h

text: Australia

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  NFW 4C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: host subject id

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Human respirovirus 3  SHIELD 4C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: isolate

text: Human respirovirus 3

text: Human respirovirus 3


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  LATER 4C 1w

characteristic: description

text: Australia

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Human respirovirus 3  NFW 20C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3

characteristic: title


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Human respirovirus 3  SHIELD 20C 72h

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

text: not collected

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  LATER 20C 72h

text: Australia

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

text: not collected

text: Human respirovirus 3

characteristic: organism

text: Human respirovirus 3


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  NFW 20C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Human respirovirus 3  SHIELD 20C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: host subject id

text: Human respirovirus 3

text: Human respirovirus 3


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  LATER 20C 1w

characteristic: description

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: isolate

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Human respirovirus 3  NFW 36C 72h

text: Australia

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Human respirovirus 3  SHIELD 36C 72h

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3

characteristic: title


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  LATER 36C 72h

text: Australia

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  NFW 36C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human respirovirus 3

characteristic: organism

text: Human respirovirus 3


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Human respirovirus 3  SHIELD 36C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

text: Human respirovirus 3

text: Human respirovirus 3


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human respirovirus 3  LATER 36C 1w

characteristic: description

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: host subject id

text: Human respirovirus 3

text: Human respirovirus 3


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Human coronavirus 229E NFW 4C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: isolate

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Human coronavirus 229E SHIELD 4C 72h

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E LATER 4C 72h

text: Australia

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E

characteristic: title


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E NFW 4C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Human coronavirus 229E SHIELD 4C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human coronavirus 229E

characteristic: organism

text: Human coronavirus 229E


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E LATER 4C 1w

characteristic: description

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Human coronavirus 229E NFW 20C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: host subject id

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Human coronavirus 229E SHIELD 20C 72h

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: isolate

text: Human coronavirus 229E

text: Human coronavirus 229E


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E LATER 20C 72h

text: Australia

text: Human

characteristic: host common name

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E SHIELD 20C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E

characteristic: title


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Human coronavirus 229E LATER 20C 1w

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host scientific name

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E


characteristic: ENA first public

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E SHIELD 36C 72h

characteristic: description

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human coronavirus 229E

characteristic: organism

text: Human coronavirus 229E


text: VIDRL

text: public

characteristic: SRA accession

text: ATCC

characteristic: collecting institution

text: not provided

text: ATCC

text: Human coronavirus 229E LATER 36C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

characteristic: host sex

text: not collected

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

characteristic: collector name

text: Human coronavirus 229E SHIELD 36C 1w

text: Australia

characteristic: geographic location (country and/or sea)

text: Human

text: not collected

text: Homo sapiens

text: not collected

characteristic: host subject id

text: Human coronavirus 229E

text: Human coronavirus 229E


characteristic: ENA-CHECKLIST

text: VIDRL

text: public

text: ATCC

text: not provided

text: ATCC

text: Human coronavirus 229E LATER 36C 1w

text: Australia

text: Human

characteristic: host common name

text: not collected

text: Homo sapiens

text: not collected

characteristic: isolate

text: Human coronavirus 229E

text: Human coronavirus 229E


text: VIDRL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ATCC

text: not provided

text: ATCC

text: Human mastadenovirus E NFW 4C 72h

text: Australia

text: Human

text: not collected

characteristic: host health state

text: Homo sapiens

text: not collected

text: Human mastadenovirus E

text: Human mastadenovirus E


text: VIDRL

text: public

characteristic: Submitter Id

text: ATCC

text: not provided

characteristic: collection date

text: ATCC

text: Human mastadenovirus E SHIELD 4C 72h

text: Australia

text: Human

text: not collected

text: Homo sapiens

text: not collected

text: Human mastadenovirus E

text: Human mastadenovirus E

characteristic: title