characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Ellagibacter;s__

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738214) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560007) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_H_11_1999.84

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738214 were assembled into contigs (ERZ4560007). The following read sets from this study were the most similar to ERR7738214 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738214,ERR7745897,ERR7745565,ERR7738152,ERR7746285,ERR7738651,ERR7745937,ERR7738176,ERR7738570,ERR7738260. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560007. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738214 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7738214.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: most complete 23S rRNA recovered

characteristic: most complete 5S rRNA recovered

characteristic: number of standard tRNAs extracted

text: uncultured Ellagibacter sp.

characteristic: organism

text: No

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

text: GTDB-TK v1.7.0, r202 database, default parameters

text: multi-marker approach


status: PUBLIC

tag: attribute

characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738599) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560520) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_K_14_1915.246

tag: Namespace:Stanford University School of Medicine

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738599 were assembled into contigs (ERZ4560520). The following read sets from this study were the most similar to ERR7738599 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738599,ERR7746144,ERR7738605,ERR7738574,ERR7738569,ERR7738461,ERR7746365,ERR7746688,ERR7738613,ERR7738577. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560520. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

text: CheckM marker lineage: p__Actinobacteria (UID2112)

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738599 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7738599.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: nucleic acid extraction

text: uncultured Ellagibacter sp.

text: Metagenome sequencing of Hadza gut microbiome

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Ellagibacter;s__

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738163) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560116) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_D_10_2185.79

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738163 were assembled into contigs (ERZ4560116). The following read sets from this study were the most similar to ERR7738163 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738163,ERR7738275,ERR7738142,ERR7738211,ERR7745371,ERR7746660,ERR7738251,ERR7738219,ERR7746398,ERR7738235. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560116. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738163 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7738163.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: number of standard tRNAs extracted

text: uncultured Ellagibacter sp.

characteristic: organism

text: No

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7747522) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4561110) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-A-D_D_19_1578.337

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7747522 were assembled into contigs (ERZ4561110). The following read sets from this study were the most similar to ERR7747522 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7747522,ERR7745953,ERR7746793,ERR7738187,ERR7745559,ERR7738222,ERR7746094,ERR7745975,ERR7738556,ERR7746365. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4561110. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7747522 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7747522.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Ellagibacter sp.

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

text: GTDB-TK v1.7.0, r202 database, default parameters

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738186) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4559485) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_B_15_2660.67

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738186 were assembled into contigs (ERZ4559485). The following read sets from this study were the most similar to ERR7738186 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738186,ERR7746217,ERR7747128,ERR7746465,ERR7746436,ERR7745947,ERR7745625,ERR7738534,ERR7738227,ERR7746741. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4559485. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

text: CheckM marker lineage: p__Actinobacteria (UID2112)

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738186 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7738186.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: most complete 5S rRNA recovered

characteristic: number of standard tRNAs extracted

text: uncultured Ellagibacter sp.

characteristic: organism

text: No

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Ellagibacter;s__

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7745919) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560944) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_C-REDO_D_7_1547.113

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7745919 were assembled into contigs (ERZ4560944). The following read sets from this study were the most similar to ERR7745919 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7745919,ERR7738565,ERR7747255,ERR7746440,ERR7738271,ERR7745419,ERR7738557,ERR7738602,ERR7738609,ERR7738205. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560944. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7745919 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7745919.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: nucleic acid extraction

text: uncultured Ellagibacter sp.

text: Metagenome sequencing of Hadza gut microbiome

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7747125) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560347) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_K_21_1780.57

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7747125 were assembled into contigs (ERZ4560347). The following read sets from this study were the most similar to ERR7747125 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7747125,ERR7738259,ERR7737974,ERR7746433,ERR7738604,ERR7738623,ERR7746440,ERR7738271,ERR7747255,ERR7745759. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560347. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7747125 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7747125.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: number of standard tRNAs extracted

text: uncultured Ellagibacter sp.

characteristic: organism

text: No

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

text: GTDB-TK v1.7.0, r202 database, default parameters

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738242) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4561200) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-A-D_B_14_1607.114

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738242 were assembled into contigs (ERZ4561200). The following read sets from this study were the most similar to ERR7738242 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738242,ERR7738586,ERR7738241,ERR7745896,ERR7738631,ERR7746321,ERR7738659,ERR7738461,ERR7746365,ERR7738219. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4561200. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

text: CheckM marker lineage: p__Actinobacteria (UID2112)

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738242 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Ellagibacter sp. MAG assembled and binned from ERR7738242.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Ellagibacter sp.

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Ellagibacter sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus;s__

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7745870) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560649) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_A_15_1703.164

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7745870 were assembled into contigs (ERZ4560649). The following read sets from this study were the most similar to ERR7745870 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7745870,ERR7746051,ERR7746321,ERR7738586,ERR7746688,ERR7738936,ERR7745994,ERR7738577,ERR7738613,ERR7738569. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560649. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

text: CheckM marker lineage: o__Bacteroidales (UID2617)

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7745870 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7745870.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: No

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Adlercreutzia;s__Adlercreutzia celatus_A

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738620) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4558877) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_SUBJECT_CONTIGS_1500_ASSEMBLY_K77_MERGED__Pilot_MoBio_Fiber_C_24_1038.31

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738620 were assembled into contigs (ERZ4558877). The following read sets from this study were the most similar to ERR7738620 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738620,ERR7738633. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 2 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4558877. Depth information for all 2 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738620 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Adlercreutzia sp. MAG assembled and binned from ERR7738620.

text: terrestrial biome

text: human-associated habitat

text: feces

text: USA

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Adlercreutzia sp.

text: Metagenome sequencing of Californian gut microbiome

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Adlercreutzia sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Senegalimassilia;s__

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738248) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4567741) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_PheChl_Fiber-Hadza-Nepal_C_18_2379.269

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738248 were assembled into contigs (ERZ4567741). The following read sets from this study were the most similar to ERR7738248 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738248,ERR7745382,ERR7745427,ERR7738569,ERR7738461,ERR7747426,ERR7746365,ERR7738270,ERR7738608,ERR7738568. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4567741. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

text: CheckM marker lineage: p__Actinobacteria (UID2112)

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738248 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Senegalimassilia sp. MAG assembled and binned from ERR7738248.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: number of standard tRNAs extracted

text: uncultured Senegalimassilia sp.

characteristic: organism

text: Metagenome sequencing of Hadza gut microbiome

text: No

text: uncultured Senegalimassilia sp.

text: Illumina NovaSeq 6000

text: GTDB-TK v1.7.0, r202 database, default parameters

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: TRUE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738204) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560453) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_E_6_1848.58

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738204 were assembled into contigs (ERZ4560453). The following read sets from this study were the most similar to ERR7738204 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738204,ERR7738182,ERR7738157,ERR7737969,ERR7738160,ERR7738270,ERR7738210,ERR7738172,ERR7745675,ERR7745384. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560453. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738204 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Senegalimassilia sp. MAG assembled and binned from ERR7738204.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: most complete 16S rRNA recovered

characteristic: nucleic acid extraction

text: uncultured Senegalimassilia sp.

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Senegalimassilia sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Senegalimassilia;s__Senegalimassilia anaerobia

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738532) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560754) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_G_3_1732.10

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738532 were assembled into contigs (ERZ4560754). The following read sets from this study were the most similar to ERR7738532 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738532,ERR7738577,ERR7738613,ERR7746051,ERR7747322,ERR7738936,ERR7738536,ERR7738595,ERR7738576,ERR7738607. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560754. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738532 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Senegalimassilia sp. MAG assembled and binned from ERR7738532.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: number of standard tRNAs extracted

text: uncultured Senegalimassilia sp.

characteristic: organism

text: No

text: uncultured Senegalimassilia sp.

text: Illumina NovaSeq 6000

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Lancefieldella;s__

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7745634) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560393) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_C_8_1833.12

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7745634 were assembled into contigs (ERZ4560393). The following read sets from this study were the most similar to ERR7745634 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7745634,ERR7746185,ERR7745376,ERR7745539,ERR7737621,ERR7738183,ERR7745561,ERR7746768,ERR7738140,ERR7745621. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560393. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

text: CheckM marker lineage: p__Actinobacteria (UID2112)

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7745634 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Lancefieldella sp. MAG assembled and binned from ERR7745634.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Atopobiaceae bacterium

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Atopobiaceae bacterium

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium kashiwanohense_A

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738153) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4559832) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_K_17_2487.9

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738153 were assembled into contigs (ERZ4559832). The following read sets from this study were the most similar to ERR7738153 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738153,ERR7745561,ERR7738155,ERR7745876,ERR7746768,ERR7738236,ERR7745621,ERR7746794,ERR7737955,ERR7745539. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4559832. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: collection date

text: CheckM marker lineage: f__Bifidobacteriaceae (UID1458)

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738153 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Bifidobacterium sp. MAG assembled and binned from ERR7738153.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: number of standard tRNAs extracted

text: uncultured Bifidobacterium sp.

characteristic: organism

text: Metagenome sequencing of Hadza gut microbiome

text: No

text: uncultured Bifidobacterium sp.

text: Illumina NovaSeq 6000

text: GTDB-TK v1.7.0, r202 database, default parameters

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium pseudocatenulatum

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7737964) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4561898) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-A-D_K_19_1040.52

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7737964 were assembled into contigs (ERZ4561898). The following read sets from this study were the most similar to ERR7737964 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7737964,ERR7738579,ERR7738250,ERR7738527,ERR7738577,ERR7746398,ERR7738154,ERR7745903,ERR7738244,ERR7738613. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4561898. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7737964 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Bifidobacterium sp. MAG assembled and binned from ERR7737964.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: most complete 5S rRNA recovered

characteristic: nucleic acid extraction

text: uncultured Bifidobacterium sp.

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Bifidobacterium sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium adolescentis

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7745908) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4567563) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Nepal_MoBio_Fiber-Hadza-Nepal_D_5_THA1074JZ.161

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7745908 were assembled into contigs (ERZ4567563). The following read sets from this study were the most similar to ERR7745908 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7745908,ERR7738583,ERR7738662,ERR7738535,ERR7738451,ERR7745760,ERR7738513,ERR7738645,ERR7738265,ERR7738560. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4567563. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7745908 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Bifidobacterium sp. MAG assembled and binned from ERR7745908.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Nepal

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: number of standard tRNAs extracted

text: uncultured Bifidobacterium sp.

characteristic: organism

text: Metagenome sequencing of Nepali gut microbiome

text: No

text: uncultured Bifidobacterium sp.

text: Illumina NovaSeq 6000

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium infantis

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738562) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4558868) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_SUBJECT_CONTIGS_1500_ASSEMBLY_K77_MERGED__Pilot_MoBio_Fiber_G_23_1002.29

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738562 were assembled into contigs (ERZ4558868). The following read sets from this study were the most similar to ERR7738562 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738562,ERR7738597. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 2 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4558868. Depth information for all 2 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

text: CheckM marker lineage: f__Bifidobacteriaceae (UID1462)

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738562 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Bifidobacterium sp. MAG assembled and binned from ERR7738562.

text: terrestrial biome

text: human-associated habitat

text: feces

text: USA

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Bifidobacterium sp.

text: Metagenome sequencing of Californian gut microbiome

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Bifidobacterium sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738236) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4561643) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_F_18_1212.14

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738236 were assembled into contigs (ERZ4561643). The following read sets from this study were the most similar to ERR7738236 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738236,ERR7737958,ERR7738153,ERR7738155,ERR7745561,ERR7745876,ERR7746768,ERR7746794,ERR7745621,ERR7737955. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4561643. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738236 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Bifidobacterium sp. MAG assembled and binned from ERR7738236.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: number of standard tRNAs extracted

text: uncultured Bifidobacterium sp.

characteristic: organism

text: Metagenome sequencing of Hadza gut microbiome

text: No

text: uncultured Bifidobacterium sp.

text: Illumina NovaSeq 6000

text: GTDB-TK v1.7.0, r202 database, default parameters

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium bifidum

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738546) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4558884) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_SUBJECT_CONTIGS_1500_ASSEMBLY_K77_MERGED__Pilot_MoBio_Fiber_C_4_7003.40

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738546 were assembled into contigs (ERZ4558884). The following read sets from this study were the most similar to ERR7738546 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738546,ERR7738665. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 2 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4558884. Depth information for all 2 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

text: CheckM marker lineage: k__Bacteria (UID203)

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738546 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Bifidobacterium sp. MAG assembled and binned from ERR7738546.

text: terrestrial biome

text: human-associated habitat

text: feces

text: USA

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Bifidobacterium sp.

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Bifidobacterium sp.

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus;s__Sodaliphilus sp004557565

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7746398) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4559822) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_G_7_2399.15

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7746398 were assembled into contigs (ERZ4559822). The following read sets from this study were the most similar to ERR7746398 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7746398,ERR7745903,ERR7738154,ERR7738569,ERR7738461,ERR7738234,ERR7738275,ERR7738566,ERR7745291,ERR7738613. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4559822. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

text: CheckM marker lineage: o__Bacteroidales (UID2617)

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7746398 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7746398.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: most complete 23S rRNA recovered

characteristic: most complete 5S rRNA recovered

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: No

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738545) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4567255) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Nepal_MoBio_Fiber-Hadza-Nepal_D_21_CHE1011TZ.116

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738545 were assembled into contigs (ERZ4567255). The following read sets from this study were the most similar to ERR7738545 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738545,ERR7745836,ERR7738353,ERR7738558,ERR7738580,ERR7745877,ERR7738229,ERR7745831,ERR7738277,ERR7738553. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4567255. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738545 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7738545.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Nepal

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Muribaculaceae bacterium

text: Metagenome sequencing of Nepali gut microbiome

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

characteristic: sequencing method

characteristic: tRNA extraction software

text: GTDB-TK v1.7.0, r202 database, default parameters

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738204) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560453) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_E_6_1848.130

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738204 were assembled into contigs (ERZ4560453). The following read sets from this study were the most similar to ERR7738204 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738204,ERR7738182,ERR7738157,ERR7737969,ERR7738160,ERR7738270,ERR7738210,ERR7738172,ERR7745675,ERR7745384. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560453. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738204 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7738204.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Metagenome sequencing of Hadza gut microbiome

text: No

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: TRUE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus;s__Sodaliphilus sp004557565

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738567) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4561222) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-A-D_D_14_1620.12

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738567 were assembled into contigs (ERZ4561222). The following read sets from this study were the most similar to ERR7738567 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738567,ERR7745335,ERR7747394,ERR7738569,ERR7745823,ERR7746184,ERR7745947,ERR7738158,ERR7738959,ERR7745994. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4561222. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

text: CheckM marker lineage: o__Bacteroidales (UID2617)

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738567 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7738567.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: most complete 16S rRNA recovered

characteristic: most complete 5S rRNA recovered

characteristic: nucleic acid extraction

text: uncultured Muribaculaceae bacterium

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

characteristic: sequencing method

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738623) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4560388) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_K_13_1776.22

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7738623 were assembled into contigs (ERZ4560388). The following read sets from this study were the most similar to ERR7738623 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738623,ERR7746433,ERR7738591,ERR7738598,ERR7738626,ERR7745823,ERR7738607,ERR7745335,ERR7738584,ERR7738557. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4560388. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7738623 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7738623.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: No

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

characteristic: tRNA extraction software

text: GTDB-TK v1.7.0, r202 database, default parameters

characteristic: taxonomic classification

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7738196) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4559919) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_M_21_2500.67

characteristic: Submitter Id

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

characteristic: assembly quality

text: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz

characteristic: assembly software

text: Reads from ERR7738196 were assembled into contigs (ERZ4559919). The following read sets from this study were the most similar to ERR7738196 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738196,ERR7738178,ERR7738189,ERR7738249,ERR7745420,ERR7738182,ERR7737969,ERR7738157,ERR7738156,ERR7738555. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4559919. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: binning software

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

text: reads

text: All reads in ERR7738196 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7738196.

text: terrestrial biome

text: human-associated habitat

text: feces

text: Tanzania

characteristic: inter-study species representative

characteristic: intra-study species representative

text: metagenome-assembled genome

characteristic: investigation type

text: human feces

characteristic: isolation source

text: human gut metagenome

characteristic: metagenomic source

characteristic: nucleic acid extraction

text: uncultured Muribaculaceae bacterium

characteristic: project name

text: No

characteristic: reassembly post binning

characteristic: reference for biomaterial

characteristic: sample collection device or method

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

characteristic: sequencing method

text: multi-marker approach


characteristic: 16S rRNAs recovered

text: FALSE

characteristic: 16S recovered

text: barrnap;0.9;--kingdom bac

characteristic: 16S recovery software

characteristic: 23S rRNAs recovered

characteristic: 5S rRNAs recovered

characteristic: CheckM strain heterogeneity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus;s__Sodaliphilus sp004557565

characteristic: GTDB r202 classification

text: Stanford University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: MAG coverage depth

text: Reads (ERR7745433) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4561097) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.

characteristic: MAG coverage software

characteristic: SRA accession

text: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-A-D_D_13_1581.124

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: Reads from ERR7745433 were assembled into contigs (ERZ4561097). The following read sets from this study were the most similar to ERR7745433 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7745433,ERR7746692,ERR7745411,ERR7738195,ERR7738200,ERR7738242,ERR7745362,ERR7738556,ERR7738574,ERR7746321. Following processing using BBMerge (rem k=62 extend2=50 ecct vstrict), reads from each of these 10 samples were mapped using bowtie2 v2.3.4 (--very-sensitive -X 1000) onto contigs >=1500bp from ERZ4561097. Depth information for all 10 mapped samples was utilized by MetaBAT2 2.15 for genome binning. Contigs flagged by any module in MAGpurify 2.1.0 (--weighted mode for gc_content, tetra_freq, and coverage modules; conspecific database augmented by high-quality MAGs from this study) were removed from the bin.

characteristic: binning parameters

text: MetaBAT2 v2.15; MAGpurify v2.1.0

characteristic: completeness approach

characteristic: contamination score

text: reads

characteristic: contamination screening input

text: All reads in ERR7745433 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).

characteristic: contamination screening parameters

text: This sample represents an uncultured Sodaliphilus sp. MAG assembled and binned from ERR7745433.

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: feces

characteristic: environment (material)

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

text: human feces

text: human gut metagenome

text: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103

characteristic: number of standard tRNAs extracted

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Metagenome sequencing of Hadza gut microbiome

text: No

text: uncultured Muribaculaceae bacterium

text: Illumina NovaSeq 6000

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: multi-marker approach