attributes.tag: 16S rRNAs recovered
attributes.value: 0
attributes.tag: 16S recovered
attributes.value: FALSE
attributes.tag: 16S recovery software
attributes.value: barrnap;0.9;--kingdom bac
attributes.tag: 23S rRNAs recovered
attributes.value: 0
attributes.tag: 5S rRNAs recovered
attributes.value: 0
attributes.tag: CheckM strain heterogeneity
attributes.value: 0
attributes.tag: ENA first public
attributes.value: 2022-04-01
attributes.tag: ENA last update
attributes.value: 2022-04-01
attributes.tag: External Id
attributes.value: SAMEA13493233
attributes.tag: GTDB r202 classification
attributes.value: d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__TF01-11;s__
attributes.tag: INSDC center alias
attributes.value: Stanford University School of Medicine
attributes.tag: INSDC center name
attributes.value: stanford university school of medicine
attributes.tag: INSDC first public
attributes.value: 2022-04-01T08:25:43Z
attributes.tag: INSDC last update
attributes.value: 2022-04-01T08:25:43Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: MAG coverage depth
attributes.value: 5.52
attributes.tag: MAG coverage software
attributes.value: Reads (ERR7738263) were merged using BBMerge (rem k=62 extend2=50 ecct vstrict) and then mapped to assembled contigs >=1500bp (ERZ4559302) using Bowtie2 v2.3.4 (--very-sensitive -X 1000). Coverage was calculated using jgi_summarize_bam_contig_depths (default parameters) from MetaBAT2 v2.15.
attributes.tag: Submitter Id
attributes.value: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_O_17_2510.149
attributes.tag: assembly quality
attributes.value: Many fragments with little to no review of assembly other than reporting of standard assembly statistics.
attributes.tag: assembly software
attributes.value: metaSPAdes;3.13.1;-k 21,33,55,77 --merged BBMerge.fq.gz -1 R1.fq.gz -2 R2.fq.gz
attributes.tag: binning parameters
attributes.value: Reads from ERR7738263 were assembled into contigs (ERZ4559302). The following read sets from this study were the most similar to ERR7738263 as determined by MASH (-r -m 2 -s 100000 -k 32): ERR7738263,ERR7745783,ERR7738193,ERR7738243,ERR7746757,ERR7746113,ERR7738604,ERR7745687,ERR7738215,ERR7745432. 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 ERZ4559302. 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.
attributes.tag: binning software
attributes.value: MetaBAT2 v2.15; MAGpurify v2.1.0
attributes.tag: collection date
attributes.value: 2014-08-16
attributes.tag: completeness approach
attributes.value: CheckM marker lineage: o__Clostridiales (UID1212)
attributes.tag: completeness score
attributes.value: 70.51
attributes.tag: completeness software
attributes.value: CheckM;1.1.2;lineage_wf
attributes.tag: contamination score
attributes.value: 0.11
attributes.tag: contamination screening input
attributes.value: reads
attributes.tag: contamination screening parameters
attributes.value: All reads in ERR7738263 failed to map to hg19 (with custom masking) using BBMap v38.86 (minid=0.95 maxindel=3 bwr=0.16 bw=12 minhits=2).
attributes.tag: environment (biome)
attributes.value: terrestrial biome
attributes.tag: environment (feature)
attributes.value: human-associated habitat
attributes.tag: environment (material)
attributes.value: feces
attributes.tag: geographic location (country and/or sea)
attributes.value: Tanzania
attributes.tag: geographic location (elevation)
attributes.value: 1287
attributes.tag: geographic location (latitude)
attributes.value: -3.55
attributes.tag: geographic location (longitude)
attributes.value: -34.58
attributes.tag: inter-study species representative
attributes.value: ERR7746344_bin.124
attributes.tag: intra-study species representative
attributes.value: ERR7746344_bin.124
attributes.tag: investigation type
attributes.value: metagenome-assembled genome
attributes.tag: isolation source
attributes.value: human feces
attributes.tag: metagenomic source
attributes.value: human gut metagenome
attributes.tag: nucleic acid extraction
attributes.value: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103
attributes.tag: number of standard tRNAs extracted
attributes.value: 18
attributes.tag: project name
attributes.value: Metagenome sequencing of Hadza gut microbiome
attributes.tag: reassembly post binning
attributes.value: No
attributes.tag: reference for biomaterial
attributes.value: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103
attributes.tag: sample collection device or method
attributes.value: https://doi.org/10.1126/science.aan4834; https://doi.org/10.1080/19490976.2018.1494103
attributes.tag: sample derived from
attributes.value: ERS2586283
attributes.tag: sample name
attributes.value: REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_O_17_2510.149
attributes.tag: sequencing method
attributes.value: Illumina NovaSeq 6000
attributes.tag: tRNA extraction software
attributes.value: tRNAscan-SE;2.0.9;-B
attributes.tag: taxonomic classification
attributes.value: GTDB-TK v1.7.0, r202 database, default parameters
attributes.tag: taxonomic identity marker
attributes.value: multi-marker approach
attributes.tag: unique standard tRNAs extracted
attributes.value: 11