{ "type": "genome", "identifier": "GCF_002998435.1", "organism": "Bacteroides zoogleoformans", "title": "Bacteroides zoogleoformans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Forsyth Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002998435.1", "bioproject": "PRJNA224116", "biosample": "SAMN08472433", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "28119", "species_taxid": "28119", "organism_name": "Bacteroides zoogleoformans", "infraspecific_name": "strain=ATCC 33285", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/14", "asm_name": "ASM299843v1", "asm_submitter": "The Forsyth Institute", "gbrs_paired_asm": "GCA_002998435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/998/435/GCF_002998435.1_ASM299843v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3361794", "genome_size_ungapped": "3361794", "gc_percent": "47.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002998435.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "2779", "protein_coding_gene_count": "2620", "non_coding_gene_count": "76", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-14", "dateModified": "2018-03-14", "datePublished": "2018-03-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Bacteroides zoogleoformans" ], "sample_taxid": [ "28119" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Blacksberg, VA" ], "sample_host_location_id": [], "data_size": "0.956 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3361794", "Number of Sequences": "1", "Longest Sequences (bp)": "3361794", "N50 (bp)": "3361794", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.5", "Number of CDSs": "2669", "Average Protein Length": "367.3", "Coding Ratio (%)": "87.5", "Number of rRNAs": "12", "Number of tRNAs": "61", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bacteroides zoogleoformans", "strain": "strain=ATCC 33285", "accession": "GCA_002998435.1", "taxid": 28119, "species_taxid": 28119, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1119, "total_fragments": 1120, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bacteroides zoogleoformans", "strain": "strain=ATCC 33285", "accession": "GCA_007830715.1", "taxid": 28119, "species_taxid": 28119, "relation_to_type": "type", "validated": true, "ani": 99.924, "matched_fragments": 1048, "total_fragments": 1120, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bacteroides heparinolyticus", "strain": "strain=DSM 23917", "accession": "GCA_004342845.1", "taxid": 28113, "species_taxid": 28113, "relation_to_type": "type", "validated": true, "ani": 88.9075, "matched_fragments": 843, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides humanifaecis", "strain": "strain=KGMB07931", "accession": "GCA_017309675.2", "taxid": 2792859, "species_taxid": 2792859, "relation_to_type": "type", "validated": true, "ani": 79.9973, "matched_fragments": 466, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides uniformis", "strain": "strain=FDAARGOS_901", "accession": "GCA_016117815.1", "taxid": 820, "species_taxid": 820, "relation_to_type": "type", "validated": true, "ani": 79.8443, "matched_fragments": 501, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides uniformis", "strain": "strain=ATCC 8492", "accession": "GCA_025147485.1", "taxid": 820, "species_taxid": 820, "relation_to_type": "type", "validated": true, "ani": 79.8313, "matched_fragments": 489, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides uniformis", "strain": "strain=ATCC 8492", "accession": "GCA_000154205.1", "taxid": 820, "species_taxid": 820, "relation_to_type": "type", "validated": true, "ani": 79.7563, "matched_fragments": 494, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides muris", "strain": "strain=KH365_2", "accession": "GCA_024704915.1", "taxid": 2937417, "species_taxid": 2937417, "relation_to_type": "type", "validated": true, "ani": 79.7202, "matched_fragments": 454, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides stercoris", "strain": "strain=ATCC 43183", "accession": "GCA_025147325.1", "taxid": 46506, "species_taxid": 46506, "relation_to_type": "suspected-type", "validated": true, "ani": 79.3601, "matched_fragments": 361, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides eggerthii", "strain": "strain=NCTC11155", "accession": "GCA_900445565.1", "taxid": 28111, "species_taxid": 28111, "relation_to_type": "type", "validated": true, "ani": 79.2106, "matched_fragments": 354, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides gallinarum", "strain": "strain=JCM 13658", "accession": "GCA_000613665.1", "taxid": 376806, "species_taxid": 376806, "relation_to_type": "type", "validated": true, "ani": 79.0779, "matched_fragments": 355, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides gallinarum", "strain": "strain=DSM 18171", "accession": "GCA_000374365.1", "taxid": 376806, "species_taxid": 376806, "relation_to_type": "type", "validated": true, "ani": 78.9805, "matched_fragments": 353, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides eggerthii", "strain": "strain=DSM 20697", "accession": "GCA_000155815.1", "taxid": 28111, "species_taxid": 28111, "relation_to_type": "type", "validated": true, "ani": 78.9568, "matched_fragments": 353, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides clarus", "strain": "strain=YIT 12056", "accession": "GCA_000195615.1", "taxid": 626929, "species_taxid": 626929, "relation_to_type": "type", "validated": true, "ani": 78.8513, "matched_fragments": 328, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides clarus", "strain": "strain=YIT 12056", "accession": "GCA_900129655.1", "taxid": 626929, "species_taxid": 626929, "relation_to_type": "type", "validated": true, "ani": 78.8076, "matched_fragments": 336, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides stercorirosoris", "strain": "strain=JCM 17103", "accession": "GCA_000614165.1", "taxid": 871324, "species_taxid": 871324, "relation_to_type": "type", "validated": true, "ani": 78.5481, "matched_fragments": 319, "total_fragments": 1120, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002998435.1", "gtdb_species": "s__Bacteroides zoogleoformans", "ani": 100.0, "matched_fragments": 1119, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_004342845.1", "gtdb_species": "s__Bacteroides heparinolyticus", "ani": 88.9095, "matched_fragments": 842, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.64", "min_intra_species_ani": "97.08", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.81", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000154205.1", "gtdb_species": "s__Bacteroides uniformis", "ani": 79.7668, "matched_fragments": 493, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "95.87", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.69", "num_clustered_genomes": 301, "status": "-" }, { "accession": "GCF_000614125.1", "gtdb_species": "s__Bacteroides rodentium", "ani": 79.7048, "matched_fragments": 477, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_004793475.1", "gtdb_species": "s__Bacteroides sp002491635", "ani": 79.3249, "matched_fragments": 462, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.51", "min_intra_species_ani": "98.46", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.83", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCA_902388495.1", "gtdb_species": "s__Bacteroides sp902388495", "ani": 79.2628, "matched_fragments": 391, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_905197435.1", "gtdb_species": "s__Bacteroides sp905197435", "ani": 79.0874, "matched_fragments": 336, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_003438615.1", "gtdb_species": "s__Bacteroides sp003545565", "ani": 79.077, "matched_fragments": 358, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.56", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000374365.1", "gtdb_species": "s__Bacteroides gallinarum", "ani": 78.9689, "matched_fragments": 353, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000155815.1", "gtdb_species": "s__Bacteroides eggerthii", "ani": 78.9327, "matched_fragments": 355, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.28", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.74", "num_clustered_genomes": 51, "status": "-" }, { "accession": "GCA_905203765.1", "gtdb_species": "s__Bacteroides sp905203765", "ani": 78.9236, "matched_fragments": 291, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_910578895.1", "gtdb_species": "s__Bacteroides sp910578895", "ani": 78.9175, "matched_fragments": 349, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900129655.1", "gtdb_species": "s__Bacteroides clarus", "ani": 78.8208, "matched_fragments": 335, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.47", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.82", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCF_900108345.1", "gtdb_species": "s__Bacteroides ndongoniae", "ani": 78.6241, "matched_fragments": 306, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "97.32", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.83", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_900555635.1", "gtdb_species": "s__Bacteroides sp900555635", "ani": 77.6083, "matched_fragments": 283, "total_fragments": 1120, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.02", "min_intra_species_ani": "98.02", "mean_intra_species_af": "0.75", "min_intra_species_af": "0.75", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.222, "cell_length": -0.097, "doubling_h": -0.095, "growth_tmp": 37.0, "optimum_tmp": 36.026, "optimum_ph": 6.997, "genome_size": 3310001.5, "gc_content": 47.5, "coding_genes": 2594.0, "rRNA16S_genes": 5.5, "tRNA_genes": 60.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Bacteroides", "zoogleoformans" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }