{ "type": "genome", "identifier": "GCA_024233085.1", "organism": "Akkermansiaceae bacterium", "title": "Akkermansiaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "The University of Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_024233085.1", "bioproject": "PRJNA648801", "biosample": "SAMN15688098", "wgs_master": "JACKQC000000000.1", "refseq_category": "na", "taxid": "2562705", "species_taxid": "2562705", "organism_name": "Akkermansiaceae bacterium", "infraspecific_name": "", "isolate": "HK-STAS-VERR-10", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/07/12", "asm_name": "ASM2423308v1", "submitter": "The University of Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/024/233/085/GCA_024233085.1_ASM2423308v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-07-12", "dateModified": "2022-07-12", "datePublished": "2022-07-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Akkermansiaceae bacterium" ], "sample_taxid": [ "2562705" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Hong Kong Special Administrative Region" ], "sample_host_location_id": [], "data_size": "1.361 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4941046", "Number of Sequences": "43", "Longest Sequences (bp)": "654564", "N50 (bp)": "202288", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.7", "Number of CDSs": "3724", "Average Protein Length": "390.2", "Coding Ratio (%)": "88.2", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Verrucomicrobium spinosum", "strain": "strain=DSM 4136", "accession": "GCA_000172155.1", "taxid": 2736, "species_taxid": 2736, "relation_to_type": "type", "validated": true, "ani": 76.4974, "matched_fragments": 66, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteolibacter yonseiensis", "strain": "strain=JCM 18052", "accession": "GCA_016595465.1", "taxid": 1144680, "species_taxid": 1144680, "relation_to_type": "type", "validated": true, "ani": 76.3329, "matched_fragments": 86, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruficoccus amylovorans", "strain": "strain=JCM31066", "accession": "GCA_014230085.1", "taxid": 1804625, "species_taxid": 1804625, "relation_to_type": "type", "validated": true, "ani": 76.2925, "matched_fragments": 59, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfuriroseicoccus oceanibius", "strain": "strain=T37", "accession": "GCA_010681825.2", "taxid": 2707525, "species_taxid": 2707525, "relation_to_type": "type", "validated": true, "ani": 76.25, "matched_fragments": 52, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Terrimicrobium sacchariphilum", "strain": "strain=NM-5", "accession": "GCA_001613545.1", "taxid": 690879, "species_taxid": 690879, "relation_to_type": "type", "validated": true, "ani": 76.2327, "matched_fragments": 52, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteolibacter luteus", "strain": "strain=G-1-1-1", "accession": "GCA_012913485.1", "taxid": 2728835, "species_taxid": 2728835, "relation_to_type": "type", "validated": true, "ani": 76.1997, "matched_fragments": 74, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prosthecobacter vanneervenii", "strain": "strain=DSM 12252", "accession": "GCA_014203095.1", "taxid": 48466, "species_taxid": 48466, "relation_to_type": "type", "validated": true, "ani": 76.014, "matched_fragments": 94, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseimicrobium gellanilyticum", "strain": "strain=DSM 25532", "accession": "GCA_003315205.1", "taxid": 748857, "species_taxid": 748857, "relation_to_type": "type", "validated": true, "ani": 75.9301, "matched_fragments": 77, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chthoniobacter flavus", "strain": "strain=Ellin428", "accession": "GCA_000173075.1", "taxid": 191863, "species_taxid": 191863, "relation_to_type": "type", "validated": true, "ani": 75.8432, "matched_fragments": 94, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevifollis gellanilyticus", "strain": "strain=NBRC 108608", "accession": "GCA_007992435.1", "taxid": 748831, "species_taxid": 748831, "relation_to_type": "type", "validated": true, "ani": 75.8327, "matched_fragments": 79, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chthoniobacter flavus", "strain": "strain=DSM 22515", "accession": "GCA_004341915.1", "taxid": 191863, "species_taxid": 191863, "relation_to_type": "type", "validated": true, "ani": 75.6685, "matched_fragments": 92, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Panacagrimonas perspica", "strain": "strain=DSM 26377", "accession": "GCA_004364935.1", "taxid": 381431, "species_taxid": 381431, "relation_to_type": "type", "validated": true, "ani": 75.0692, "matched_fragments": 56, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus solventivorans", "strain": "strain=DSM 6637", "accession": "GCA_900142875.1", "taxid": 53463, "species_taxid": 53463, "relation_to_type": "type", "validated": true, "ani": 74.9718, "matched_fragments": 67, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium neotropicale", "strain": "strain=BR 10247", "accession": "GCA_001641695.1", "taxid": 1497615, "species_taxid": 1497615, "relation_to_type": "type", "validated": true, "ani": 74.8857, "matched_fragments": 84, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanicella actignis", "strain": "strain=DSM 22673", "accession": "GCA_008124525.1", "taxid": 1189325, "species_taxid": 1189325, "relation_to_type": "type", "validated": true, "ani": 74.8597, "matched_fragments": 91, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces aidingensis", "strain": "strain=CGMCC 4.5739", "accession": "GCA_900112355.1", "taxid": 910347, "species_taxid": 910347, "relation_to_type": "type", "validated": true, "ani": 74.7495, "matched_fragments": 107, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus nigrescens", "strain": "strain=DSM 45408", "accession": "GCA_900129495.1", "taxid": 1070870, "species_taxid": 1070870, "relation_to_type": "type", "validated": true, "ani": 74.7385, "matched_fragments": 127, "total_fragments": 1626, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_016795505.1", "gtdb_species": "s__JAEUHH01 sp016795505", "ani": 77.8708, "matched_fragments": 478, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__JAEUHH01", "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_002344525.1", "gtdb_species": "s__Arctic95D-9 sp002344525", "ani": 77.134, "matched_fragments": 286, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_007123695.1", "gtdb_species": "s__Arctic95D-9 sp007123695", "ani": 76.9536, "matched_fragments": 227, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_016795385.1", "gtdb_species": "s__Arctic95D-9 sp016795385", "ani": 76.8417, "matched_fragments": 280, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_002396885.1", "gtdb_species": "s__Arctic95D-9 sp002396885", "ani": 76.7946, "matched_fragments": 219, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_012719225.1", "gtdb_species": "s__Arctic95D-9 sp012719225", "ani": 76.5309, "matched_fragments": 172, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_003820635.1", "gtdb_species": "s__Luteolibacter sp003820635", "ani": 76.4082, "matched_fragments": 85, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__Akkermansiaceae;g__Luteolibacter", "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_002288445.1", "gtdb_species": "s__Arctic95D-9 sp002288445", "ani": 76.2174, "matched_fragments": 72, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_014904755.1", "gtdb_species": "s__Haloferula sp014904755", "ani": 76.2099, "matched_fragments": 125, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__Akkermansiaceae;g__Haloferula", "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_018970255.1", "gtdb_species": "s__UBA967 sp018970255", "ani": 76.1721, "matched_fragments": 67, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Chthoniobacterales;f__Terrimicrobiaceae;g__UBA967", "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_002422425.1", "gtdb_species": "s__Arctic95D-9 sp002422425", "ani": 76.1436, "matched_fragments": 156, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__DEV007;g__Arctic95D-9", "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_009885995.1", "gtdb_species": "s__VFJQ01 sp009885995", "ani": 75.9088, "matched_fragments": 120, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Chthoniobacterales;f__Chthoniobacteraceae;g__VFJQ01", "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_016871615.1", "gtdb_species": "s__SXXZ01 sp016871615", "ani": 75.8752, "matched_fragments": 85, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Pedosphaerales;f__UBA9464;g__SXXZ01", "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_017301995.1", "gtdb_species": "s__Luteolibacter sp017301995", "ani": 75.7843, "matched_fragments": 104, "total_fragments": 1626, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__Akkermansiaceae;g__Luteolibacter", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.222, "cell_length": null, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 2880686.548, "gc_content": 56.683, "coding_genes": 2373.375, "rRNA16S_genes": 3.0, "tRNA_genes": 50.5, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "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": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 1.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Verrucomicrobiota", "c__Verrucomicrobiae", "o__Verrucomicrobiales", "f__DEV007", "g__JAEUHH01", "s__JAEUHH01 sp024233085" ], "_genome_taxon": [ "Akkermansiaceae", "bacterium", "d__Bacteria", "p__Verrucomicrobiota", "c__Verrucomicrobiae", "o__Verrucomicrobiales", "f__DEV007", "g__JAEUHH01", "s__JAEUHH01 sp024233085", "Bacteria", "Verrucomicrobiota", "Verrucomicrobiae", "Verrucomicrobiales", "DEV007", "JAEUHH01", "JAEUHH01", "sp024233085" ], "_meo": [ { "id": "MEO_0000014", "label": "activated sludge" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }