{
    "type": "genome",
    "identifier": "GCF_000156655.1",
    "organism": "Holdemanella biformis DSM 3989",
    "title": "Holdemanella biformis DSM 3989",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Washington University Genome Sequencing Center",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000156655.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN00008825",
        "wgs_master": "ABYT00000000.1",
        "refseq_category": "na",
        "taxid": "518637",
        "species_taxid": "1735",
        "organism_name": "Holdemanella biformis DSM 3989",
        "infraspecific_name": "strain=DSM 3989",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2008/11/12",
        "asm_name": "ASM15665v1",
        "asm_submitter": "Washington University Genome Sequencing Center",
        "gbrs_paired_asm": "GCA_000156655.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/156/655/GCF_000156655.1_ASM15665v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2517763",
        "genome_size_ungapped": "2415920",
        "gc_percent": "34.000000",
        "replicon_count": "0",
        "scaffold_count": "44",
        "contig_count": "161",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000156655.1-RS_2024_04_22",
        "annotation_date": "2024-04-22",
        "total_gene_count": "2466",
        "protein_coding_gene_count": "2377",
        "non_coding_gene_count": "49",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2008-11-12",
    "dateModified": "2008-11-12",
    "datePublished": "2008-11-12",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Holdemanella biformis DSM 3989"
        ],
        "sample_taxid": [
            "518637"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "not determined"
        ],
        "sample_host_location_id": [],
        "data_size": "0.676 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 99.07,
        "contamination": 2.08,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "2517763",
        "Number of Sequences": "44",
        "Longest Sequences (bp)": "708572",
        "N50 (bp)": "278464",
        "Gap Ratio (%)": "4.044980",
        "GCcontent (%)": "33.8",
        "Number of CDSs": "2366",
        "Average Protein Length": "297.5",
        "Coding Ratio (%)": "83.9",
        "Number of rRNAs": "2",
        "Number of tRNAs": "45",
        "Number of CRISPRs": "4"
    },
    "has_analysis": true,
    "_dfastqc": {
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                "organism_name": "Holdemanella biformis",
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                "species_taxid": 1735,
                "relation_to_type": "suspected-type",
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                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Holdemanella porci",
                "strain": "strain=LKV-472-APC-3",
                "accession": "GCA_009696075.1",
                "taxid": 2652276,
                "species_taxid": 2652276,
                "relation_to_type": "suspected-type",
                "validated": true,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Faecalitalea cylindroides",
                "strain": "strain=ATCC 27803",
                "accession": "GCA_000469305.1",
                "taxid": 39483,
                "species_taxid": 39483,
                "relation_to_type": "type",
                "validated": true,
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                "matched_fragments": 143,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Longicatena caecimuris",
                "strain": "strain=DSM 29481",
                "accession": "GCA_024622185.1",
                "taxid": 1796635,
                "species_taxid": 1796635,
                "relation_to_type": "type",
                "validated": true,
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                "matched_fragments": 60,
                "total_fragments": 820,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Absicoccus porci",
                "strain": "strain=YH-panp20",
                "accession": "GCA_003725415.1",
                "taxid": 2486576,
                "species_taxid": 2486576,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4582,
                "matched_fragments": 116,
                "total_fragments": 820,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Faecalicoccus pleomorphus",
                "strain": "strain=NCTC11087",
                "accession": "GCA_900459315.1",
                "taxid": 1323,
                "species_taxid": 1323,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3904,
                "matched_fragments": 93,
                "total_fragments": 820,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Faecalicoccus pleomorphus",
                "strain": "strain=DSM 20574",
                "accession": "GCA_000420345.1",
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                "species_taxid": 1323,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3188,
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                "total_fragments": 820,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Erysipelatoclostridium ramosum",
                "strain": "",
                "accession": "GCA_900660185.1",
                "taxid": 1547,
                "species_taxid": 1547,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.9584,
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                "status": "below_threshold"
            }
        ],
        "cc_result": {
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            "contamination": 2.08,
            "strain_heterogeneity": 0.0
        },
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            {
                "accession": "GCF_000156655.1",
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                "ani": 99.9996,
                "matched_fragments": 800,
                "total_fragments": 820,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemanella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.82",
                "min_intra_species_ani": "95.86",
                "mean_intra_species_af": "0.79",
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                "num_clustered_genomes": 17,
                "status": "conclusive"
            },
            {
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                "mean_intra_species_ani": "96.25",
                "min_intra_species_ani": "96.18",
                "mean_intra_species_af": "0.85",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_900547815.1",
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemanella",
                "ani_circumscription_radius": 95.0,
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            },
            {
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                "num_clustered_genomes": 21,
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            },
            {
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemanella",
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            },
            {
                "accession": "GCF_003458715.1",
                "gtdb_species": "s__Holdemanella sp003458715",
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemanella",
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                "num_clustered_genomes": 7,
                "status": "-"
            },
            {
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemanella",
                "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,
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            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": null,
        "optimum_tmp": null,
        "optimum_ph": null,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": null,
        "sporulation": null,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Holdemanella",
        "biformis",
        "DSM",
        "3989"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}