{
    "type": "genome",
    "identifier": "GCF_003634575.1",
    "organism": "Photorhabdus asymbiotica",
    "title": "Photorhabdus asymbiotica",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_003634575.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN05444850",
        "wgs_master": "RBLJ00000000.1",
        "refseq_category": "na",
        "taxid": "291112",
        "species_taxid": "291112",
        "organism_name": "Photorhabdus asymbiotica",
        "infraspecific_name": "strain=DSM 15149",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/10/11",
        "asm_name": "ASM363457v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_003634575.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/634/575/GCF_003634575.1_ASM363457v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5103671",
        "genome_size_ungapped": "5103671",
        "gc_percent": "42.000000",
        "replicon_count": "0",
        "scaffold_count": "8",
        "contig_count": "8",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_003634575.1-RS_2024_05_17",
        "annotation_date": "2024-05-17",
        "total_gene_count": "4560",
        "protein_coding_gene_count": "4280",
        "non_coding_gene_count": "125",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-10-11",
    "dateModified": "2018-10-11",
    "datePublished": "2018-10-11",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Photorhabdus asymbiotica"
        ],
        "sample_taxid": [
            "291112"
        ],
        "sample_host_organism": [
            "not applicable"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.432 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)": "5103671",
        "Number of Sequences": "8",
        "Longest Sequences (bp)": "1508663",
        "N50 (bp)": "1149849",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "42.2",
        "Number of CDSs": "4364",
        "Average Protein Length": "319.2",
        "Coding Ratio (%)": "81.9",
        "Number of rRNAs": "25",
        "Number of tRNAs": "83",
        "Number of CRISPRs": "4"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Photorhabdus asymbiotica",
                "strain": "strain=DSM 15149",
                "accession": "GCA_003634575.1",
                "taxid": 291112,
                "species_taxid": 291112,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1691,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Photorhabdus australis subsp. thailandensis",
                "strain": "strain=PB68.1",
                "accession": "GCA_001696805.1",
                "taxid": 2805096,
                "species_taxid": 286156,
                "relation_to_type": "type",
                "validated": true,
                "ani": 92.5364,
                "matched_fragments": 1394,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus australis",
                "strain": "strain=DSM 17609",
                "accession": "GCA_000711895.1",
                "taxid": 286156,
                "species_taxid": 286156,
                "relation_to_type": "type",
                "validated": true,
                "ani": 92.4333,
                "matched_fragments": 1345,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus cinerea",
                "strain": "strain=DSM 19724",
                "accession": "GCA_011189575.1",
                "taxid": 471575,
                "species_taxid": 471575,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.7387,
                "matched_fragments": 1298,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus heterorhabditis",
                "strain": "strain=SF41",
                "accession": "GCA_018448905.1",
                "taxid": 880156,
                "species_taxid": 880156,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.6107,
                "matched_fragments": 1295,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus heterorhabditis subsp. aluminescens",
                "strain": "strain=Q614",
                "accession": "GCA_013277735.1",
                "taxid": 2805094,
                "species_taxid": 880156,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.5121,
                "matched_fragments": 1250,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus kayaii",
                "strain": "strain=DSM 15194",
                "accession": "GCA_025384895.1",
                "taxid": 230088,
                "species_taxid": 230088,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.6066,
                "matched_fragments": 1125,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus temperata",
                "strain": "strain=DSM 14550",
                "accession": "GCA_025384845.1",
                "taxid": 574560,
                "species_taxid": 574560,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.5804,
                "matched_fragments": 1150,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus kleinii",
                "strain": "strain=DSM 23513",
                "accession": "GCA_025384885.1",
                "taxid": 768034,
                "species_taxid": 768034,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.5555,
                "matched_fragments": 1167,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus noenieputensis",
                "strain": "strain=DSM 25462",
                "accession": "GCA_023108895.1",
                "taxid": 1208607,
                "species_taxid": 1208607,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.5185,
                "matched_fragments": 1233,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Photorhabdus hindustanensis",
                "strain": "strain=H1",
                "accession": "GCA_002968995.1",
                "taxid": 2918802,
                "species_taxid": 2918802,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.3052,
                "matched_fragments": 1174,
                "total_fragments": 1698,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_003634575.1",
                "gtdb_species": "s__Photorhabdus asymbiotica",
                "ani": 100.0,
                "matched_fragments": 1686,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000711895.1",
                "gtdb_species": "s__Photorhabdus australis",
                "ani": 92.4498,
                "matched_fragments": 1343,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.53",
                "min_intra_species_ani": "97.53",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_011189575.1",
                "gtdb_species": "s__Photorhabdus cinerea",
                "ani": 90.7246,
                "matched_fragments": 1297,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "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_018448905.1",
                "gtdb_species": "s__Photorhabdus heterorhabditis",
                "ani": 90.6245,
                "matched_fragments": 1295,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.62",
                "min_intra_species_ani": "97.27",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_001010285.1",
                "gtdb_species": "s__Photorhabdus thracensis",
                "ani": 85.7647,
                "matched_fragments": 1216,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.80",
                "min_intra_species_ani": "95.75",
                "mean_intra_species_af": "0.79",
                "min_intra_species_af": "0.78",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_000517265.1",
                "gtdb_species": "s__Photorhabdus khanii",
                "ani": 85.6402,
                "matched_fragments": 1193,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.69",
                "min_intra_species_ani": "95.89",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_003287735.1",
                "gtdb_species": "s__Photorhabdus bodei",
                "ani": 85.6237,
                "matched_fragments": 1182,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.51",
                "min_intra_species_ani": "96.35",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 10,
                "status": "-"
            },
            {
                "accession": "GCF_011189505.1",
                "gtdb_species": "s__Photorhabdus tasmaniensis",
                "ani": 85.3698,
                "matched_fragments": 1157,
                "total_fragments": 1698,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus",
                "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": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.302,
        "cell_length": 0.301,
        "doubling_h": -0.137,
        "growth_tmp": 28.0,
        "optimum_tmp": 28.0,
        "optimum_ph": 6.2,
        "genome_size": 5014899.0,
        "gc_content": 41.705,
        "coding_genes": 4357.5,
        "rRNA16S_genes": 7.0,
        "tRNA_genes": 87.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "facultative_respiration": 1.0,
        "anaerobic_respiration": 0.0,
        "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": [
        "Photorhabdus",
        "asymbiotica"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}