{
    "type": "genome",
    "identifier": "GCA_004293655.1",
    "organism": "Polaromonas sp.",
    "title": "Polaromonas sp.",
    "description": "derived from metagenome",
    "data type": "Genome sequencing and assembly",
    "organization": "Jill Banfield's Lab at Berkeley",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCA_004293655.1",
        "bioproject": "PRJNA448579",
        "biosample": "SAMN10167042",
        "wgs_master": "RDZZ00000000.1",
        "refseq_category": "na",
        "taxid": "1869339",
        "species_taxid": "1869339",
        "organism_name": "Polaromonas sp.",
        "infraspecific_name": "",
        "isolate": "PH2015_03U_58_17",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/02/22",
        "asm_name": "ASM429365v1",
        "submitter": "Jill Banfield's Lab at Berkeley",
        "gbrs_paired_asm": "na",
        "paired_asm_comp": "na",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/293/655/GCA_004293655.1_ASM429365v1",
        "excluded_from_refseq": "derived from metagenome",
        "relation_to_type_material": "",
        "asm_not_live_date": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-02-22",
    "dateModified": "2019-02-22",
    "datePublished": "2019-02-22",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Polaromonas sp."
        ],
        "sample_taxid": [
            "1869339"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA: California, Eel River, Cedar Creek"
        ],
        "sample_host_location_id": [],
        "data_size": "0.627 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": "MAG",
    "data_source": "INSDC",
    "_dfast": {
        "Total Sequence Length (bp)": "2224748",
        "Number of Sequences": "174",
        "Longest Sequences (bp)": "75914",
        "N50 (bp)": "18150",
        "Gap Ratio (%)": "0.001304",
        "GCcontent (%)": "58.0",
        "Number of CDSs": "1943",
        "Average Protein Length": "315.9",
        "Coding Ratio (%)": "82.8",
        "Number of rRNAs": "0",
        "Number of tRNAs": "29",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Polaromonas jejuensis",
                "strain": "strain=NBRC 106434",
                "accession": "GCA_001598235.1",
                "taxid": 457502,
                "species_taxid": 457502,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.9221,
                "matched_fragments": 354,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Polaromonas naphthalenivorans",
                "strain": "strain=CJ2",
                "accession": "GCA_000015505.1",
                "taxid": 216465,
                "species_taxid": 216465,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8845,
                "matched_fragments": 317,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Polaromonas eurypsychrophila",
                "strain": "strain=CGMCC 1.15322",
                "accession": "GCA_014641715.1",
                "taxid": 1614635,
                "species_taxid": 1614635,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.4827,
                "matched_fragments": 312,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhodoferax lacus",
                "strain": "strain=IMCC26218",
                "accession": "GCA_003415675.1",
                "taxid": 2184758,
                "species_taxid": 2184758,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.7636,
                "matched_fragments": 203,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhodoferax fermentans",
                "strain": "strain=JCM 7819",
                "accession": "GCA_002017865.1",
                "taxid": 28066,
                "species_taxid": 28066,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4775,
                "matched_fragments": 174,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhodoferax fermentans",
                "strain": "strain=DSM 10138",
                "accession": "GCA_016583655.1",
                "taxid": 28066,
                "species_taxid": 28066,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4546,
                "matched_fragments": 174,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Acidovorax temperans",
                "strain": "strain=DSM 7270",
                "accession": "GCA_006716905.1",
                "taxid": 80878,
                "species_taxid": 80878,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4017,
                "matched_fragments": 218,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhodoferax ferrireducens",
                "strain": "strain=DSM 15236",
                "accession": "GCA_000013605.1",
                "taxid": 192843,
                "species_taxid": 192843,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3805,
                "matched_fragments": 184,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Curvibacter gracilis",
                "strain": "strain=ATCC BAA-807",
                "accession": "GCA_000518645.1",
                "taxid": 230310,
                "species_taxid": 230310,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3646,
                "matched_fragments": 201,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Polaromonas vacuolata",
                "strain": "strain=KCTC 22033",
                "accession": "GCA_012584515.1",
                "taxid": 37448,
                "species_taxid": 37448,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1054,
                "matched_fragments": 166,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Comamonas thiooxydans",
                "strain": "strain=DSM 17888",
                "accession": "GCA_001517325.1",
                "taxid": 363952,
                "species_taxid": 363952,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7837,
                "matched_fragments": 126,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Delftia acidovorans",
                "strain": "strain=FDAARGOS_997",
                "accession": "GCA_016127415.1",
                "taxid": 80866,
                "species_taxid": 80866,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7688,
                "matched_fragments": 194,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Delftia acidovorans",
                "strain": "strain=NBRC 14950",
                "accession": "GCA_001598795.1",
                "taxid": 80866,
                "species_taxid": 80866,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7668,
                "matched_fragments": 189,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Tepidicella baoligensis",
                "strain": "strain=B18-50",
                "accession": "GCA_013432195.1",
                "taxid": 2707016,
                "species_taxid": 2707016,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.6911,
                "matched_fragments": 128,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Comamonas thiooxydans",
                "strain": "strain=DSM 17888",
                "accession": "GCA_000964545.1",
                "taxid": 363952,
                "species_taxid": 363952,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.676,
                "matched_fragments": 130,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Serpentinimonas raichei",
                "strain": "strain=A1",
                "accession": "GCA_000828895.1",
                "taxid": 1458425,
                "species_taxid": 1458425,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.639,
                "matched_fragments": 121,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Comamonas avium",
                "strain": "strain=Sa2CVA6",
                "accession": "GCA_014836675.1",
                "taxid": 2762231,
                "species_taxid": 2762231,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3493,
                "matched_fragments": 125,
                "total_fragments": 653,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCA_004293655.1",
                "gtdb_species": "s__Polaromonas sp004293655",
                "ani": 100.0,
                "matched_fragments": 644,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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": "conclusive"
            },
            {
                "accession": "GCF_003711205.1",
                "gtdb_species": "s__Polaromonas sp003711205",
                "ani": 79.0943,
                "matched_fragments": 368,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_018780625.1",
                "gtdb_species": "s__Polaromonas sp018780625",
                "ani": 79.0163,
                "matched_fragments": 299,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_001598235.1",
                "gtdb_species": "s__Polaromonas jejuensis",
                "ani": 78.9529,
                "matched_fragments": 351,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_900116715.1",
                "gtdb_species": "s__Polaromonas sp900116715",
                "ani": 78.9334,
                "matched_fragments": 359,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_900112285.1",
                "gtdb_species": "s__Polaromonas sp900112285",
                "ani": 78.9061,
                "matched_fragments": 319,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_002256925.1",
                "gtdb_species": "s__Polaromonas sp002256925",
                "ani": 78.7155,
                "matched_fragments": 210,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.34",
                "min_intra_species_ani": "99.27",
                "mean_intra_species_af": "0.82",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCA_002278925.1",
                "gtdb_species": "s__Polaromonas sp002278925",
                "ani": 78.706,
                "matched_fragments": 314,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.98",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCA_012927455.1",
                "gtdb_species": "s__Polaromonas sp012927455",
                "ani": 78.6908,
                "matched_fragments": 321,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_016185115.1",
                "gtdb_species": "s__Polaromonas sp016185115",
                "ani": 78.6382,
                "matched_fragments": 317,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_903926695.1",
                "gtdb_species": "s__Polaromonas sp903926695",
                "ani": 78.2193,
                "matched_fragments": 183,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polaromonas",
                "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_018780075.1",
                "gtdb_species": "s__Hydrogenophaga sp018780075",
                "ani": 77.4294,
                "matched_fragments": 174,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Hydrogenophaga",
                "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_001424425.1",
                "gtdb_species": "s__Acidovorax sp001424425",
                "ani": 77.4234,
                "matched_fragments": 222,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Acidovorax",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.93",
                "min_intra_species_ani": "99.87",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.97",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_017997515.1",
                "gtdb_species": "s__JAGOEY01 sp017997515",
                "ani": 77.2069,
                "matched_fragments": 127,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__JAGOEY01",
                "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_903897925.1",
                "gtdb_species": "s__Rhodoferax sp903897925",
                "ani": 77.0374,
                "matched_fragments": 139,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Rhodoferax",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.65",
                "min_intra_species_ani": "99.65",
                "mean_intra_species_af": "0.87",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_903914985.1",
                "gtdb_species": "s__Rhodoferax sp903914985",
                "ani": 76.6704,
                "matched_fragments": 79,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Rhodoferax",
                "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_002479815.1",
                "gtdb_species": "s__UBA2334 sp002479815",
                "ani": 76.2933,
                "matched_fragments": 54,
                "total_fragments": 653,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__UBA2334",
                "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": -0.055,
        "cell_length": 0.121,
        "doubling_h": null,
        "growth_tmp": 18.857,
        "optimum_tmp": 19.7,
        "optimum_ph": 6.85,
        "genome_size": 5249534.7,
        "gc_content": 60.395,
        "coding_genes": 4865.667,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 52.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.166,
        "range_salinity": null,
        "facultative_respiration": 0.142,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 0.857,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 0.5,
        "coccus_cell_shape": 0.5,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_gtdb_taxon": [
        "d__Bacteria",
        "p__Pseudomonadota",
        "c__Gammaproteobacteria",
        "o__Burkholderiales",
        "f__Burkholderiaceae",
        "g__Polaromonas",
        "s__Polaromonas sp004293655"
    ],
    "_genome_taxon": [
        "Polaromonas",
        "sp.",
        "d__Bacteria",
        "p__Pseudomonadota",
        "c__Gammaproteobacteria",
        "o__Burkholderiales",
        "f__Burkholderiaceae",
        "g__Polaromonas",
        "s__Polaromonas sp004293655",
        "Bacteria",
        "Pseudomonadota",
        "Gammaproteobacteria",
        "Burkholderiales",
        "Burkholderiaceae",
        "Polaromonas",
        "Polaromonas",
        "sp004293655"
    ],
    "_meo": [
        {
            "id": "MEO_0000116",
            "label": "biofilm"
        },
        {
            "id": "MEO_0000082",
            "label": "river"
        }
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}