{
    "type": "genome",
    "identifier": "GCF_009674485.1",
    "organism": "Pseudoduganella rivuli",
    "title": "Pseudoduganella rivuli",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Guangdong Institute of Microbiology",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_009674485.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN13220418",
        "wgs_master": "WKJJ00000000.1",
        "refseq_category": "reference genome",
        "taxid": "2666085",
        "species_taxid": "2666085",
        "organism_name": "Pseudoduganella rivuli",
        "infraspecific_name": "strain=FT92W",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/11/19",
        "asm_name": "ASM967448v1",
        "asm_submitter": "Guangdong Institute of Microbiology",
        "gbrs_paired_asm": "GCA_009674485.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/674/485/GCF_009674485.1_ASM967448v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "8169011",
        "genome_size_ungapped": "8168914",
        "gc_percent": "62.500000",
        "replicon_count": "0",
        "scaffold_count": "99",
        "contig_count": "99",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_009674485.1-RS_2024_08_26",
        "annotation_date": "2024-08-26",
        "total_gene_count": "7030",
        "protein_coding_gene_count": "6846",
        "non_coding_gene_count": "138",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-11-19",
    "dateModified": "2019-11-19",
    "datePublished": "2019-11-19",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Pseudoduganella rivuli"
        ],
        "sample_taxid": [
            "2666085"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "China: Guangdong"
        ],
        "sample_host_location_id": [],
        "data_size": "2.257 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)": "8169011",
        "Number of Sequences": "99",
        "Longest Sequences (bp)": "648184",
        "N50 (bp)": "290759",
        "Gap Ratio (%)": "0.001187",
        "GCcontent (%)": "62.7",
        "Number of CDSs": "6810",
        "Average Protein Length": "365.6",
        "Coding Ratio (%)": "91.4",
        "Number of rRNAs": "1",
        "Number of tRNAs": "104",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Pseudoduganella rivuli",
                "strain": "strain=FT92W",
                "accession": "GCA_009674485.1",
                "taxid": 2666085,
                "species_taxid": 2666085,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2682,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Pseudoduganella ginsengisoli",
                "strain": "strain=KCTC 42409",
                "accession": "GCA_009720865.1",
                "taxid": 1462440,
                "species_taxid": 1462440,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.9245,
                "matched_fragments": 1791,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudoduganella namucuonensis",
                "strain": "strain=CGMCC 1.11014",
                "accession": "GCA_900116645.1",
                "taxid": 1035707,
                "species_taxid": 1035707,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.2324,
                "matched_fragments": 1617,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudoduganella aquatica",
                "strain": "strain=FT127W",
                "accession": "GCA_009857595.1",
                "taxid": 2660641,
                "species_taxid": 2660641,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.1023,
                "matched_fragments": 1301,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rugamonas apoptosis",
                "strain": "strain=LX47W",
                "accession": "GCA_014042355.1",
                "taxid": 2758570,
                "species_taxid": 2758570,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.064,
                "matched_fragments": 1074,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rugamonas brunnea",
                "strain": "strain=LX20W",
                "accession": "GCA_014042345.1",
                "taxid": 2758569,
                "species_taxid": 2758569,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.9773,
                "matched_fragments": 1104,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rugamonas fusca",
                "strain": "strain=FT3S",
                "accession": "GCA_014042365.1",
                "taxid": 2758568,
                "species_taxid": 2758568,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.9701,
                "matched_fragments": 1084,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rugamonas aquatica",
                "strain": "strain=FT29W",
                "accession": "GCA_009380215.1",
                "taxid": 2743357,
                "species_taxid": 2743357,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.8473,
                "matched_fragments": 1142,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudoduganella violacea",
                "strain": "strain=CECT 8897",
                "accession": "GCA_014191875.1",
                "taxid": 1715466,
                "species_taxid": 1715466,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.784,
                "matched_fragments": 1038,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Duganella aceris",
                "strain": "strain=SAP-35",
                "accession": "GCA_011090165.1",
                "taxid": 2703883,
                "species_taxid": 2703883,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.5051,
                "matched_fragments": 1083,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudoduganella buxea",
                "strain": "strain=KCTC 52429",
                "accession": "GCA_009720835.1",
                "taxid": 1949069,
                "species_taxid": 1949069,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.4526,
                "matched_fragments": 1058,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Duganella lactea",
                "strain": "strain=FT50W",
                "accession": "GCA_009857505.1",
                "taxid": 2692173,
                "species_taxid": 2692173,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.2209,
                "matched_fragments": 991,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Duganella sacchari",
                "strain": "strain=Sac-22",
                "accession": "GCA_900143065.1",
                "taxid": 551987,
                "species_taxid": 551987,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.1094,
                "matched_fragments": 1014,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudoduganella flava",
                "strain": "strain=CGMCC 1.10685",
                "accession": "GCA_007830495.1",
                "taxid": 871742,
                "species_taxid": 871742,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.0091,
                "matched_fragments": 1110,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Duganella phyllosphaerae",
                "strain": "strain=T54",
                "accession": "GCA_001758785.1",
                "taxid": 762836,
                "species_taxid": 762836,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.9896,
                "matched_fragments": 980,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Komagataeibacter swingsii",
                "strain": "strain=LMG 22125",
                "accession": "GCA_003207895.1",
                "taxid": 215220,
                "species_taxid": 215220,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.1291,
                "matched_fragments": 61,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pleomorphomonas carboxyditropha",
                "strain": "strain=SVCO-16",
                "accession": "GCA_002770725.1",
                "taxid": 2023338,
                "species_taxid": 2023338,
                "relation_to_type": "type",
                "validated": true,
                "ani": 74.9742,
                "matched_fragments": 159,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Novacetimonas cocois",
                "strain": "strain=WE7",
                "accession": "GCA_003311635.1",
                "taxid": 1747507,
                "species_taxid": 1747507,
                "relation_to_type": "type",
                "validated": true,
                "ani": 74.9727,
                "matched_fragments": 54,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Komagataeibacter melaceti",
                "strain": "strain=AV382",
                "accession": "GCA_003403295.1",
                "taxid": 2766577,
                "species_taxid": 2766577,
                "relation_to_type": "type",
                "validated": true,
                "ani": 74.813,
                "matched_fragments": 62,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Actinocrinis puniceicyclus",
                "strain": "strain=DSM 45618",
                "accession": "GCA_018283645.1",
                "taxid": 977794,
                "species_taxid": 977794,
                "relation_to_type": "type",
                "validated": true,
                "ani": 74.6264,
                "matched_fragments": 140,
                "total_fragments": 2686,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_009674485.1",
                "gtdb_species": "s__Pseudoduganella sp009674485",
                "ani": 100.0,
                "matched_fragments": 2682,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_009720865.1",
                "gtdb_species": "s__Pseudoduganella ginsengisoli",
                "ani": 86.931,
                "matched_fragments": 1790,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_900116645.1",
                "gtdb_species": "s__Pseudoduganella namucuonensis",
                "ani": 82.238,
                "matched_fragments": 1615,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_003053665.1",
                "gtdb_species": "s__Pseudoduganella sp003053665",
                "ani": 82.1776,
                "matched_fragments": 1442,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.77",
                "min_intra_species_ani": "95.97",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_009857595.1",
                "gtdb_species": "s__Pseudoduganella aquatica_A",
                "ani": 82.0474,
                "matched_fragments": 1312,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_001425265.1",
                "gtdb_species": "s__Pseudoduganella sp001425265",
                "ani": 81.9518,
                "matched_fragments": 1423,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_001425045.1",
                "gtdb_species": "s__Pseudoduganella sp001425045",
                "ani": 81.9301,
                "matched_fragments": 1453,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_001191005.1",
                "gtdb_species": "s__Pseudoduganella sp001191005",
                "ani": 80.7789,
                "matched_fragments": 1047,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "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_008011715.1",
                "gtdb_species": "s__Pseudoduganella haloabium",
                "ani": 80.549,
                "matched_fragments": 1060,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.13",
                "min_intra_species_ani": "98.13",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_009720835.1",
                "gtdb_species": "s__Pseudoduganella buxea",
                "ani": 80.4725,
                "matched_fragments": 1055,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_019219065.1",
                "gtdb_species": "s__Duganella sp019219065",
                "ani": 80.2841,
                "matched_fragments": 976,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Duganella",
                "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_900143065.1",
                "gtdb_species": "s__Duganella sacchari",
                "ani": 80.1079,
                "matched_fragments": 1013,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Duganella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.30",
                "min_intra_species_ani": "97.30",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_003311635.1",
                "gtdb_species": "s__Komagataeibacter cocois",
                "ani": 74.9773,
                "matched_fragments": 53,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.20",
                "min_intra_species_ani": "95.16",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_002770725.1",
                "gtdb_species": "s__Pleomorphomonas carboxyditropha",
                "ani": 74.9725,
                "matched_fragments": 154,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Pleomorphomonadaceae;g__Pleomorphomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.10",
                "min_intra_species_ani": "98.10",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_015709455.1",
                "gtdb_species": "s__Methylosinus sp015709455",
                "ani": 74.9473,
                "matched_fragments": 72,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylosinus",
                "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_001899205.1",
                "gtdb_species": "s__Mesorhizobium sp001899205",
                "ani": 74.8635,
                "matched_fragments": 152,
                "total_fragments": 2686,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.31",
                "min_intra_species_ani": "96.64",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 3,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.398,
        "cell_length": -0.097,
        "doubling_h": null,
        "growth_tmp": 28.5,
        "optimum_tmp": 29.0,
        "optimum_ph": null,
        "genome_size": 6107837.0,
        "gc_content": 63.0,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "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": [
        "Pseudoduganella",
        "rivuli"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}