{
    "type": "genome",
    "identifier": "GCF_009184905.1",
    "organism": "Parvibaculum sedimenti",
    "title": "Parvibaculum sedimenti",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Department of Microbiology, College of Life Science",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_009184905.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN12719223",
        "wgs_master": "WESC00000000.1",
        "refseq_category": "reference genome",
        "taxid": "2608632",
        "species_taxid": "2608632",
        "organism_name": "Parvibaculum sedimenti",
        "infraspecific_name": "strain=HXT-9",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/10/20",
        "asm_name": "ASM918490v1",
        "asm_submitter": "Department of Microbiology, College of Life Science",
        "gbrs_paired_asm": "GCA_009184905.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/184/905/GCF_009184905.1_ASM918490v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3701047",
        "genome_size_ungapped": "3701047",
        "gc_percent": "62.000000",
        "replicon_count": "0",
        "scaffold_count": "41",
        "contig_count": "41",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_009184905.1-RS_2024_05_05",
        "annotation_date": "2024-05-05",
        "total_gene_count": "3541",
        "protein_coding_gene_count": "3456",
        "non_coding_gene_count": "53",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-10-20",
    "dateModified": "2019-10-20",
    "datePublished": "2019-10-20",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Parvibaculum sedimenti"
        ],
        "sample_taxid": [
            "2608632"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "China:Nanjing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.032 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": 30.0,
            "max": 30.0
        },
        "completeness": 100.0,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "3701047",
        "Number of Sequences": "41",
        "Longest Sequences (bp)": "386972",
        "N50 (bp)": "226460",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "62.1",
        "Number of CDSs": "3499",
        "Average Protein Length": "316.9",
        "Coding Ratio (%)": "89.9",
        "Number of rRNAs": "3",
        "Number of tRNAs": "48",
        "Number of CRISPRs": "2"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Parvibaculum sedimenti",
                "strain": "strain=HXT-9",
                "accession": "GCA_009184905.1",
                "taxid": 2608632,
                "species_taxid": 2608632,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1210,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Parvibaculum lavamentivorans",
                "strain": "strain=DS-1",
                "accession": "GCA_000017565.1",
                "taxid": 256618,
                "species_taxid": 256618,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.051,
                "matched_fragments": 507,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Parvibaculum indicum",
                "strain": "strain=DSM 25305",
                "accession": "GCA_011762095.1",
                "taxid": 562969,
                "species_taxid": 562969,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.1412,
                "matched_fragments": 506,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Tepidicaulis marinus",
                "strain": "strain=MA2",
                "accession": "GCA_000739695.1",
                "taxid": 1333998,
                "species_taxid": 1333998,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.2788,
                "matched_fragments": 290,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kaistia hirudinis",
                "strain": "strain=DSM 25966",
                "accession": "GCA_014196455.1",
                "taxid": 1293440,
                "species_taxid": 1293440,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5563,
                "matched_fragments": 211,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pyruvatibacter mobilis",
                "strain": "strain=CGMCC 1.15125",
                "accession": "GCA_014640905.1",
                "taxid": 1712261,
                "species_taxid": 1712261,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3831,
                "matched_fragments": 191,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobrevis pamukkalensis",
                "strain": "strain=PK2",
                "accession": "GCA_001720135.1",
                "taxid": 1439726,
                "species_taxid": 1439726,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3498,
                "matched_fragments": 171,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pyruvatibacter mobilis",
                "strain": "strain=GYP-11",
                "accession": "GCA_009910475.1",
                "taxid": 1712261,
                "species_taxid": 1712261,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.335,
                "matched_fragments": 185,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kaistia adipata",
                "strain": "strain=DSM 17808",
                "accession": "GCA_000423225.1",
                "taxid": 166954,
                "species_taxid": 166954,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.2562,
                "matched_fragments": 206,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kaistia granuli",
                "strain": "strain=Ko04",
                "accession": "GCA_000380505.1",
                "taxid": 363259,
                "species_taxid": 363259,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.127,
                "matched_fragments": 191,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Ciceribacter ferrooxidans",
                "strain": "strain=F8825",
                "accession": "GCA_004137355.1",
                "taxid": 2509717,
                "species_taxid": 2509717,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.0138,
                "matched_fragments": 136,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Devosia salina",
                "strain": "strain=SCS-3",
                "accession": "GCA_019504385.1",
                "taxid": 2860336,
                "species_taxid": 2860336,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.9502,
                "matched_fragments": 111,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobrevis albus",
                "strain": "strain=L22",
                "accession": "GCA_015904235.1",
                "taxid": 2793297,
                "species_taxid": 2793297,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.9409,
                "matched_fragments": 188,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthobacter aminoxidans",
                "strain": "strain=ATCC BAA-299",
                "accession": "GCA_023571765.1",
                "taxid": 186280,
                "species_taxid": 186280,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.9279,
                "matched_fragments": 166,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bosea lathyri",
                "strain": "strain=DSM 26656",
                "accession": "GCA_900108245.1",
                "taxid": 1036778,
                "species_taxid": 1036778,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7627,
                "matched_fragments": 174,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylosinus trichosporium",
                "strain": "strain=OB3b",
                "accession": "GCA_000178815.2",
                "taxid": 426,
                "species_taxid": 426,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7495,
                "matched_fragments": 174,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthobacter oligotrophicus",
                "strain": "strain=29k",
                "accession": "GCA_008364685.1",
                "taxid": 2607286,
                "species_taxid": 2607286,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4562,
                "matched_fragments": 160,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhodoligotrophos defluvii",
                "strain": "strain=lm1",
                "accession": "GCA_005281615.1",
                "taxid": 2561934,
                "species_taxid": 2561934,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4353,
                "matched_fragments": 119,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium bullatum",
                "strain": "strain=LMG 24788",
                "accession": "GCA_014845095.1",
                "taxid": 570505,
                "species_taxid": 570505,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.432,
                "matched_fragments": 127,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium goesingense",
                "strain": "strain=DSM 21331",
                "accession": "GCA_022179225.1",
                "taxid": 243690,
                "species_taxid": 243690,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4138,
                "matched_fragments": 126,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Magnetospirillum caucaseum",
                "strain": "strain=SO-1",
                "accession": "GCA_000342045.1",
                "taxid": 1244869,
                "species_taxid": 1244869,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4096,
                "matched_fragments": 117,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium bullatum",
                "strain": "strain=DSM 21893",
                "accession": "GCA_022179105.1",
                "taxid": 570505,
                "species_taxid": 570505,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3914,
                "matched_fragments": 134,
                "total_fragments": 1211,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_009184905.1",
                "gtdb_species": "s__Parvibaculum sedimenti",
                "ani": 100.0,
                "matched_fragments": 1210,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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": "GCA_903889655.1",
                "gtdb_species": "s__Parvibaculum sp903889655",
                "ani": 83.2633,
                "matched_fragments": 778,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.81",
                "min_intra_species_ani": "99.81",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000017565.1",
                "gtdb_species": "s__Parvibaculum lavamentivorans",
                "ani": 80.073,
                "matched_fragments": 505,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_002842875.1",
                "gtdb_species": "s__Parvibaculum sp002842875",
                "ani": 79.6038,
                "matched_fragments": 505,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_002841195.1",
                "gtdb_species": "s__Parvibaculum sp002841195",
                "ani": 79.5673,
                "matched_fragments": 442,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_002480495.1",
                "gtdb_species": "s__Parvibaculum sp002480495",
                "ani": 79.5632,
                "matched_fragments": 548,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.50",
                "min_intra_species_ani": "98.87",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 9,
                "status": "-"
            },
            {
                "accession": "GCA_017642695.1",
                "gtdb_species": "s__Parvibaculum sp017642695",
                "ani": 79.205,
                "matched_fragments": 489,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.96",
                "min_intra_species_ani": "99.92",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.97",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_011762095.1",
                "gtdb_species": "s__Parvibaculum indicum",
                "ani": 79.132,
                "matched_fragments": 507,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_002684405.1",
                "gtdb_species": "s__Parvibaculum sp002684405",
                "ani": 78.9359,
                "matched_fragments": 406,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_013823365.1",
                "gtdb_species": "s__Parvibaculum sp013823365",
                "ani": 78.85,
                "matched_fragments": 390,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_014359855.1",
                "gtdb_species": "s__Parvibaculum sp014359855",
                "ani": 78.7453,
                "matched_fragments": 329,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Parvibaculales;f__Parvibaculaceae;g__Parvibaculum",
                "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_001720135.1",
                "gtdb_species": "s__Methylobrevis pamukkalensis",
                "ani": 77.3501,
                "matched_fragments": 171,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Pleomorphomonadaceae;g__Methylobrevis",
                "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_016629525.1",
                "gtdb_species": "s__Kaistia sp016629525",
                "ani": 77.2174,
                "matched_fragments": 210,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Kaistiaceae;g__Kaistia",
                "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_017305815.1",
                "gtdb_species": "s__Kaistia sp017305815",
                "ani": 76.8784,
                "matched_fragments": 156,
                "total_fragments": 1211,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Kaistiaceae;g__Kaistia",
                "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": -0.482,
        "cell_length": 0.065,
        "doubling_h": null,
        "growth_tmp": 31.0,
        "optimum_tmp": 32.0,
        "optimum_ph": 7.5,
        "genome_size": 3914744.0,
        "gc_content": 62.3,
        "coding_genes": 3632.0,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 45.0,
        "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": [
        "Parvibaculum",
        "sedimenti"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}