{
    "type": "genome",
    "identifier": "GCF_001267925.1",
    "organism": "Herbaspirillum hiltneri N3",
    "title": "Herbaspirillum hiltneri N3",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Universidade Federal do Parana",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001267925.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN03010392",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "1262470",
        "species_taxid": "341045",
        "organism_name": "Herbaspirillum hiltneri N3",
        "infraspecific_name": "strain=N3",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2015/08/17",
        "asm_name": "ASM126792v1",
        "asm_submitter": "Universidade Federal do Parana",
        "gbrs_paired_asm": "GCA_001267925.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/267/925/GCF_001267925.1_ASM126792v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4965474",
        "genome_size_ungapped": "4965474",
        "gc_percent": "61.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_001267925.1-RS_2024_12_09",
        "annotation_date": "2024-12-09",
        "total_gene_count": "4594",
        "protein_coding_gene_count": "4464",
        "non_coding_gene_count": "67",
        "pubmed_id": "26514770"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2015-08-17",
    "dateModified": "2015-08-17",
    "datePublished": "2015-08-17",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Herbaspirillum hiltneri N3"
        ],
        "sample_taxid": [
            "1262470"
        ],
        "sample_host_organism": [
            "wheat root"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Germany: Oberpfalz, Neumarkt"
        ],
        "sample_host_location_id": [],
        "data_size": "1.378 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": 30.0,
            "max": 30.0
        },
        "completeness": 100.0,
        "contamination": 22.22,
        "strain_heterogeneity": 100.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "4965474",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "4965474",
        "N50 (bp)": "4965474",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "60.8",
        "Number of CDSs": "4490",
        "Average Protein Length": "325.3",
        "Coding Ratio (%)": "88.2",
        "Number of rRNAs": "4",
        "Number of tRNAs": "51",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Herbaspirillum hiltneri",
                "strain": "strain=N3",
                "accession": "GCA_001267925.1",
                "taxid": 341045,
                "species_taxid": 341045,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1646,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Herbaspirillum lusitanum",
                "strain": "strain=P6-12",
                "accession": "GCA_000256565.1",
                "taxid": 213312,
                "species_taxid": 213312,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.088,
                "matched_fragments": 1024,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum rhizosphaerae",
                "strain": "strain=UMS-37",
                "accession": "GCA_001189965.1",
                "taxid": 346179,
                "species_taxid": 346179,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.8791,
                "matched_fragments": 1248,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum robiniae",
                "strain": "strain=HZ10",
                "accession": "GCA_002213415.1",
                "taxid": 2014887,
                "species_taxid": 2014887,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.7347,
                "matched_fragments": 1040,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum chlorophenolicum",
                "strain": "strain=CPW301",
                "accession": "GCA_001189955.1",
                "taxid": 211589,
                "species_taxid": 211589,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.1992,
                "matched_fragments": 900,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum chlorophenolicum",
                "strain": "strain=NBRC 102525",
                "accession": "GCA_001571165.1",
                "taxid": 211589,
                "species_taxid": 211589,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.129,
                "matched_fragments": 892,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum huttiense subsp. putei",
                "strain": "strain=IAM 15032",
                "accession": "GCA_000478365.1",
                "taxid": 230311,
                "species_taxid": 863372,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5874,
                "matched_fragments": 925,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum camelliae",
                "strain": "strain=WT00C",
                "accession": "GCA_001929405.1",
                "taxid": 1892903,
                "species_taxid": 1892903,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.2139,
                "matched_fragments": 869,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum aquaticum",
                "strain": "strain=IEH 4430",
                "accession": "GCA_002213425.1",
                "taxid": 568783,
                "species_taxid": 568783,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.0285,
                "matched_fragments": 913,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Herbaspirillum autotrophicum",
                "strain": "strain=IAM 14942",
                "accession": "GCA_001189915.1",
                "taxid": 180195,
                "species_taxid": 180195,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.8859,
                "matched_fragments": 832,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Collimonas fungivorans",
                "strain": "strain=Ter6",
                "accession": "GCA_001584145.1",
                "taxid": 158899,
                "species_taxid": 158899,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.5372,
                "matched_fragments": 660,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Collimonas pratensis",
                "strain": "strain=Ter91",
                "accession": "GCA_001584185.1",
                "taxid": 279113,
                "species_taxid": 279113,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.3226,
                "matched_fragments": 662,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Collimonas arenae",
                "strain": "strain=Ter10",
                "accession": "GCA_001584165.1",
                "taxid": 279058,
                "species_taxid": 279058,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.6268,
                "matched_fragments": 573,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Noviherbaspirillum aridicola",
                "strain": "strain=NCCP-691",
                "accession": "GCA_019656455.1",
                "taxid": 2849687,
                "species_taxid": 2849687,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.3347,
                "matched_fragments": 509,
                "total_fragments": 1655,
                "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": 78.9043,
                "matched_fragments": 519,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Massilia agilis",
                "strain": "strain=JCM 31605",
                "accession": "GCA_024756255.1",
                "taxid": 1811226,
                "species_taxid": 1811226,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8349,
                "matched_fragments": 472,
                "total_fragments": 1655,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 22.22,
            "strain_heterogeneity": 100.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001267925.1",
                "gtdb_species": "s__Herbaspirillum hiltneri",
                "ani": 100.0,
                "matched_fragments": 1643,
                "total_fragments": 1655,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.60",
                "min_intra_species_ani": "97.60",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "conclusive"
            },
            {
                "accession": "GCF_004563925.1",
                "gtdb_species": "s__Herbaspirillum sp004563925",
                "ani": 91.2266,
                "matched_fragments": 1360,
                "total_fragments": 1655,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_000256565.1",
                "gtdb_species": "s__Herbaspirillum lusitanum",
                "ani": 91.0931,
                "matched_fragments": 1024,
                "total_fragments": 1655,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum",
                "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_000282135.1",
                "gtdb_species": "s__Herbaspirillum sp000282135",
                "ani": 86.9755,
                "matched_fragments": 1223,
                "total_fragments": 1655,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum",
                "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_001189965.1",
                "gtdb_species": "s__Herbaspirillum rhizosphaerae",
                "ani": 86.8884,
                "matched_fragments": 1247,
                "total_fragments": 1655,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum",
                "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_000577615.1",
                "gtdb_species": "s__Herbaspirillum sp000577615",
                "ani": 86.2024,
                "matched_fragments": 1201,
                "total_fragments": 1655,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum",
                "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": -0.302,
        "cell_length": 0.204,
        "doubling_h": null,
        "growth_tmp": 30.0,
        "optimum_tmp": 28.0,
        "optimum_ph": 6.666,
        "genome_size": 4965473.2,
        "gc_content": 60.78,
        "coding_genes": 4369.667,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 49.0,
        "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": 0.625,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.125,
        "spiral_cell_shape": 0.25
    },
    "_genome_taxon": [
        "Herbaspirillum",
        "hiltneri",
        "N3"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}