{ "type": "genome", "identifier": "GCF_014197255.1", "organism": "Bartonella fuyuanensis", "title": "Bartonella fuyuanensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014197255.1", "bioproject": "PRJNA224116", "biosample": "SAMN13173790", "wgs_master": "JACIFE000000000.1", "refseq_category": "reference genome", "taxid": "1460968", "species_taxid": "1460968", "organism_name": "Bartonella fuyuanensis", "infraspecific_name": "strain=DSM 100694", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419725v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014197255.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/197/255/GCF_014197255.1_ASM1419725v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1944744", "genome_size_ungapped": "1944166", "gc_percent": "36.500000", "replicon_count": "0", "scaffold_count": "81", "contig_count": "81", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014197255.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "1648", "protein_coding_gene_count": "1452", "non_coding_gene_count": "46", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Bartonella fuyuanensis" ], "sample_taxid": [ "1460968" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.547 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)": "1944744", "Number of Sequences": "81", "Longest Sequences (bp)": "407409", "N50 (bp)": "87876", "Gap Ratio (%)": "0.029721", "GCcontent (%)": "36.7", "Number of CDSs": "1522", "Average Protein Length": "296.1", "Coding Ratio (%)": "69.5", "Number of rRNAs": "3", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bartonella fuyuanensis", "strain": "strain=DSM 100694", "accession": "GCA_014197255.1", "taxid": 1460968, "species_taxid": 1460968, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 605, "total_fragments": 607, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella grahamii", "strain": "strain=NCTC12860", "accession": "GCA_900445635.1", "taxid": 33045, "species_taxid": 33045, "relation_to_type": "type", "validated": true, "ani": 87.9569, "matched_fragments": 547, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella grahamii", "strain": "strain=ATCC 700132", "accession": "GCA_000518085.1", "taxid": 33045, "species_taxid": 33045, "relation_to_type": "type", "validated": true, "ani": 87.9329, "matched_fragments": 534, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella rattimassiliensis", "strain": "strain=15908", "accession": "GCA_000312605.2", "taxid": 270250, "species_taxid": 270250, "relation_to_type": "type", "validated": true, "ani": 87.294, "matched_fragments": 504, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella rattimassiliensis", "strain": "strain=15908", "accession": "GCA_000278215.1", "taxid": 270250, "species_taxid": 270250, "relation_to_type": "type", "validated": true, "ani": 87.0755, "matched_fragments": 537, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella tribocorum", "strain": "strain=type strain:506 = CIP 105476", "accession": "GCA_000196435.1", "taxid": 85701, "species_taxid": 85701, "relation_to_type": "suspected-type", "validated": true, "ani": 86.9908, "matched_fragments": 550, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella gabonensis", "strain": "strain=669", "accession": "GCA_903679515.1", "taxid": 2699889, "species_taxid": 2699889, "relation_to_type": "type", "validated": true, "ani": 86.5844, "matched_fragments": 496, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella kosoyi", "strain": "strain=Tel Aviv", "accession": "GCA_003606325.3", "taxid": 2133959, "species_taxid": 2133959, "relation_to_type": "type", "validated": true, "ani": 86.5458, "matched_fragments": 532, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella elizabethae", "strain": "strain=ATCC 49927", "accession": "GCA_000518165.1", "taxid": 807, "species_taxid": 807, "relation_to_type": "type", "validated": true, "ani": 86.4744, "matched_fragments": 510, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella elizabethae", "strain": "strain=ATCC 49927", "accession": "GCA_902825135.1", "taxid": 807, "species_taxid": 807, "relation_to_type": "type", "validated": true, "ani": 86.3882, "matched_fragments": 506, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella elizabethae", "strain": "strain=F9251", "accession": "GCA_000278315.1", "taxid": 807, "species_taxid": 807, "relation_to_type": "type", "validated": true, "ani": 86.3372, "matched_fragments": 518, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella krasnovii", "strain": "strain=OE 1-1", "accession": "GCA_003606345.3", "taxid": 2267275, "species_taxid": 2267275, "relation_to_type": "type", "validated": true, "ani": 85.7977, "matched_fragments": 528, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella saheliensis", "strain": "strain=077", "accession": "GCA_902162175.1", "taxid": 1457016, "species_taxid": 1457016, "relation_to_type": "type", "validated": true, "ani": 85.5879, "matched_fragments": 442, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella henselae", "strain": "strain=FDAARGOS_1462", "accession": "GCA_019930925.1", "taxid": 38323, "species_taxid": 38323, "relation_to_type": "type", "validated": true, "ani": 81.9847, "matched_fragments": 443, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella henselae", "strain": "strain=Houston-I", "accession": "GCA_002735245.1", "taxid": 38323, "species_taxid": 38323, "relation_to_type": "type", "validated": true, "ani": 81.9454, "matched_fragments": 447, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella doshiae", "strain": "strain=NCTC 12862", "accession": "GCA_000278155.1", "taxid": 33044, "species_taxid": 33044, "relation_to_type": "type", "validated": true, "ani": 81.3254, "matched_fragments": 425, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella doshiae", "strain": "strain=NCTC12862", "accession": "GCA_900445535.1", "taxid": 33044, "species_taxid": 33044, "relation_to_type": "type", "validated": true, "ani": 81.2848, "matched_fragments": 436, "total_fragments": 607, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014197255.1", "gtdb_species": "s__Bartonella fuyuanensis", "ani": 100.0, "matched_fragments": 605, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_000518085.1", "gtdb_species": "s__Bartonella grahamii", "ani": 87.9329, "matched_fragments": 534, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.67", "min_intra_species_ani": "99.54", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000278215.1", "gtdb_species": "s__Bartonella rattimassiliensis", "ani": 87.1179, "matched_fragments": 536, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000196435.1", "gtdb_species": "s__Bartonella tribocorum", "ani": 86.9655, "matched_fragments": 551, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.92", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002777915.1", "gtdb_species": "s__Bartonella tribocorum_A", "ani": 86.7143, "matched_fragments": 532, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000312585.1", "gtdb_species": "s__Bartonella queenslandensis_A", "ani": 86.6665, "matched_fragments": 521, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_018155095.1", "gtdb_species": "s__Bartonella queenslandensis_B", "ani": 86.6626, "matched_fragments": 524, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_903679515.1", "gtdb_species": "s__Bartonella gabonensis", "ani": 86.5855, "matched_fragments": 497, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_003606325.2", "gtdb_species": "s__Bartonella kosoyi", "ani": 86.5643, "matched_fragments": 531, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_002778015.1", "gtdb_species": "s__Bartonella tribocorum_B", "ani": 86.535, "matched_fragments": 508, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000278235.1", "gtdb_species": "s__Bartonella arupensis", "ani": 81.9767, "matched_fragments": 462, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.53", "min_intra_species_ani": "99.17", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000278155.1", "gtdb_species": "s__Bartonella doshiae", "ani": 81.3318, "matched_fragments": 425, "total_fragments": 607, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.97", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.315, "cell_length": 0.071, "doubling_h": 0.627, "growth_tmp": 36.224, "optimum_tmp": 33.909, "optimum_ph": 7.366, "genome_size": 1912158.156, "gc_content": 38.327, "coding_genes": 1584.487, "rRNA16S_genes": 2.0, "tRNA_genes": 42.703, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.583, "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": 0.687, "coccus_cell_shape": 0.062, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.25, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Bartonella", "fuyuanensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }