{ "type": "genome", "identifier": "GCF_902825225.1", "organism": "Bartonella vinsonii subsp. berkhoffii ATCC 51672", "title": "Bartonella vinsonii subsp. berkhoffii ATCC 51672", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Unite de Recherche sur les Maladies Infectieuses et Tropicales Emergentes (URMITE) CNRS, Faculte de Medecine, Universite de la Mediterranee, Marseille, France", "publication": [ {} ], "properties": { "assembly_accession": "GCF_902825225.1", "bioproject": "PRJNA224116", "biosample": "SAMEA6606223", "wgs_master": "CADEAK000000000.1", "refseq_category": "na", "taxid": "1408318", "species_taxid": "33047", "organism_name": "Bartonella vinsonii subsp. berkhoffii ATCC 51672", "infraspecific_name": "strain=CIP 104960", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/19", "asm_name": "Bartonella_vinsonii_subsp_berkhoffii_CIP_104960", "asm_submitter": "Unite de Recherche sur les Maladies Infectieuses et Tropicales Emergentes (URMITE) CNRS, Faculte de Medecine, Universite de la Mediterranee, Marseille, France", "gbrs_paired_asm": "GCA_902825225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/902/825/225/GCF_902825225.1_Bartonella_vinsonii_subsp_berkhoffii_CIP_104960", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1948736", "genome_size_ungapped": "1947430", "gc_percent": "39.000000", "replicon_count": "0", "scaffold_count": "387", "contig_count": "387", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_902825225.1-RS_2024_05_07", "annotation_date": "2024-05-07", "total_gene_count": "2005", "protein_coding_gene_count": "1687", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-19", "dateModified": "2021-03-19", "datePublished": "2021-03-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Bartonella vinsonii subsp. berkhoffii ATCC 51672" ], "sample_taxid": [ "1408318" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.551 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)": "1948139", "Number of Sequences": "383", "Longest Sequences (bp)": "233908", "N50 (bp)": "145381", "Gap Ratio (%)": "0.067038", "GCcontent (%)": "39.0", "Number of CDSs": "1651", "Average Protein Length": "282.6", "Coding Ratio (%)": "71.9", "Number of rRNAs": "3", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bartonella vinsonii subsp. berkhoffii", "strain": "strain=CIP 104960", "accession": "GCA_902825225.1", "taxid": 40933, "species_taxid": 33047, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 562, "total_fragments": 565, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella vinsonii subsp. berkhoffii", "strain": "strain=ATCC 51672", "accession": "GCA_000518105.1", "taxid": 40933, "species_taxid": 33047, "relation_to_type": "type", "validated": true, "ani": 99.9345, "matched_fragments": 538, "total_fragments": 565, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella vinsonii subsp. arupensis", "strain": "strain=ATCC 700727", "accession": "GCA_902825115.1", "taxid": 110578, "species_taxid": 33047, "relation_to_type": "type", "validated": true, "ani": 92.2376, "matched_fragments": 509, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella vinsonii subsp. arupensis", "strain": "strain=OK-94-513", "accession": "GCA_000278235.1", "taxid": 110578, "species_taxid": 33047, "relation_to_type": "type", "validated": true, "ani": 92.1584, "matched_fragments": 516, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella harrusi", "strain": "strain=117A", "accession": "GCA_024297065.1", "taxid": 2961895, "species_taxid": 2961895, "relation_to_type": "type", "validated": true, "ani": 85.2756, "matched_fragments": 505, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella phoceensis", "strain": "strain=CIP107707", "accession": "GCA_902825145.1", "taxid": 270249, "species_taxid": 270249, "relation_to_type": "type", "validated": true, "ani": 84.6849, "matched_fragments": 482, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella callosciuri", "strain": "strain=DSM 28538", "accession": "GCA_014203215.1", "taxid": 686223, "species_taxid": 686223, "relation_to_type": "type", "validated": true, "ani": 84.6696, "matched_fragments": 464, "total_fragments": 565, "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": 84.0851, "matched_fragments": 480, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella henselae", "strain": "strain=G-5436", "accession": "GCA_021560445.1", "taxid": 38323, "species_taxid": 38323, "relation_to_type": "type", "validated": true, "ani": 84.0507, "matched_fragments": 473, "total_fragments": 565, "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": 84.0492, "matched_fragments": 484, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella henselae", "strain": "strain=Houston-1", "accession": "GCA_000046705.1", "taxid": 38323, "species_taxid": 38323, "relation_to_type": "type", "validated": true, "ani": 83.9574, "matched_fragments": 481, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella grahamii", "strain": "strain=NCTC12860", "accession": "GCA_900445635.1", "taxid": 33045, "species_taxid": 33045, "relation_to_type": "type", "validated": true, "ani": 83.631, "matched_fragments": 502, "total_fragments": 565, "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": 82.658, "matched_fragments": 402, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella rochalimae", "strain": "strain=ATCC BAA-1498", "accession": "GCA_000706645.1", "taxid": 395923, "species_taxid": 395923, "relation_to_type": "type", "validated": true, "ani": 79.0681, "matched_fragments": 304, "total_fragments": 565, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_902825225.1", "gtdb_species": "s__Bartonella berkhoffii", "ani": 100.0, "matched_fragments": 562, "total_fragments": 565, "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": "99.74", "min_intra_species_ani": "99.27", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_902825235.1", "gtdb_species": "s__Bartonella vinsonii", "ani": 93.7714, "matched_fragments": 532, "total_fragments": 565, "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": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000278235.1", "gtdb_species": "s__Bartonella arupensis", "ani": 92.1584, "matched_fragments": 516, "total_fragments": 565, "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_000278295.1", "gtdb_species": "s__Bartonella taylorii", "ani": 85.5516, "matched_fragments": 503, "total_fragments": 565, "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": "98.74", "min_intra_species_ani": "97.76", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_902825145.1", "gtdb_species": "s__Bartonella phoceensis", "ani": 84.6849, "matched_fragments": 482, "total_fragments": 565, "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_014203215.1", "gtdb_species": "s__Bartonella callosciuri", "ani": 84.6625, "matched_fragments": 465, "total_fragments": 565, "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_013388295.1", "gtdb_species": "s__Bartonella alsatica", "ani": 84.519, "matched_fragments": 452, "total_fragments": 565, "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": "99.98", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000278135.1", "gtdb_species": "s__Bartonella washoeensis", "ani": 84.185, "matched_fragments": 493, "total_fragments": 565, "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": "98.94", "min_intra_species_ani": "98.02", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000273375.1", "gtdb_species": "s__Bartonella birtlesii", "ani": 84.059, "matched_fragments": 476, "total_fragments": 565, "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": "99.71", "min_intra_species_ani": "99.25", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.95", 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"gtdb_species": "s__Bartonella rattaustraliani", "ani": 82.677, "matched_fragments": 446, "total_fragments": 565, "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_000312585.1", "gtdb_species": "s__Bartonella queenslandensis_A", "ani": 82.2246, "matched_fragments": 472, "total_fragments": 565, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, 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