{ "type": "genome", "identifier": "GCF_000280015.1", "organism": "Bartonella alsatica IBS 382", "title": "Bartonella alsatica IBS 382", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Broad Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000280015.1", "bioproject": "PRJNA224116", "biosample": "SAMN02596909", "wgs_master": "AIME00000000.1", "refseq_category": "na", "taxid": "1094551", "species_taxid": "52764", "organism_name": "Bartonella alsatica IBS 382", "infraspecific_name": "strain=IBS 382", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/07/25", "asm_name": "Bart_alsa_IBS_382_V1", "asm_submitter": "Broad Institute", "gbrs_paired_asm": "GCA_000280015.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/280/015/GCF_000280015.1_Bart_alsa_IBS_382_V1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1673902", "genome_size_ungapped": "1646119", "gc_percent": "37.000000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "21", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000280015.1-RS_2024_04_29", "annotation_date": "2024-04-29", "total_gene_count": "1402", "protein_coding_gene_count": "1286", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-07-25", "dateModified": "2012-07-25", "datePublished": "2012-07-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Bartonella alsatica IBS 382" ], "sample_taxid": [ "1094551" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.464 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)": "1673902", "Number of Sequences": "1", "Longest Sequences (bp)": "1673902", "N50 (bp)": "1673902", "Gap Ratio (%)": "1.659775", "GCcontent (%)": "36.9", "Number of CDSs": "1378", "Average Protein Length": "304.1", "Coding Ratio (%)": "75.1", "Number of rRNAs": "9", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bartonella alsatica", "strain": "strain=IBS 382", "accession": "GCA_000280015.1", "taxid": 52764, "species_taxid": 52764, "relation_to_type": "type", "validated": true, "ani": 99.9915, "matched_fragments": 552, "total_fragments": 557, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella alsatica", "strain": "strain=CIP 105477", "accession": "GCA_013388295.1", "taxid": 52764, "species_taxid": 52764, "relation_to_type": "type", "validated": true, "ani": 99.9439, "matched_fragments": 548, "total_fragments": 557, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella callosciuri", "strain": "strain=DSM 28538", "accession": "GCA_014203215.1", "taxid": 686223, "species_taxid": 686223, "relation_to_type": "type", "validated": true, "ani": 84.9176, "matched_fragments": 458, "total_fragments": 557, "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": 84.8857, "matched_fragments": 464, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella birtlesii", "strain": "strain=IBS 325", "accession": "GCA_000273375.1", "taxid": 111504, "species_taxid": 111504, "relation_to_type": "type", "validated": true, "ani": 84.7737, "matched_fragments": 470, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella florencae", "strain": "strain=R4", "accession": "GCA_000312525.1", "taxid": 928210, "species_taxid": 928210, "relation_to_type": "type", "validated": true, "ani": 84.6889, "matched_fragments": 486, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" }, { "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": 84.6873, "matched_fragments": 458, "total_fragments": 557, "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": 84.5382, "matched_fragments": 477, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" }, { "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": 84.4971, "matched_fragments": 468, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" }, { "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": 84.4685, "matched_fragments": 461, "total_fragments": 557, "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": 84.2243, "matched_fragments": 478, "total_fragments": 557, "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": 84.2089, "matched_fragments": 477, "total_fragments": 557, "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": 84.1945, "matched_fragments": 484, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella koehlerae subsp. koehlerae", "strain": "strain=C-29", "accession": "GCA_000706625.1", "taxid": 1819240, "species_taxid": 92181, "relation_to_type": "type", "validated": true, "ani": 84.1425, "matched_fragments": 464, "total_fragments": 557, "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": 83.4933, "matched_fragments": 472, "total_fragments": 557, "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": 82.1836, "matched_fragments": 462, "total_fragments": 557, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013388295.1", "gtdb_species": "s__Bartonella alsatica", "ani": 99.944, "matched_fragments": 549, "total_fragments": 557, "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": "conclusive" }, { "accession": "GCF_902825155.1", "gtdb_species": "s__Bartonella taylorii_A", "ani": 85.405, "matched_fragments": 474, "total_fragments": 557, "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_000278295.1", "gtdb_species": "s__Bartonella taylorii", "ani": 85.3547, "matched_fragments": 487, "total_fragments": 557, "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_000278115.1", "gtdb_species": "s__Bartonella sp000278115", "ani": 85.0596, "matched_fragments": 480, "total_fragments": 557, "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": "97.72", "min_intra_species_ani": "97.72", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014203215.1", "gtdb_species": "s__Bartonella callosciuri", "ani": 84.9176, "matched_fragments": 458, "total_fragments": 557, "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_902825145.1", "gtdb_species": "s__Bartonella phoceensis", "ani": 84.8857, "matched_fragments": 464, "total_fragments": 557, "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_000273375.1", "gtdb_species": "s__Bartonella birtlesii", "ani": 84.7551, "matched_fragments": 467, "total_fragments": 557, "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", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000312525.1", "gtdb_species": "s__Bartonella florencae", "ani": 84.6976, "matched_fragments": 486, "total_fragments": 557, "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_000278235.1", "gtdb_species": "s__Bartonella arupensis", "ani": 84.539, "matched_fragments": 476, "total_fragments": 557, "gtdb_taxonomy": 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