{ "type": "genome", "identifier": "GCF_000706645.1", "organism": "Bartonella rochalimae ATCC BAA-1498", "title": "Bartonella rochalimae ATCC BAA-1498", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Broad Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000706645.1", "bioproject": "PRJNA224116", "biosample": "SAMN00778952", "wgs_master": "AHPK00000000.1", "refseq_category": "reference genome", "taxid": "685782", "species_taxid": "395923", "organism_name": "Bartonella rochalimae ATCC BAA-1498", "infraspecific_name": "strain=BMGH", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/06/17", "asm_name": "Bart_roch_BMGH_V1", "asm_submitter": "Broad Institute", "gbrs_paired_asm": "GCA_000706645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/706/645/GCF_000706645.1_Bart_roch_BMGH_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": "1534143", "genome_size_ungapped": "1506733", "gc_percent": "35.500000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "19", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000706645.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "1333", "protein_coding_gene_count": "1245", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-06-17", "dateModified": "2014-06-17", "datePublished": "2014-06-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Bartonella rochalimae ATCC BAA-1498" ], "sample_taxid": [ "685782" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: San Francisco, CA" ], "sample_host_location_id": [], "data_size": "0.423 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)": "1534143", "Number of Sequences": "3", "Longest Sequences (bp)": "1097474", "N50 (bp)": "1097474", "Gap Ratio (%)": "1.786665", "GCcontent (%)": "35.7", "Number of CDSs": "1297", "Average Protein Length": "312.3", "Coding Ratio (%)": "79.2", "Number of rRNAs": "6", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 99.9841, "matched_fragments": 501, "total_fragments": 510, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella clarridgeiae", "strain": "strain=ATCC 51734", "accession": "GCA_000518185.1", "taxid": 56426, "species_taxid": 56426, "relation_to_type": "type", "validated": true, "ani": 88.6, "matched_fragments": 446, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella schoenbuchensis", "strain": "strain=CCUG 50783", "accession": "GCA_902810545.1", "taxid": 165694, "species_taxid": 165694, "relation_to_type": "suspected-type", "validated": true, "ani": 80.0722, "matched_fragments": 335, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella capreoli", "strain": "strain=DSM 21569", "accession": "GCA_902813205.1", "taxid": 155192, "species_taxid": 155192, "relation_to_type": "type", "validated": true, "ani": 80.0531, "matched_fragments": 329, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella bovis", "strain": "strain=91-4", "accession": "GCA_000384965.1", "taxid": 155194, "species_taxid": 155194, "relation_to_type": "type", "validated": true, "ani": 79.9423, "matched_fragments": 338, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella schoenbuchensis", "strain": "strain=R1", "accession": "GCA_002022685.1", "taxid": 165694, "species_taxid": 165694, "relation_to_type": "type", "validated": true, "ani": 79.8689, "matched_fragments": 344, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella bovis", "strain": "strain=CIP 106692", "accession": "GCA_902728095.1", "taxid": 155194, "species_taxid": 155194, "relation_to_type": "type", "validated": true, "ani": 79.8678, "matched_fragments": 331, "total_fragments": 510, "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": 79.3829, "matched_fragments": 314, "total_fragments": 510, "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": 79.3519, "matched_fragments": 318, "total_fragments": 510, "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": 79.3485, "matched_fragments": 317, "total_fragments": 510, "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": 79.3108, "matched_fragments": 308, "total_fragments": 510, "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": 79.1623, "matched_fragments": 309, "total_fragments": 510, "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": 79.1568, "matched_fragments": 316, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella vinsonii subsp. arupensis", "strain": "strain=ATCC 700727", "accession": 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"relation_to_type": "type", "validated": true, "ani": 78.692, "matched_fragments": 317, "total_fragments": 510, "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": 78.6771, "matched_fragments": 277, "total_fragments": 510, "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": 78.6697, "matched_fragments": 253, "total_fragments": 510, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000706645.1", "gtdb_species": "s__Bartonella rochalimae", "ani": 99.984, 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Bartonella", "rochalimae", "ATCC", "BAA-1498" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }