{ "type": "genome", "identifier": "GCF_013388295.1", "organism": "Bartonella alsatica", "title": "Bartonella alsatica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University Hospital Frankfurt, Goethe University, Institute for Medical Microbiology and Infection Control", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013388295.1", "bioproject": "PRJNA224116", "biosample": "SAMN15350025", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "52764", "species_taxid": "52764", "organism_name": "Bartonella alsatica", "infraspecific_name": "strain=CIP 105477", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/04", "asm_name": "ASM1338829v1", "asm_submitter": "University Hospital Frankfurt, Goethe University, Institute for Medical Microbiology and Infection Control", "gbrs_paired_asm": "GCA_013388295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/388/295/GCF_013388295.1_ASM1338829v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1659117", "genome_size_ungapped": "1659117", "gc_percent": "37.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013388295.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "1399", "protein_coding_gene_count": "1287", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-04", "dateModified": "2020-07-04", "datePublished": "2020-07-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Bartonella alsatica" ], "sample_taxid": [ "52764" ], "sample_host_organism": [ "Oryctolagus cuniculus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France: Strasbourg, Alsace region" ], "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)": "1659117", "Number of Sequences": "1", "Longest Sequences (bp)": "1659117", "N50 (bp)": "1659117", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.9", "Number of CDSs": "1386", "Average Protein Length": "307.2", "Coding Ratio (%)": "77.0", "Number of rRNAs": "6", "Number of tRNAs": "42", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bartonella alsatica", "strain": "strain=CIP 105477", "accession": "GCA_013388295.1", "taxid": 52764, "species_taxid": 52764, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 552, "total_fragments": 553, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bartonella alsatica", "strain": "strain=IBS 382", "accession": "GCA_000280015.1", "taxid": 52764, "species_taxid": 52764, "relation_to_type": "type", "validated": true, "ani": 99.9602, "matched_fragments": 548, "total_fragments": 553, "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": 84.8541, "matched_fragments": 471, "total_fragments": 553, "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": 84.8058, "matched_fragments": 466, "total_fragments": 553, "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": 84.7971, "matched_fragments": 467, "total_fragments": 553, "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": 84.7933, "matched_fragments": 466, "total_fragments": 553, "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": 84.604, "matched_fragments": 463, "total_fragments": 553, "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": 84.5764, "matched_fragments": 463, "total_fragments": 553, "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": 84.5567, "matched_fragments": 458, "total_fragments": 553, "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": 84.5117, "matched_fragments": 460, "total_fragments": 553, "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": 84.4066, "matched_fragments": 470, "total_fragments": 553, "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": 84.3139, "matched_fragments": 481, "total_fragments": 553, "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": 84.2792, "matched_fragments": 479, "total_fragments": 553, "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": 84.0271, "matched_fragments": 466, "total_fragments": 553, "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": 83.5823, "matched_fragments": 463, "total_fragments": 553, "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": 82.1521, "matched_fragments": 475, "total_fragments": 553, "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": 100.0, "matched_fragments": 553, "total_fragments": 553, "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_000278295.1", "gtdb_species": "s__Bartonella taylorii", "ani": 85.3929, "matched_fragments": 492, "total_fragments": 553, "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_902825155.1", "gtdb_species": "s__Bartonella taylorii_A", "ani": 85.3452, "matched_fragments": 467, "total_fragments": 553, "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_000278115.1", "gtdb_species": "s__Bartonella sp000278115", "ani": 85.0729, "matched_fragments": 482, "total_fragments": 553, "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", 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