{ "type": "genome", "identifier": "GCF_002738305.1", "organism": "Campylobacter vulpis", "title": "Campylobacter vulpis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "university of milan", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002738305.1", "bioproject": "PRJNA224116", "biosample": "SAMN03699829", "wgs_master": "LDWZ00000000.1", "refseq_category": "na", "taxid": "1655500", "species_taxid": "1655500", "organism_name": "Campylobacter vulpis", "infraspecific_name": "strain=251/13", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/31", "asm_name": "vulpis66_v1", "asm_submitter": "university of milan", "gbrs_paired_asm": "GCA_002738305.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/738/305/GCF_002738305.1_vulpis66_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": "1621177", "genome_size_ungapped": "1620261", "gc_percent": "34.500000", "replicon_count": "0", "scaffold_count": "101", "contig_count": "101", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002738305.1-RS_2024_08_31", "annotation_date": "2024-08-31", "total_gene_count": "1734", "protein_coding_gene_count": "1634", "non_coding_gene_count": "43", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-10-31", "dateModified": "2017-10-31", "datePublished": "2017-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Campylobacter vulpis" ], "sample_taxid": [ "1655500" ], "sample_host_organism": [ "fox" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Italy:Granarolo dell'Emilia (Bologna)" ], "sample_host_location_id": [], "data_size": "0.446 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)": "1621177", "Number of Sequences": "101", "Longest Sequences (bp)": "112082", "N50 (bp)": "46683", "Gap Ratio (%)": "0.060882", "GCcontent (%)": "34.6", "Number of CDSs": "1577", "Average Protein Length": "306.4", "Coding Ratio (%)": "89.4", "Number of rRNAs": "2", "Number of tRNAs": "37", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Campylobacter vulpis", "strain": "strain=251/13", "accession": "GCA_002738305.1", "taxid": 1655500, "species_taxid": 1655500, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 493, "total_fragments": 497, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Campylobacter upsaliensis", "strain": "strain=DSM 5365", "accession": "GCA_000620965.1", "taxid": 28080, "species_taxid": 28080, "relation_to_type": "type", "validated": true, "ani": 91.1988, "matched_fragments": 443, "total_fragments": 497, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter upsaliensis", "strain": "strain=NCTC11541", "accession": "GCA_900637395.1", "taxid": 28080, "species_taxid": 28080, "relation_to_type": "type", "validated": true, "ani": 91.1115, "matched_fragments": 456, "total_fragments": 497, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter upsaliensis", "strain": "strain=FDAARGOS_1518", "accession": "GCA_020297605.1", "taxid": 28080, "species_taxid": 28080, "relation_to_type": "type", "validated": true, "ani": 91.0337, "matched_fragments": 460, "total_fragments": 497, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter helveticus", "strain": "strain=ATCC 51209", "accession": "GCA_002080395.1", "taxid": 28898, "species_taxid": 28898, "relation_to_type": "type", "validated": true, "ani": 85.0995, "matched_fragments": 422, "total_fragments": 497, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002738305.1", "gtdb_species": "s__Campylobacter_D vulpis", "ani": 100.0, "matched_fragments": 493, "total_fragments": 497, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "98.60", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 15, "status": "conclusive" }, { "accession": "GCF_900637395.1", "gtdb_species": "s__Campylobacter_D upsaliensis", "ani": 91.1115, 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"coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.05, "vibrio_cell_shape": 0.1, "spiral_cell_shape": 0.5 }, "_genome_taxon": [ "Campylobacter", "vulpis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }