{ "type": "genome", "identifier": "GCF_030249845.1", "organism": "Campylobacter gastrosuis", "title": "Campylobacter gastrosuis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Center for Disease Control and Prevention", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030249845.1", "bioproject": "PRJNA224116", "biosample": "SAMN30456145", "wgs_master": "JANURM000000000.1", "refseq_category": "reference genome", "taxid": "2974576", "species_taxid": "2974576", "organism_name": "Campylobacter gastrosuis", "infraspecific_name": "strain=PS10", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/06/09", "asm_name": "ASM3024984v1", "asm_submitter": "Chinese Center for Disease Control and Prevention", "gbrs_paired_asm": "GCA_030249845.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/249/845/GCF_030249845.1_ASM3024984v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2240910", "genome_size_ungapped": "2240880", "gc_percent": "37.500000", "replicon_count": "0", "scaffold_count": "59", "contig_count": "59", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030249845.1-RS_2024_06_09", "annotation_date": "2024-06-09", "total_gene_count": "2413", "protein_coding_gene_count": "2332", "non_coding_gene_count": "48", "pubmed_id": "37110394" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-06-09", "dateModified": "2023-06-09", "datePublished": "2023-06-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Campylobacter gastrosuis" ], "sample_taxid": [ "2974576" ], "sample_host_organism": [ "pig" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Beijing" ], "sample_host_location_id": [], "data_size": "0.614 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)": "2240910", "Number of Sequences": "59", "Longest Sequences (bp)": "385311", "N50 (bp)": "83509", "Gap Ratio (%)": "0.001339", "GCcontent (%)": "37.7", "Number of CDSs": "2290", "Average Protein Length": "293.1", "Coding Ratio (%)": "89.9", "Number of rRNAs": "2", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Campylobacter mucosalis", "strain": "strain=ATCC 43264", "accession": "GCA_013372205.1", "taxid": 202, "species_taxid": 202, "relation_to_type": "type", "validated": true, "ani": 85.1292, "matched_fragments": 347, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter mucosalis", "strain": "strain=ATCC 43264", "accession": "GCA_012978755.1", "taxid": 202, "species_taxid": 202, "relation_to_type": "type", "validated": true, "ani": 84.847, "matched_fragments": 322, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter anatolicus", "strain": "strain=faydin-G140", "accession": "GCA_018145655.1", "taxid": 2829105, "species_taxid": 2829105, "relation_to_type": "type", "validated": true, "ani": 77.8235, "matched_fragments": 160, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter concisus", "strain": "strain=ATCC 33237", "accession": "GCA_001298465.1", "taxid": 199, "species_taxid": 199, "relation_to_type": "suspected-type", "validated": true, "ani": 77.5003, "matched_fragments": 167, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter curvus", "strain": "strain=FDAARGOS_1547", "accession": "GCA_020736225.1", "taxid": 200, "species_taxid": 200, "relation_to_type": "suspected-type", "validated": true, "ani": 77.3819, "matched_fragments": 131, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter curvus", "strain": "strain=DSM 6644", "accession": "GCA_000376325.1", "taxid": 200, "species_taxid": 200, "relation_to_type": "suspected-type", "validated": true, "ani": 77.337, "matched_fragments": 133, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter hyointestinalis subsp. lawsonii", "strain": "strain=CHY5", "accession": "GCA_013372165.1", "taxid": 91353, "species_taxid": 198, "relation_to_type": "type", "validated": true, "ani": 77.0012, "matched_fragments": 85, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter showae", "strain": "strain=ATCC 51146", "accession": "GCA_004803815.1", "taxid": 204, "species_taxid": 204, "relation_to_type": "suspected-type", "validated": true, "ani": 76.9048, "matched_fragments": 107, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter massiliensis", "strain": "strain=Marseille-Q3452", "accession": "GCA_014253065.1", "taxid": 2762557, "species_taxid": 2762557, "relation_to_type": "type", "validated": true, "ani": 76.6863, "matched_fragments": 105, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter hyointestinalis subsp. lawsonii", "strain": "strain=CCUG 34538", "accession": "GCA_008802075.1", "taxid": 91353, "species_taxid": 198, "relation_to_type": "type", "validated": true, "ani": 76.5992, "matched_fragments": 81, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter rectus", "strain": "strain=FDAARGOS_1549", "accession": "GCA_020736205.1", "taxid": 203, "species_taxid": 203, "relation_to_type": "type", "validated": true, "ani": 76.5709, "matched_fragments": 103, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter rectus", "strain": "strain=ATCC 33238", "accession": "GCA_004803795.1", "taxid": 203, "species_taxid": 203, "relation_to_type": "type", "validated": true, "ani": 76.5696, "matched_fragments": 103, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter hyointestinalis subsp. lawsonii", "strain": "strain=CHY5", "accession": "GCA_003289475.1", "taxid": 91353, "species_taxid": 198, "relation_to_type": "type", "validated": true, "ani": 76.4851, "matched_fragments": 83, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter portucalensis", "strain": "strain=FMV-PI01", "accession": "GCA_009690845.1", "taxid": 2608384, "species_taxid": 2608384, "relation_to_type": "type", "validated": true, "ani": 75.9532, "matched_fragments": 63, "total_fragments": 715, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013372205.1", "gtdb_species": "s__Campylobacter_A mucosalis", "ani": 85.1105, "matched_fragments": 348, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.18", "min_intra_species_ani": "96.99", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_003048595.2", "gtdb_species": "s__Campylobacter_A concisus_L", "ani": 77.5837, "matched_fragments": 162, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "95.79", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_003049085.1", "gtdb_species": "s__Campylobacter_A concisus_H", "ani": 77.5802, "matched_fragments": 159, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.031, "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_002165775.1", "gtdb_species": "s__Campylobacter_A concisus_E", "ani": 77.5781, "matched_fragments": 155, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003048615.2", "gtdb_species": "s__Campylobacter_A concisus_C", "ani": 77.5769, "matched_fragments": 175, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.12", "min_intra_species_ani": "95.77", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 42, "status": "-" }, { "accession": "GCF_004803835.1", "gtdb_species": "s__Campylobacter_A sp004803835", "ani": 77.5672, "matched_fragments": 160, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.48", "min_intra_species_ani": "98.76", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_902460705.1", "gtdb_species": "s__Campylobacter_A concisus_Z", "ani": 77.5399, "matched_fragments": 161, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.93", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003048575.1", "gtdb_species": "s__Campylobacter_A concisus_U", "ani": 77.534, "matched_fragments": 156, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "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_000466685.1", "gtdb_species": "s__Campylobacter_A concisus_A", "ani": 77.4499, "matched_fragments": 164, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.29", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002912895.1", "gtdb_species": "s__Campylobacter_A concisus_G", "ani": 77.4274, "matched_fragments": 155, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.40", "min_intra_species_ani": "95.36", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_902387145.1", "gtdb_species": "s__Campylobacter_A sp902387145", "ani": 77.3691, "matched_fragments": 164, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_015679985.1", "gtdb_species": "s__Campylobacter_A concisus_AC", "ani": 77.3345, "matched_fragments": 155, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0251, "mean_intra_species_ani": "96.37", "min_intra_species_ani": "95.15", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002139915.1", "gtdb_species": "s__Campylobacter sp002139915", "ani": 77.2179, "matched_fragments": 59, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "97.72", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 37, "status": "-" }, { "accession": "GCF_004803815.1", "gtdb_species": "s__Campylobacter_A showae", "ani": 76.9048, "matched_fragments": 107, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900573985.1", "gtdb_species": "s__Campylobacter_A showae_E", "ani": 76.8209, "matched_fragments": 112, "total_fragments": 715, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_A", "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": -0.396, "cell_length": 0.155, "doubling_h": 0.058, "growth_tmp": 37.939, "optimum_tmp": 38.124, "optimum_ph": 6.461, "genome_size": 1793418.147, "gc_content": 33.91, "coding_genes": 1694.451, "rRNA16S_genes": 2.877, "tRNA_genes": 42.86, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.869, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.178, "aerobic_respiration": 0.821, "mesophilic_range_tmp": 0.888, "thermophilic_range_tmp": 0.111, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.35, "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", "gastrosuis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }