{ "type": "genome", "identifier": "GCF_900637885.1", "organism": "Campylobacter insulaenigrae", "title": "Campylobacter insulaenigrae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900637885.1", "bioproject": "PRJNA224116", "biosample": "SAMEA48403168", "wgs_master": "na", "refseq_category": "na", "taxid": "260714", "species_taxid": "260714", "organism_name": "Campylobacter insulaenigrae", "infraspecific_name": "strain=NCTC12927", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/20", "asm_name": "52683_H03", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900637885.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/637/885/GCF_900637885.1_52683_H03", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1465207", "genome_size_ungapped": "1465207", "gc_percent": "28.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-13", "total_gene_count": "1530", "protein_coding_gene_count": "1452", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-20", "dateModified": "2018-12-20", "datePublished": "2018-12-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Campylobacter insulaenigrae" ], "sample_taxid": [ "260714" ], "sample_host_organism": [ "Marine" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.395 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)": "1465207", "Number of Sequences": "1", "Longest Sequences (bp)": "1465207", "N50 (bp)": "1465207", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "28.2", "Number of CDSs": "1481", "Average Protein Length": "310.8", "Coding Ratio (%)": "94.3", "Number of rRNAs": "6", "Number of tRNAs": "45", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Campylobacter insulaenigrae", "strain": "strain=NCTC12927", "accession": "GCA_900637885.1", "taxid": 260714, "species_taxid": 260714, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 487, "total_fragments": 488, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Campylobacter insulaenigrae", "strain": "strain=NCTC 12927", "accession": "GCA_000816185.1", "taxid": 260714, "species_taxid": 260714, "relation_to_type": "type", "validated": true, "ani": 99.9991, "matched_fragments": 486, "total_fragments": 488, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Campylobacter volucris", "strain": "strain=LMG 24380", "accession": "GCA_008245045.1", "taxid": 1031542, "species_taxid": 1031542, "relation_to_type": "type", "validated": true, "ani": 83.5423, "matched_fragments": 410, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter volucris", "strain": "strain=CCUG 57498", "accession": "GCA_008801985.1", "taxid": 1031542, "species_taxid": 1031542, "relation_to_type": "type", "validated": true, "ani": 83.4244, "matched_fragments": 410, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter lari", "strain": "strain=FDAARGOS_1101", "accession": "GCA_016726265.1", "taxid": 201, "species_taxid": 201, "relation_to_type": "type", "validated": true, "ani": 82.3684, "matched_fragments": 397, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter lari subsp. concheus", "strain": "strain=LMG 21009", "accession": "GCA_008245025.1", "taxid": 488545, "species_taxid": 201, "relation_to_type": "type", "validated": true, "ani": 82.36, "matched_fragments": 382, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter lari subsp. concheus", "strain": "strain=CCUG 55786", "accession": "GCA_008802005.1", "taxid": 488545, "species_taxid": 201, "relation_to_type": "type", "validated": true, "ani": 82.2637, "matched_fragments": 376, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter peloridis", "strain": "strain=LMG 23910", "accession": "GCA_000816785.1", "taxid": 488546, "species_taxid": 488546, "relation_to_type": "type", "validated": true, "ani": 82.2097, "matched_fragments": 382, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter armoricus", "strain": "strain=CA656", "accession": "GCA_006176165.1", "taxid": 2505970, "species_taxid": 2505970, "relation_to_type": "type", "validated": true, "ani": 82.0165, "matched_fragments": 377, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Campylobacter ornithocola", "strain": "strain=LMG 29815", "accession": "GCA_013201605.1", "taxid": 1848766, "species_taxid": 1848766, "relation_to_type": "type", "validated": true, "ani": 81.9976, "matched_fragments": 384, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000816185.1", "gtdb_species": "s__Campylobacter_D insulaenigrae", "ani": 99.9991, "matched_fragments": 486, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "98.72", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_008245045.1", "gtdb_species": "s__Campylobacter_D volucris", "ani": 83.5317, "matched_fragments": 409, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.63", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.86", "num_clustered_genomes": 15, "status": "-" }, { "accession": "GCF_008011665.1", "gtdb_species": "s__Campylobacter_D volucris_A", "ani": 82.8454, "matched_fragments": 410, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "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_008245025.1", "gtdb_species": "s__Campylobacter_D concheus", "ani": 82.3694, "matched_fragments": 383, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_013372185.1", "gtdb_species": "s__Campylobacter_D lari", "ani": 82.3682, "matched_fragments": 392, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.73", "min_intra_species_ani": "98.09", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_004357905.1", "gtdb_species": "s__Campylobacter_D lari_D", "ani": 82.3473, "matched_fragments": 379, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "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": 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"GCF_013372105.1", "gtdb_species": "s__Campylobacter_D armoricus", "ani": 82.1718, "matched_fragments": 384, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.30", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_001017575.1", "gtdb_species": "s__Campylobacter_D lari_C", "ani": 82.1408, "matched_fragments": 387, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "95.06", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 21, "status": "-" }, { "accession": "GCF_013201605.1", "gtdb_species": "s__Campylobacter_D ornithocola", "ani": 82.0975, "matched_fragments": 385, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000816245.1", "gtdb_species": "s__Campylobacter_D sp000816245", "ani": 81.9918, "matched_fragments": 382, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "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_000816305.1", "gtdb_species": "s__Campylobacter_D subantarcticus", "ani": 81.9437, "matched_fragments": 374, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.30", "min_intra_species_ani": "98.60", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014931215.1", "gtdb_species": "s__Campylobacter_D sp003627915", "ani": 81.2568, "matched_fragments": 373, "total_fragments": 488, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Campylobacteraceae;g__Campylobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "98.78", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.396, "cell_length": 0.155, "doubling_h": 0.058, "growth_tmp": 36.0, "optimum_tmp": 38.124, "optimum_ph": 6.461, "genome_size": 1465080.75, "gc_content": 28.2, "coding_genes": 1437.333, "rRNA16S_genes": 3.0, "tRNA_genes": 42.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.888, "thermophilic_range_tmp": 0.111, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Campylobacter", "insulaenigrae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }