{ "type": "genome", "identifier": "GCF_024584075.1", "organism": "Arcobacter porcinus", "title": "Arcobacter porcinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ghent University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024584075.1", "bioproject": "PRJNA224116", "biosample": "SAMN25938057", "wgs_master": "JANJGF000000000.1", "refseq_category": "na", "taxid": "1935204", "species_taxid": "1935204", "organism_name": "Arcobacter porcinus", "infraspecific_name": "strain=LMG 24487", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/07", "asm_name": "ASM2458407v1", "asm_submitter": "Ghent University", "gbrs_paired_asm": "GCA_024584075.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/584/075/GCF_024584075.1_ASM2458407v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1787644", "genome_size_ungapped": "1787644", "gc_percent": "27.000000", "replicon_count": "0", "scaffold_count": "27", "contig_count": "27", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024584075.1-RS_2024_08_22", "annotation_date": "2024-08-22", "total_gene_count": "1892", "protein_coding_gene_count": "1844", "non_coding_gene_count": "43", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-08-07", "dateModified": "2022-08-07", "datePublished": "2022-08-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Arcobacter porcinus" ], "sample_taxid": [ "1935204" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Denmark" ], "sample_host_location_id": [], "data_size": "0.476 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)": "1787644", "Number of Sequences": "27", "Longest Sequences (bp)": "503511", "N50 (bp)": "140725", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "27.1", "Number of CDSs": "1839", "Average Protein Length": "303.7", "Coding Ratio (%)": "93.7", "Number of rRNAs": "3", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "[Arcobacter] porcinus", "strain": "strain=LMG 24487", "accession": "GCA_024584075.1", "taxid": 1935204, "species_taxid": 1935204, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 582, "total_fragments": 583, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "[Arcobacter] porcinus", "strain": "strain=CCUG 56899", "accession": "GCA_004299785.2", "taxid": 1935204, "species_taxid": 1935204, "relation_to_type": "type", "validated": true, "ani": 98.5069, "matched_fragments": 535, "total_fragments": 583, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aliarcobacter thereius", "strain": "strain=DSM 23385", "accession": "GCA_005818985.1", "taxid": 544718, "species_taxid": 544718, "relation_to_type": "type", "validated": true, "ani": 93.4986, "matched_fragments": 518, "total_fragments": 583, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter thereius", "strain": "strain=LMG 24486", "accession": "GCA_004214815.1", "taxid": 544718, "species_taxid": 544718, "relation_to_type": "type", "validated": true, "ani": 93.458, "matched_fragments": 532, "total_fragments": 583, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter thereius", "strain": "strain=LMG 24486", "accession": "GCA_024584025.1", "taxid": 544718, "species_taxid": 544718, "relation_to_type": "type", "validated": true, "ani": 93.4514, "matched_fragments": 523, "total_fragments": 583, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter thereius", "strain": "strain=LMG 24486", "accession": "GCA_001695395.1", "taxid": 544718, "species_taxid": 544718, "relation_to_type": "type", "validated": true, "ani": 93.4455, "matched_fragments": 528, "total_fragments": 583, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004299785.2", "gtdb_species": "s__Aliarcobacter porcinus", "ani": 98.5069, "matched_fragments": 535, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "98.06", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_004214815.1", "gtdb_species": "s__Aliarcobacter thereius", "ani": 93.458, "matched_fragments": 532, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.14", "min_intra_species_ani": "98.62", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_003544835.1", "gtdb_species": "s__Aliarcobacter skirrowii", "ani": 83.7097, "matched_fragments": 460, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.32", "min_intra_species_ani": "95.07", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 16, "status": "-" }, { "accession": "GCF_014352935.1", "gtdb_species": "s__Aliarcobacter cryaerophilus_A", "ani": 82.7069, "matched_fragments": 423, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.54", "min_intra_species_ani": "96.41", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.82", "num_clustered_genomes": 23, "status": "-" }, { "accession": "GCF_016106035.1", "gtdb_species": "s__Aliarcobacter sp016106035", "ani": 82.4026, "matched_fragments": 418, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "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_003355515.1", "gtdb_species": "s__Aliarcobacter trophiarum", "ani": 82.3874, "matched_fragments": 408, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.76", "min_intra_species_ani": "99.53", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003660105.1", "gtdb_species": "s__Aliarcobacter cryaerophilus", "ani": 82.3453, "matched_fragments": 410, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_013201705.1", "gtdb_species": "s__Aliarcobacter faecis", "ani": 82.192, "matched_fragments": 410, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.77", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_003316695.1", "gtdb_species": "s__Aliarcobacter sp003316695", "ani": 81.916, "matched_fragments": 414, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.67", "min_intra_species_ani": "97.67", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013201625.1", "gtdb_species": "s__Aliarcobacter lanthieri", "ani": 81.754, "matched_fragments": 434, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.15", "min_intra_species_ani": "95.77", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_013372265.1", "gtdb_species": "s__Aliarcobacter cibarius", "ani": 81.5472, "matched_fragments": 384, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.17", "min_intra_species_ani": "98.67", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003063295.1", "gtdb_species": "s__Aliarcobacter lacus", "ani": 81.0326, "matched_fragments": 361, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "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_900187115.1", "gtdb_species": "s__Aliarcobacter butzleri", "ani": 80.8589, "matched_fragments": 394, "total_fragments": 583, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Arcobacteraceae;g__Aliarcobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.53", "min_intra_species_ani": "96.98", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.81", "num_clustered_genomes": 50, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.531, "cell_length": 0.145, "doubling_h": 0.086, "growth_tmp": 30.545, "optimum_tmp": 28.45, "optimum_ph": 7.25, "genome_size": 2607833.553, "gc_content": 27.345, "coding_genes": 2595.468, "rRNA16S_genes": 4.5, "tRNA_genes": 56.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.916, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.062, "aerobic_respiration": 0.937, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.666, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.222, "spiral_cell_shape": 0.111 }, "_genome_taxon": [ "Arcobacter", "porcinus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }