{ "type": "genome", "identifier": "GCF_016106035.1", "organism": "Arcobacter vandammei", "title": "Arcobacter vandammei", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ghent University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016106035.1", "bioproject": "PRJNA224116", "biosample": "SAMN16563406", "wgs_master": "JADKPZ000000000.1", "refseq_category": "reference genome", "taxid": "2782243", "species_taxid": "2782243", "organism_name": "Arcobacter vandammei", "infraspecific_name": "strain=R-73987", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/12/17", "asm_name": "ASM1610603v1", "asm_submitter": "Ghent University", "gbrs_paired_asm": "GCA_016106035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/106/035/GCF_016106035.1_ASM1610603v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2206694", "genome_size_ungapped": "2206694", "gc_percent": "27.500000", "replicon_count": "0", "scaffold_count": "56", "contig_count": "56", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016106035.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "2295", "protein_coding_gene_count": "2223", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-12-17", "dateModified": "2020-12-17", "datePublished": "2020-12-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Arcobacter vandammei" ], "sample_taxid": [ "2782243" ], "sample_host_organism": [ "Sus scrofa domesticus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Belgium" ], "sample_host_location_id": [], "data_size": "0.590 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)": "2206694", "Number of Sequences": "56", "Longest Sequences (bp)": "211508", "N50 (bp)": "107602", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "27.6", "Number of CDSs": "2226", "Average Protein Length": "303.7", "Coding Ratio (%)": "91.9", "Number of rRNAs": "0", "Number of tRNAs": "41", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Arcobacter vandammei", "strain": "strain=R-73987", "accession": "GCA_016106035.1", "taxid": 2782243, "species_taxid": 2782243, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 707, "total_fragments": 709, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Arcobacter vandammei", "strain": "strain=LMG 31429", "accession": "GCA_024583975.1", "taxid": 2782243, "species_taxid": 2782243, "relation_to_type": "type", "validated": true, "ani": 99.9997, "matched_fragments": 706, "total_fragments": 709, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aliarcobacter faecis", "strain": "strain=AF1078", "accession": "GCA_000585155.1", "taxid": 1564138, "species_taxid": 1564138, "relation_to_type": "type", "validated": true, "ani": 86.1249, "matched_fragments": 535, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter faecis", "strain": "strain=LMG 28519", "accession": "GCA_024584135.1", "taxid": 1564138, "species_taxid": 1564138, "relation_to_type": "type", "validated": true, "ani": 86.0574, "matched_fragments": 535, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter 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"accession": "GCA_003355515.1", "taxid": 708186, "species_taxid": 708186, "relation_to_type": "type", "validated": true, "ani": 82.8264, "matched_fragments": 430, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter vitoriensis", "strain": "strain=LMG 30050", "accession": "GCA_024583985.1", "taxid": 2011099, "species_taxid": 2011099, "relation_to_type": "type", "validated": true, "ani": 82.4514, "matched_fragments": 448, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliarcobacter vitoriensis", "strain": "strain=CECT 9230", "accession": "GCA_003316695.1", "taxid": 2011099, "species_taxid": 2011099, "relation_to_type": "type", "validated": true, "ani": 82.3402, "matched_fragments": 453, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Arcobacter] porcinus", "strain": "strain=LMG 24487", "accession": "GCA_024584075.1", "taxid": 1935204, 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84.0662, "matched_fragments": 498, "total_fragments": 709, "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_014352935.1", "gtdb_species": "s__Aliarcobacter cryaerophilus_A", "ani": 83.6074, "matched_fragments": 471, "total_fragments": 709, "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": "GCA_017996075.1", "gtdb_species": "s__Aliarcobacter sp017996075", "ani": 83.5839, 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