{ "type": "genome", "identifier": "GCF_023646285.1", "organism": "Helicobacter colisuis", "title": "Helicobacter colisuis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Veterinary Faculty", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023646285.1", "bioproject": "PRJNA224116", "biosample": "SAMN28649164", "wgs_master": "JAMOKX000000000.1", "refseq_category": "reference genome", "taxid": "2949739", "species_taxid": "2949739", "organism_name": "Helicobacter colisuis", "infraspecific_name": "strain=11154-15", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/06/02", "asm_name": "ASM2364628v1", "asm_submitter": "Veterinary Faculty", "gbrs_paired_asm": "GCA_023646285.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/646/285/GCF_023646285.1_ASM2364628v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1592701", "genome_size_ungapped": "1592701", "gc_percent": "34.500000", "replicon_count": "0", "scaffold_count": "10", "contig_count": "10", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-03-09", "total_gene_count": "1630", "protein_coding_gene_count": "1558", "non_coding_gene_count": "43", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-06-02", "dateModified": "2022-06-02", "datePublished": "2022-06-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Helicobacter colisuis" ], "sample_taxid": [ "2949739" ], "sample_host_organism": [ "Sus scrofa domesticus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Slovenia" ], "sample_host_location_id": [], "data_size": "0.438 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "1592701", "Number of Sequences": "10", "Longest Sequences (bp)": "416028", "N50 (bp)": "215300", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.3", "Number of CDSs": "1583", "Average Protein Length": "309.8", "Coding Ratio (%)": "92.4", "Number of rRNAs": "2", "Number of tRNAs": "37", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Helicobacter canadensis", "strain": "strain=MIT 98-5491", "accession": "GCA_000162575.1", "taxid": 123841, "species_taxid": 123841, "relation_to_type": "type", "validated": true, "ani": 90.3291, "matched_fragments": 468, 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"status": "below_threshold" }, { "organism_name": "Helicobacter burdigaliensis", "strain": "strain=CNRCH 2005/566H", "accession": "GCA_003670295.1", "taxid": 2315334, "species_taxid": 2315334, "relation_to_type": "type", "validated": true, "ani": 78.006, "matched_fragments": 205, "total_fragments": 526, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Helicobacter valdiviensis", "strain": "strain=WBE14", "accession": "GCA_003245365.1", "taxid": 1458358, "species_taxid": 1458358, "relation_to_type": "type", "validated": true, "ani": 77.9934, "matched_fragments": 206, "total_fragments": 526, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Helicobacter turcicus", "strain": "strain=Faydin-H70", "accession": "GCA_019711685.1", "taxid": 2867412, "species_taxid": 2867412, "relation_to_type": "type", "validated": true, "ani": 77.9571, "matched_fragments": 166, "total_fragments": 526, "ani_threshold": 95, "status": "below_threshold" }, { 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valdiviensis", "ani": 77.9934, "matched_fragments": 206, "total_fragments": 526, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_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_900198605.1", "gtdb_species": "s__Helicobacter_D mesocricetorum", "ani": 77.8128, "matched_fragments": 183, "total_fragments": 526, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_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_000765695.2", "gtdb_species": "s__Helicobacter_D sp000765695", 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"matched_fragments": 160, "total_fragments": 526, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.09", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003364315.1", "gtdb_species": "s__Helicobacter_D ganmani", "ani": 77.377, "matched_fragments": 169, "total_fragments": 526, "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.45", "min_intra_species_ani": "99.17", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.358, "cell_length": 0.409, "doubling_h": 0.5, 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