{ "type": "genome", "identifier": "GCF_003284895.1", "organism": "Pontibacter arcticus", "title": "Pontibacter arcticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003284895.1", "bioproject": "PRJNA224116", "biosample": "SAMN09470238", "wgs_master": "QMDV00000000.1", "refseq_category": "reference genome", "taxid": "2080288", "species_taxid": "2080288", "organism_name": "Pontibacter arcticus", "infraspecific_name": "strain=2b14", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/30", "asm_name": "ASM328489v1", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_003284895.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/284/895/GCF_003284895.1_ASM328489v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3773432", "genome_size_ungapped": "3773432", "gc_percent": "45.500000", "replicon_count": "0", "scaffold_count": "7", "contig_count": "7", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003284895.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3304", "protein_coding_gene_count": "3237", "non_coding_gene_count": "63", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-30", "dateModified": "2018-06-30", "datePublished": "2018-06-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Pontibacter arcticus" ], "sample_taxid": [ "2080288" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Norway: the Svalbard archipelago" ], "sample_host_location_id": [], "data_size": "1.070 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)": "3773432", "Number of Sequences": "7", "Longest Sequences (bp)": "1199188", "N50 (bp)": "1004009", "Gap Ratio (%)": "0.000027", "GCcontent (%)": "45.5", "Number of CDSs": "3230", "Average Protein Length": "335.6", "Coding Ratio (%)": "86.2", "Number of rRNAs": "9", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pontibacter arcticus", "strain": "strain=2b14", "accession": "GCA_003284895.1", "taxid": 2080288, "species_taxid": 2080288, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1240, "total_fragments": 1253, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pontibacter fetidus", "strain": "strain=BT213", "accession": "GCA_010119545.1", "taxid": 2700082, "species_taxid": 2700082, "relation_to_type": "type", "validated": true, "ani": 78.5099, "matched_fragments": 463, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter pudoricolor", "strain": "strain=BT214", "accession": "GCA_010092985.1", "taxid": 2694930, "species_taxid": 2694930, "relation_to_type": "type", "validated": true, "ani": 78.4455, "matched_fragments": 459, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter actiniarum", "strain": "strain=DSM 19842", "accession": "GCA_003585765.1", "taxid": 323450, "species_taxid": 323450, "relation_to_type": "type", "validated": true, "ani": 78.444, "matched_fragments": 356, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter deserti", "strain": "strain=JC215", "accession": "GCA_023630255.1", "taxid": 1343896, "species_taxid": 1343896, "relation_to_type": "type", "validated": true, "ani": 78.3625, "matched_fragments": 416, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter burrus", "strain": "strain=BT327", "accession": "GCA_010686685.1", "taxid": 2704466, "species_taxid": 2704466, "relation_to_type": "type", "validated": true, "ani": 78.1673, "matched_fragments": 419, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter actiniarum", "strain": "strain=DSM 19842", "accession": "GCA_000472485.1", "taxid": 323450, "species_taxid": 323450, "relation_to_type": "type", "validated": true, "ani": 78.1632, "matched_fragments": 363, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter ruber", "strain": "strain=JC213", "accession": "GCA_023630205.1", "taxid": 1343895, "species_taxid": 1343895, "relation_to_type": "type", "validated": true, "ani": 78.0697, "matched_fragments": 453, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter mangrovi", "strain": "strain=HB172049", "accession": "GCA_006385705.1", "taxid": 2589816, "species_taxid": 2589816, "relation_to_type": "type", "validated": true, "ani": 78.0658, "matched_fragments": 374, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter cellulosilyticus", "strain": "strain=SD6", "accession": "GCA_014306105.1", "taxid": 1720253, "species_taxid": 1720253, "relation_to_type": "type", "validated": true, "ani": 78.0479, "matched_fragments": 369, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter oryzae", "strain": "strain=KIRAN", "accession": "GCA_003576375.1", "taxid": 2304593, "species_taxid": 2304593, "relation_to_type": "type", "validated": true, "ani": 77.6764, "matched_fragments": 376, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter ramchanderi", "strain": "strain=LP43", "accession": "GCA_002846395.1", "taxid": 1179743, "species_taxid": 1179743, "relation_to_type": "type", "validated": true, "ani": 77.6269, "matched_fragments": 303, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter akesuensis", "strain": "strain=AKS 1T", "accession": "GCA_001611675.1", "taxid": 388950, "species_taxid": 388950, "relation_to_type": "type", "validated": true, "ani": 77.5979, "matched_fragments": 375, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter flavimaris", "strain": "strain=S10-8", "accession": "GCA_001907195.1", "taxid": 1797110, "species_taxid": 1797110, "relation_to_type": "type", "validated": true, "ani": 77.4958, "matched_fragments": 381, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter akesuensis", "strain": "strain=DSM 18820", "accession": "GCA_900116885.1", "taxid": 388950, "species_taxid": 388950, "relation_to_type": "type", "validated": true, "ani": 77.4176, "matched_fragments": 371, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter pamirensis", "strain": "strain=TRT317", "accession": "GCA_010015475.1", "taxid": 2562824, "species_taxid": 2562824, "relation_to_type": "type", "validated": true, "ani": 77.4037, "matched_fragments": 296, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Adhaeribacter rhizoryzae", "strain": "strain=DK36", "accession": "GCA_008629685.1", "taxid": 2607907, "species_taxid": 2607907, "relation_to_type": "type", "validated": true, "ani": 76.2162, "matched_fragments": 139, "total_fragments": 1253, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003284895.1", "gtdb_species": "s__Pontibacter sp003284895", "ani": 100.0, "matched_fragments": 1243, "total_fragments": 1253, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "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": "conclusive" }, { "accession": "GCF_010119545.1", "gtdb_species": "s__Pontibacter fetidus", "ani": 78.5192, "matched_fragments": 463, "total_fragments": 1253, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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"status": "-" }, { "accession": "GCF_006385705.1", "gtdb_species": "s__Pontibacter sp006385705", "ani": 78.0568, "matched_fragments": 375, "total_fragments": 1253, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "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_014306105.1", "gtdb_species": "s__Pontibacter sp014306105", "ani": 78.0472, "matched_fragments": 369, "total_fragments": 1253, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "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_003576375.1", 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77.6366, "matched_fragments": 315, "total_fragments": 1253, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "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_002846395.1", "gtdb_species": "s__Pontibacter ramchanderi", "ani": 77.6196, "matched_fragments": 305, "total_fragments": 1253, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "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_001611675.1", "gtdb_species": "s__Pontibacter akesuensis", "ani": 77.6051, "matched_fragments": 375, "total_fragments": 1253, 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51.009, "coding_genes": 4209.666, "rRNA16S_genes": 4.0, "tRNA_genes": 46.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.363, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "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": [ "Pontibacter", "arcticus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }