{ "type": "genome", "identifier": "GCF_014638275.1", "organism": "Primorskyibacter flagellatus", "title": "Primorskyibacter flagellatus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014638275.1", "bioproject": "PRJNA224116", "biosample": "SAMD00244952", "wgs_master": "BMFJ00000000.1", "refseq_category": "reference genome", "taxid": "1387277", "species_taxid": "1387277", "organism_name": "Primorskyibacter flagellatus", "infraspecific_name": "strain=CGMCC 1.12664", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1463827v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014638275.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/638/275/GCF_014638275.1_ASM1463827v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4612182", "genome_size_ungapped": "4612085", "gc_percent": "65.500000", "replicon_count": "0", "scaffold_count": "10", "contig_count": "10", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014638275.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "4556", "protein_coding_gene_count": "4474", "non_coding_gene_count": "50", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Primorskyibacter flagellatus" ], "sample_taxid": [ "1387277" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.270 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)": "4612182", "Number of Sequences": "10", "Longest Sequences (bp)": "2873536", "N50 (bp)": "2873536", "Gap Ratio (%)": "0.002103", "GCcontent (%)": "65.6", "Number of CDSs": "4555", "Average Protein Length": "306.7", "Coding Ratio (%)": "90.9", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudooceanicola onchidii", "strain": "strain=XY-99", "accession": "GCA_004959925.1", "taxid": 2562279, "species_taxid": 2562279, "relation_to_type": "type", "validated": true, "ani": 81.6695, "matched_fragments": 852, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola nitratireducens", "strain": "strain=DSM 29619", "accession": "GCA_900112545.1", "taxid": 517719, "species_taxid": 517719, "relation_to_type": "type", "validated": true, "ani": 81.3175, "matched_fragments": 815, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola nitratireducens", "strain": "strain=CGMCC 1.7292", "accession": "GCA_900109195.1", "taxid": 517719, "species_taxid": 517719, "relation_to_type": "type", "validated": true, "ani": 81.2982, "matched_fragments": 817, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola nanhaiensis", "strain": "strain=DSM 18065", "accession": "GCA_000688295.1", "taxid": 375761, "species_taxid": 375761, "relation_to_type": "type", "validated": true, "ani": 80.7891, "matched_fragments": 754, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola nanhaiensis", "strain": "strain=CGMCC 1.6293", "accession": "GCA_014645095.1", "taxid": 375761, "species_taxid": 375761, "relation_to_type": "type", "validated": true, "ani": 80.7765, "matched_fragments": 758, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=CGMCC 1.12662", "accession": "GCA_900215355.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 79.1645, "matched_fragments": 549, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=Ar-45", "accession": "GCA_002786285.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 79.1468, "matched_fragments": 566, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger profundus", "strain": "strain=JLT2016", "accession": "GCA_001969385.1", "taxid": 1229727, "species_taxid": 1229727, "relation_to_type": "type", "validated": true, "ani": 79.1467, "matched_fragments": 509, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola marinus", "strain": "strain=CECT 7751", "accession": "GCA_900172385.1", "taxid": 396013, "species_taxid": 396013, "relation_to_type": "type", "validated": true, "ani": 79.0803, "matched_fragments": 578, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola marinus", "strain": "strain=LMG 23705", "accession": "GCA_002786295.1", "taxid": 396013, "species_taxid": 396013, "relation_to_type": "type", "validated": true, "ani": 79.0756, "matched_fragments": 591, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger profundus", "strain": "strain=CGMCC 1.12377", "accession": "GCA_014637265.1", "taxid": 1229727, "species_taxid": 1229727, "relation_to_type": "type", "validated": true, "ani": 79.0473, "matched_fragments": 498, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola endophyticus", "strain": "strain=CBS1P-1", "accession": "GCA_018760365.1", "taxid": 2841273, "species_taxid": 2841273, "relation_to_type": "type", "validated": true, "ani": 78.8964, "matched_fragments": 554, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola aestuarii", "strain": "strain=E2-1", "accession": "GCA_010614805.1", "taxid": 2697319, "species_taxid": 2697319, "relation_to_type": "type", "validated": true, "ani": 78.6985, "matched_fragments": 546, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger pallidus", "strain": "strain=CGMCC 1.15762", "accession": "GCA_014643635.1", "taxid": 1775170, "species_taxid": 1775170, "relation_to_type": "type", "validated": true, "ani": 78.3776, "matched_fragments": 432, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum tesquicola", "strain": "strain=A-36s", "accession": "GCA_024128855.1", "taxid": 540254, "species_taxid": 540254, "relation_to_type": "type", "validated": true, "ani": 77.9616, "matched_fragments": 391, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia rufa", "strain": "strain=MOLA 401", "accession": "GCA_000743715.1", "taxid": 1530186, "species_taxid": 1530186, "relation_to_type": "type", "validated": true, "ani": 77.6687, "matched_fragments": 360, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 77.518, "matched_fragments": 325, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter ruber", "strain": "strain=CCP-1", "accession": "GCA_009908315.1", "taxid": 1985673, "species_taxid": 1985673, "relation_to_type": "type", "validated": true, "ani": 77.4349, "matched_fragments": 336, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014638275.1", "gtdb_species": "s__Pseudooceanicola flagellatus", "ani": 100.0, "matched_fragments": 1530, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "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_000768315.1", "gtdb_species": "s__Pseudooceanicola atlanticus", "ani": 82.4797, "matched_fragments": 930, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000152725.1", "gtdb_species": "s__Pseudooceanicola batsensis", "ani": 82.2631, "matched_fragments": 856, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "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_009789075.1", "gtdb_species": "s__Pseudooceanicola pacificus", "ani": 82.2092, "matched_fragments": 562, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "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_004959925.1", "gtdb_species": "s__Pseudooceanicola onchidii", "ani": 81.6523, "matched_fragments": 854, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "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_900109195.1", "gtdb_species": "s__Pseudooceanicola nitratireducens", "ani": 81.3184, "matched_fragments": 813, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "97.09", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002210105.1", "gtdb_species": "s__Pseudooceanicola sp002210105", "ani": 81.2872, "matched_fragments": 799, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "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_000688295.1", "gtdb_species": "s__Pseudooceanicola nanhaiensis", "ani": 80.7579, "matched_fragments": 757, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009827095.1", "gtdb_species": "s__Pseudooceanicola sp009827095", "ani": 78.7977, "matched_fragments": 555, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudooceanicola", "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": "GCA_003697125.1", "gtdb_species": "s__J013 sp003697125", "ani": 76.6163, "matched_fragments": 249, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__J013", "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_000876675.2", "gtdb_species": "s__Novosphingobium sp000876675", "ani": 75.5493, "matched_fragments": 108, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "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_902706195.1", "gtdb_species": "s__Novosphingobium sp902706195", "ani": 75.486, "matched_fragments": 86, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Primorskyibacter", "flagellatus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }