{ "type": "genome", "identifier": "GCF_003008435.1", "organism": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "title": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Second Institute of Oceanography, State Oceanic Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003008435.1", "bioproject": "PRJNA224116", "biosample": "SAMN08667563", "wgs_master": "PXOT00000000.1", "refseq_category": "na", "taxid": "1520893", "species_taxid": "393060", "organism_name": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "infraspecific_name": "strain=KCTC 42117", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/18", "asm_name": "ASM300843v1", "asm_submitter": "Second Institute of Oceanography, State Oceanic Administration", "gbrs_paired_asm": "GCA_003008435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/008/435/GCF_003008435.1_ASM300843v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3110697", "genome_size_ungapped": "3110406", "gc_percent": "31.500000", "replicon_count": "0", "scaffold_count": "27", "contig_count": "27", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-10-21", "total_gene_count": "2897", "protein_coding_gene_count": "2831", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-18", "dateModified": "2018-03-18", "datePublished": "2018-03-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris" ], "sample_taxid": [ "1520893" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Geoje island in the South Sea" ], "sample_host_location_id": [], "data_size": "0.857 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)": "3110697", "Number of Sequences": "27", "Longest Sequences (bp)": "449147", "N50 (bp)": "380692", "Gap Ratio (%)": "0.009355", "GCcontent (%)": "31.5", "Number of CDSs": "2814", "Average Protein Length": "327.7", "Coding Ratio (%)": "88.9", "Number of rRNAs": "12", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "strain": "strain=KCTC 42117", "accession": "GCA_003008435.1", "taxid": 1520893, "species_taxid": 393060, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1022, "total_fragments": 1025, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "strain": "strain=CECT 8597", "accession": "GCA_014191595.1", "taxid": 1520893, "species_taxid": 393060, "relation_to_type": "type", "validated": true, "ani": 99.9889, "matched_fragments": 1008, "total_fragments": 1025, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mesoflavibacter zeaxanthinifaciens", "strain": "strain=DSM 18436", "accession": "GCA_000422365.1", "taxid": 393060, "species_taxid": 393060, "relation_to_type": "type", "validated": true, "ani": 97.0418, "matched_fragments": 889, "total_fragments": 1025, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mesoflavibacter profundi", "strain": "strain=YC1039", "accession": "GCA_014764305.1", "taxid": 2708110, "species_taxid": 2708110, "relation_to_type": "type", "validated": true, "ani": 86.5398, "matched_fragments": 786, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olleya aquimaris", "strain": "strain=DSM 24464", "accession": "GCA_003259525.1", "taxid": 639310, "species_taxid": 639310, "relation_to_type": "type", "validated": true, "ani": 79.904, "matched_fragments": 532, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olleya marilimosa", "strain": "strain=CAM030", "accession": "GCA_000518485.1", "taxid": 272164, "species_taxid": 272164, "relation_to_type": "type", "validated": true, "ani": 79.5431, "matched_fragments": 534, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olleya namhaensis", "strain": "strain=DSM 28881", "accession": "GCA_900114005.1", "taxid": 1144750, "species_taxid": 1144750, "relation_to_type": "type", "validated": true, "ani": 78.8279, "matched_fragments": 500, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hanstruepera marina", "strain": "strain=NBU2968", "accession": "GCA_019880635.1", "taxid": 2873265, "species_taxid": 2873265, "relation_to_type": "type", "validated": true, "ani": 78.2903, "matched_fragments": 232, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontimicrobium aquaticum", "strain": "strain=CAU 1491", "accession": "GCA_005047595.1", "taxid": 2565367, "species_taxid": 2565367, "relation_to_type": "type", "validated": true, "ani": 77.8536, "matched_fragments": 250, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavivirga algicola", "strain": "strain=Y03", "accession": "GCA_012910715.1", "taxid": 2729136, "species_taxid": 2729136, "relation_to_type": "type", "validated": true, "ani": 77.6099, "matched_fragments": 227, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychroserpens luteolus", "strain": "strain=XSD401", "accession": "GCA_021032705.1", "taxid": 2855840, "species_taxid": 2855840, "relation_to_type": "type", "validated": true, "ani": 77.5472, "matched_fragments": 255, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella ulvae", "strain": "strain=HU1-3", "accession": "GCA_016827605.1", "taxid": 2799948, "species_taxid": 2799948, "relation_to_type": "type", "validated": true, "ani": 77.2509, "matched_fragments": 229, "total_fragments": 1025, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000422365.1", "gtdb_species": "s__Mesoflavibacter zeaxanthinifaciens", "ani": 97.0418, "matched_fragments": 889, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Mesoflavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.07", "min_intra_species_ani": "97.05", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_014764305.1", "gtdb_species": "s__Mesoflavibacter profundi", "ani": 86.5631, "matched_fragments": 785, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Mesoflavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.53", "min_intra_species_ani": "99.53", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003259525.1", "gtdb_species": "s__Olleya aquimaris", "ani": 79.9358, "matched_fragments": 533, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "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_000518485.1", "gtdb_species": "s__Olleya marilimosa", "ani": 79.5423, "matched_fragments": 535, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "97.25", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_016785945.1", "gtdb_species": "s__Olleya sediminilitoris", "ani": 79.4812, "matched_fragments": 525, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000211855.2", "gtdb_species": "s__Lacinutrix sp000211855", "ani": 79.2456, "matched_fragments": 458, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lacinutrix", "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_007827365.1", "gtdb_species": "s__Olleya sp002323495", "ani": 79.2431, "matched_fragments": 550, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.78", "min_intra_species_ani": "96.78", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003663945.1", "gtdb_species": "s__Lacinutrix venerupis", "ani": 79.1044, "matched_fragments": 428, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lacinutrix", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.08", "min_intra_species_ani": "98.08", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004843725.1", "gtdb_species": "s__Olleya sp004843725", "ani": 78.8403, "matched_fragments": 487, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "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_900114005.1", "gtdb_species": "s__Olleya namhaensis", "ani": 78.8366, "matched_fragments": 499, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "98.20", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_001874145.1", "gtdb_species": "s__Lacinutrix sp001874145", "ani": 78.7294, "matched_fragments": 453, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lacinutrix", "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_002831645.1", "gtdb_species": "s__Olleya sp002831645", "ani": 78.6776, "matched_fragments": 479, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Olleya", "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_900114265.1", "gtdb_species": "s__Flaviramulus basaltis", "ani": 77.8644, "matched_fragments": 349, "total_fragments": 1025, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flaviramulus", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.523, "cell_length": -0.125, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 36.0, "optimum_ph": 8.25, "genome_size": 3335433.5, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": 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": [ "Mesoflavibacter", "zeaxanthinifaciens", "subsp.", "sabulilitoris" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }