{ "type": "genome", "identifier": "GCF_000521805.1", "organism": "Marinomonas ushuaiensis DSM 15871", "title": "Marinomonas ushuaiensis DSM 15871", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Third Institute of State Oceanic Administration (SOA)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000521805.1", "bioproject": "PRJNA224116", "biosample": "SAMN02597439", "wgs_master": "JAMB00000000.1", "refseq_category": "reference genome", "taxid": "1122207", "species_taxid": "263818", "organism_name": "Marinomonas ushuaiensis DSM 15871", "infraspecific_name": "strain=DSM 15871", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/01/22", "asm_name": "SOAPdenovo v1.05", "asm_submitter": "The Third Institute of State Oceanic Administration (SOA)", "gbrs_paired_asm": "GCA_000521805.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/521/805/GCF_000521805.1_SOAPdenovo_v1.05", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3342098", "genome_size_ungapped": "3342098", "gc_percent": "41.000000", "replicon_count": "0", "scaffold_count": "39", "contig_count": "39", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000521805.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "3150", "protein_coding_gene_count": "3064", "non_coding_gene_count": "67", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-01-22", "dateModified": "2014-01-22", "datePublished": "2014-01-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Marinomonas ushuaiensis DSM 15871" ], "sample_taxid": [ "1122207" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.953 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)": "3342098", "Number of Sequences": "39", "Longest Sequences (bp)": "736697", "N50 (bp)": "205043", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.1", "Number of CDSs": "3083", "Average Protein Length": "319.0", "Coding Ratio (%)": "88.3", "Number of rRNAs": "1", "Number of tRNAs": "58", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Marinomonas ushuaiensis", "strain": "strain=DSM 15871", "accession": "GCA_000521805.1", "taxid": 263818, "species_taxid": 263818, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1096, "total_fragments": 1097, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Marinomonas colpomeniae", "strain": "strain=SM2066", "accession": "GCA_014803385.1", "taxid": 2774408, "species_taxid": 2774408, "relation_to_type": "type", "validated": true, "ani": 81.8463, "matched_fragments": 645, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas profundimaris", "strain": "strain=D104", "accession": "GCA_000508165.1", "taxid": 1208321, "species_taxid": 1208321, "relation_to_type": "type", "validated": true, "ani": 80.2544, "matched_fragments": 502, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas primoryensis", "strain": "strain=MPKMM3633", "accession": "GCA_013372285.1", "taxid": 178399, "species_taxid": 178399, "relation_to_type": "type", "validated": true, "ani": 80.1979, "matched_fragments": 533, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas polaris", "strain": "strain=DSM 16579", "accession": "GCA_900129155.1", "taxid": 293552, "species_taxid": 293552, "relation_to_type": "type", "validated": true, "ani": 80.1355, "matched_fragments": 495, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas lutimaris", "strain": "strain=E165", "accession": "GCA_019426345.1", "taxid": 2846746, "species_taxid": 2846746, "relation_to_type": "type", "validated": true, "ani": 79.9944, "matched_fragments": 504, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas rhizomae", "strain": "strain=IVIA-Po-145", "accession": "GCA_003721275.1", "taxid": 491948, "species_taxid": 491948, "relation_to_type": "type", "validated": true, "ani": 79.7904, "matched_fragments": 482, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas foliarum", "strain": "strain=CECT 7731", "accession": "GCA_003337275.1", "taxid": 491950, "species_taxid": 491950, "relation_to_type": "type", "validated": true, "ani": 79.7555, "matched_fragments": 485, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas alcarazii", "strain": "strain=CECT 7730", "accession": "GCA_003208215.1", "taxid": 491949, "species_taxid": 491949, "relation_to_type": "type", "validated": true, "ani": 79.6356, "matched_fragments": 431, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas arctica", "strain": "strain=328", "accession": "GCA_003259225.1", "taxid": 383750, "species_taxid": 383750, "relation_to_type": "type", "validated": true, "ani": 79.623, "matched_fragments": 442, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinomonas arctica", "strain": "strain=CGMCC 1.6498", "accession": "GCA_014645175.1", "taxid": 383750, "species_taxid": 383750, "relation_to_type": "type", "validated": true, "ani": 79.592, "matched_fragments": 444, "total_fragments": 1097, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000521805.1", "gtdb_species": "s__Marinomonas ushuaiensis", "ani": 100.0, "matched_fragments": 1096, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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_014803385.1", "gtdb_species": "s__Marinomonas colpomeniae", "ani": 81.8348, "matched_fragments": 646, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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_000508165.1", "gtdb_species": "s__Marinomonas profundimaris", "ani": 80.2359, "matched_fragments": 504, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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_013372285.1", "gtdb_species": "s__Marinomonas primoryensis", "ani": 80.2043, "matched_fragments": 532, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.98", "min_intra_species_ani": "96.98", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900129155.1", "gtdb_species": "s__Marinomonas polaris", "ani": 80.1384, "matched_fragments": 494, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.53", "min_intra_species_ani": "97.35", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_018336955.1", "gtdb_species": "s__Marinomonas sp018336955", "ani": 80.0446, "matched_fragments": 502, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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_000017285.1", "gtdb_species": "s__Marinomonas sp000017285", "ani": 79.924, "matched_fragments": 491, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.39", "min_intra_species_ani": "98.39", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003315485.1", "gtdb_species": "s__Marinomonas rhizomae", "ani": 79.7529, "matched_fragments": 489, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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_003208215.1", "gtdb_species": "s__Marinomonas alcarazii", "ani": 79.6356, "matched_fragments": 431, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.70", "min_intra_species_ani": "98.70", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003259225.1", "gtdb_species": "s__Marinomonas arctica", "ani": 79.6295, "matched_fragments": 441, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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": 3, "status": "-" }, { "accession": "GCF_003259175.1", "gtdb_species": "s__Marinomonas shanghaiensis", "ani": 79.4183, "matched_fragments": 428, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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_016463975.1", "gtdb_species": "s__Marinomonas sp016463975", "ani": 79.0358, "matched_fragments": 380, "total_fragments": 1097, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Marinomonadaceae;g__Marinomonas", "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": -0.312, "cell_length": 0.158, "doubling_h": null, "growth_tmp": 26.0, "optimum_tmp": 26.875, "optimum_ph": 7.216, "genome_size": 3342098.0, "gc_content": 41.1, "coding_genes": 4110.0, "rRNA16S_genes": 7.0, "tRNA_genes": 80.0, "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": [ "Marinomonas", "ushuaiensis", "DSM", "15871" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }