{ "type": "genome", "identifier": "GCA_002721435.1", "organism": "Marinobacter sp.", "title": "Marinobacter sp.", "description": "derived from metagenome; incomplete metagenome", "data type": "Genome sequencing and assembly", "organization": "Tara Oceans Consortium", "publication": [ {} ], "properties": { "assembly_accession": "GCA_002721435.1", "bioproject": "PRJNA391943", "biosample": "SAMN07619434", "wgs_master": "PBKL00000000.1", "refseq_category": "na", "taxid": "50741", "species_taxid": "50741", "organism_name": "Marinobacter sp.", "infraspecific_name": "", "isolate": "SP269", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/25", "asm_name": "ASM272143v1", "submitter": "Tara Oceans Consortium", "gbrs_paired_asm": "GCF_002721435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/721/435/GCA_002721435.1_ASM272143v1", "excluded_from_refseq": "derived from metagenome; incomplete metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-10-25", "dateModified": "2017-10-25", "datePublished": "2017-10-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Marinobacter sp." ], "sample_taxid": [ "50741" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean" ], "sample_host_location_id": [], "data_size": "0.903 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 62.5, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3110986", "Number of Sequences": "93", "Longest Sequences (bp)": "115338", "N50 (bp)": "39489", "Gap Ratio (%)": "0.434782", "GCcontent (%)": "57.5", "Number of CDSs": "2776", "Average Protein Length": "331.2", "Coding Ratio (%)": "88.7", "Number of rRNAs": "0", "Number of tRNAs": "24", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Marinobacter algicola", "strain": "strain=DG893", "accession": "GCA_000170835.1", "taxid": 236100, "species_taxid": 236100, "relation_to_type": "type", "validated": true, "ani": 92.4407, "matched_fragments": 802, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter denitrificans", "strain": "strain=JB02H27", "accession": "GCA_008795955.1", "taxid": 2597703, "species_taxid": 2597703, "relation_to_type": "type", "validated": true, "ani": 82.0796, "matched_fragments": 640, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter orientalis", "strain": "strain=W62", "accession": "GCA_004792665.1", "taxid": 1928859, "species_taxid": 1928859, "relation_to_type": "type", "validated": true, "ani": 81.7704, "matched_fragments": 534, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter orientalis", "strain": "strain=W62", "accession": "GCA_012956055.1", "taxid": 1928859, "species_taxid": 1928859, "relation_to_type": "type", "validated": true, "ani": 81.7502, "matched_fragments": 541, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter vulgaris", "strain": "strain=F01", "accession": "GCA_007559285.1", "taxid": 1928331, "species_taxid": 1928331, "relation_to_type": "type", "validated": true, "ani": 81.5097, "matched_fragments": 539, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter vulgaris", "strain": "strain=F01", "accession": "GCA_003344045.1", "taxid": 1928331, "species_taxid": 1928331, "relation_to_type": "type", "validated": true, "ani": 81.4186, "matched_fragments": 540, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter goseongensis", "strain": "strain=KCTC 12515", "accession": "GCA_023156235.1", "taxid": 453838, "species_taxid": 453838, "relation_to_type": "type", "validated": true, "ani": 79.9787, "matched_fragments": 416, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter halotolerans", "strain": "strain=NBRC 110910", "accession": "GCA_008795985.1", "taxid": 1569211, "species_taxid": 1569211, "relation_to_type": "type", "validated": true, "ani": 79.7547, "matched_fragments": 400, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter flavimaris", "strain": "strain=LMG 23834", "accession": "GCA_002933295.1", "taxid": 262076, "species_taxid": 262076, "relation_to_type": "type", "validated": true, "ani": 79.5907, "matched_fragments": 420, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter pelagius", "strain": "strain=CGMCC 1.6775", "accession": "GCA_900114925.1", "taxid": 379482, "species_taxid": 379482, "relation_to_type": "type", "validated": true, "ani": 79.5661, "matched_fragments": 412, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter similis", "strain": "strain=A3d10", "accession": "GCA_000830985.1", "taxid": 1420916, "species_taxid": 1420916, "relation_to_type": "type", "validated": true, "ani": 79.1026, "matched_fragments": 405, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter salinexigens", "strain": "strain=ZYF650", "accession": "GCA_008370345.1", "taxid": 2919747, "species_taxid": 2919747, "relation_to_type": "type", "validated": true, "ani": 78.6815, "matched_fragments": 319, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter bryozoorum", "strain": "strain=DSM 15401", "accession": "GCA_023156245.1", "taxid": 256324, "species_taxid": 256324, "relation_to_type": "type", "validated": true, "ani": 78.6009, "matched_fragments": 292, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter xestospongiae", "strain": "strain=JCM 17469", "accession": "GCA_023156385.1", "taxid": 994319, "species_taxid": 994319, "relation_to_type": "type", "validated": true, "ani": 78.2407, "matched_fragments": 304, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter caseinilyticus", "strain": "strain=M3-13", "accession": "GCA_011074955.1", "taxid": 2692195, "species_taxid": 2692195, "relation_to_type": "type", "validated": true, "ani": 77.8457, "matched_fragments": 226, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter mangrovi", "strain": "strain=CHFG3-1-5", "accession": "GCA_016798325.1", "taxid": 2803918, "species_taxid": 2803918, "relation_to_type": "type", "validated": true, "ani": 77.7064, "matched_fragments": 288, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium arenosum", "strain": "strain=CAU 1594", "accession": "GCA_019795155.1", "taxid": 2862496, "species_taxid": 2862496, "relation_to_type": "type", "validated": true, "ani": 76.0186, "matched_fragments": 70, "total_fragments": 990, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 62.5, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_000831005.1", "gtdb_species": "s__Marinobacter salarius", "ani": 98.3628, "matched_fragments": 913, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "96.73", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.79", "num_clustered_genomes": 21, "status": "conclusive" }, { "accession": "GCF_000170835.1", "gtdb_species": "s__Marinobacter algicola", "ani": 92.4407, "matched_fragments": 802, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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": "GCA_002726615.1", "gtdb_species": "s__Marinobacter sp002726615", "ani": 92.1029, "matched_fragments": 587, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.52", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.75", "min_intra_species_af": "0.64", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_005298175.1", "gtdb_species": "s__Marinobacter sp005298175", "ani": 82.2828, "matched_fragments": 628, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_000686085.1", "gtdb_species": "s__Marinobacter sp000686085", "ani": 82.0797, "matched_fragments": 599, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_008795955.1", "gtdb_species": "s__Marinobacter sp008795955", "ani": 82.0796, "matched_fragments": 640, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_004792665.1", "gtdb_species": "s__Marinobacter orientalis", "ani": 81.7798, "matched_fragments": 533, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_003344045.1", "gtdb_species": "s__Marinobacter vulgaris", "ani": 81.4186, "matched_fragments": 540, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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": "GCA_017643965.1", "gtdb_species": "s__Marinobacter sp017643965", "ani": 79.6735, "matched_fragments": 324, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_900114925.1", "gtdb_species": "s__Marinobacter pelagius", "ani": 79.5676, "matched_fragments": 411, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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": "GCA_018623515.1", "gtdb_species": "s__Marinobacter sp018623515", "ani": 79.2633, "matched_fragments": 339, "total_fragments": 990, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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": -0.242, "cell_length": 0.29, "doubling_h": -0.125, "growth_tmp": 30.29, "optimum_tmp": 30.084, "optimum_ph": 7.545, "genome_size": 4220111.947, "gc_content": 56.678, "coding_genes": 3548.15, "rRNA16S_genes": 2.444, "tRNA_genes": 48.833, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.96, "range_salinity": 1.0, "facultative_respiration": 0.137, "anaerobic_respiration": 0.034, "aerobic_respiration": 0.827, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.958, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.041, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Pseudomonadales", "f__Oleiphilaceae", "g__Marinobacter", "s__Marinobacter salarius" ], "_genome_taxon": [ "Marinobacter", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Pseudomonadales", "f__Oleiphilaceae", "g__Marinobacter", "s__Marinobacter salarius", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Pseudomonadales", "Oleiphilaceae", "Marinobacter", "Marinobacter", "salarius" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }