{ "type": "genome", "identifier": "GCF_016820575.1", "organism": "Marinobacter sediminum", "title": "Marinobacter sediminum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tianjin University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016820575.1", "bioproject": "PRJNA224116", "biosample": "SAMN11869258", "wgs_master": "JAEMQH000000000.1", "refseq_category": "reference genome", "taxid": "256323", "species_taxid": "256323", "organism_name": "Marinobacter sediminum", "infraspecific_name": "strain=R65", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/07", "asm_name": "ASM1682057v1", "asm_submitter": "Tianjin University", "gbrs_paired_asm": "GCA_016820575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/820/575/GCF_016820575.1_ASM1682057v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3719614", "genome_size_ungapped": "3719512", "gc_percent": "58.000000", "replicon_count": "0", "scaffold_count": "11", "contig_count": "11", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016820575.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3407", "protein_coding_gene_count": "3346", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-07", "dateModified": "2021-02-07", "datePublished": "2021-02-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Marinobacter sediminum" ], "sample_taxid": [ "256323" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Tianjin" ], "sample_host_location_id": [], "data_size": "1.053 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)": "3719614", "Number of Sequences": "11", "Longest Sequences (bp)": "1503553", "N50 (bp)": "1453143", "Gap Ratio (%)": "0.002769", "GCcontent (%)": "57.9", "Number of CDSs": "3389", "Average Protein Length": "332.6", "Coding Ratio (%)": "90.9", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Marinobacter sediminum", "strain": "strain=R65", "accession": "GCA_016820575.1", "taxid": 256323, "species_taxid": 256323, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1236, "total_fragments": 1236, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Marinobacter similis", "strain": "strain=A3d10", "accession": "GCA_000830985.1", "taxid": 1420916, "species_taxid": 1420916, "relation_to_type": "type", "validated": true, "ani": 92.1852, "matched_fragments": 1111, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter alexandrii", "strain": "strain=LZ-8", "accession": "GCA_005871205.1", "taxid": 2570351, "species_taxid": 2570351, "relation_to_type": "type", "validated": true, "ani": 89.7471, "matched_fragments": 1036, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter arenosus", "strain": "strain=CAU 1620", "accession": "GCA_019264345.1", "taxid": 2856822, "species_taxid": 2856822, "relation_to_type": "type", "validated": true, "ani": 81.3006, "matched_fragments": 776, "total_fragments": 1236, "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": 80.3214, "matched_fragments": 649, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter adhaerens", "strain": "strain=HP15", "accession": "GCA_000166295.1", "taxid": 1033846, "species_taxid": 1033846, "relation_to_type": "type", "validated": true, "ani": 80.2453, "matched_fragments": 639, "total_fragments": 1236, "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": 80.0379, "matched_fragments": 614, "total_fragments": 1236, "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": 80.0118, "matched_fragments": 523, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter vinifirmus", "strain": "strain=FB1", "accession": "GCA_002258215.1", "taxid": 355591, "species_taxid": 355591, "relation_to_type": "type", "validated": true, "ani": 79.9433, "matched_fragments": 532, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter lipolyticus", "strain": "strain=SM19", "accession": "GCA_000397065.2", "taxid": 209639, "species_taxid": 209639, "relation_to_type": "type", "validated": true, "ani": 79.94, "matched_fragments": 512, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter santoriniensis", "strain": "strain=NKSG1", "accession": "GCA_000347775.1", "taxid": 523742, "species_taxid": 523742, "relation_to_type": "type", "validated": true, "ani": 79.4731, "matched_fragments": 504, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter shengliensis subsp. alexandrii", "strain": "strain=LZ-6", "accession": "GCA_005871095.1", "taxid": 2570350, "species_taxid": 1389223, "relation_to_type": "type", "validated": true, "ani": 79.472, "matched_fragments": 534, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter shengliensis", "strain": "strain=SL013A34A2", "accession": "GCA_003007715.1", "taxid": 1389223, "species_taxid": 1389223, "relation_to_type": "type", "validated": true, "ani": 79.443, "matched_fragments": 555, "total_fragments": 1236, "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": 79.1219, "matched_fragments": 508, "total_fragments": 1236, "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": 78.6636, "matched_fragments": 341, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter segnicrescens", "strain": "strain=CGMCC 1.6489", "accession": "GCA_900111555.1", "taxid": 430453, "species_taxid": 430453, "relation_to_type": "type", "validated": true, "ani": 78.5665, "matched_fragments": 332, "total_fragments": 1236, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016820575.1", "gtdb_species": "s__Marinobacter sediminum", "ani": 100.0, "matched_fragments": 1236, "total_fragments": 1236, "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": "conclusive" }, { "accession": "GCA_000830985.1", "gtdb_species": "s__Marinobacter similis", "ani": 92.1852, "matched_fragments": 1111, "total_fragments": 1236, "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_005871205.1", "gtdb_species": "s__Marinobacter alexandrii", "ani": 89.7471, "matched_fragments": 1036, "total_fragments": 1236, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.69", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001650915.1", "gtdb_species": "s__Marinobacter sp001650915", "ani": 80.3544, "matched_fragments": 676, "total_fragments": 1236, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "97.47", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002933295.1", "gtdb_species": "s__Marinobacter flavimaris", "ani": 80.3304, "matched_fragments": 648, "total_fragments": 1236, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 96.6719, "mean_intra_species_ani": "97.80", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_000235625.1", "gtdb_species": "s__Marinobacter manganoxydans_A", "ani": 80.2481, "matched_fragments": 637, "total_fragments": 1236, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 96.5877, "mean_intra_species_ani": "97.20", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000166295.1", "gtdb_species": "s__Marinobacter adhaerens", "ani": 80.2453, "matched_fragments": 639, "total_fragments": 1236, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 96.6719, "mean_intra_species_ani": "98.39", "min_intra_species_ani": "97.71", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900115175.1", "gtdb_species": "s__Marinobacter gudaonensis", "ani": 80.2352, "matched_fragments": 655, "total_fragments": 1236, "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_003315345.1", "gtdb_species": "s__Marinobacter pelagius_A", "ani": 80.0927, "matched_fragments": 616, "total_fragments": 1236, "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": 80.0393, "matched_fragments": 505, "total_fragments": 1236, "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": 80.0387, "matched_fragments": 613, "total_fragments": 1236, "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_003994855.1", "gtdb_species": "s__Marinobacter sp003994855", "ani": 79.7367, "matched_fragments": 537, "total_fragments": 1236, "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_017643965.1", "gtdb_species": "s__Marinobacter sp017643965", "ani": 79.6832, "matched_fragments": 431, "total_fragments": 1236, "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_000347775.1", "gtdb_species": "s__Marinobacter santoriniensis", "ani": 79.4731, "matched_fragments": 504, "total_fragments": 1236, "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_017301335.1", "gtdb_species": "s__Marinobacter sp017301335", "ani": 79.4671, "matched_fragments": 549, "total_fragments": 1236, "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": -0.456, "cell_length": 0.332, "doubling_h": -0.125, "growth_tmp": 28.0, "optimum_tmp": 23.0, "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": 1.0, "range_salinity": 1.0, "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": [ "Marinobacter", "sediminum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }