{ "type": "genome", "identifier": "GCF_003336705.1", "organism": "Marinobacter litoralis", "title": "Marinobacter litoralis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "School of Bioprocess Engineering, Universiti Malaysia Perlis, Malaysia.", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003336705.1", "bioproject": "PRJNA224116", "biosample": "SAMN09425405", "wgs_master": "QMDL00000000.1", "refseq_category": "reference genome", "taxid": "187981", "species_taxid": "187981", "organism_name": "Marinobacter litoralis", "infraspecific_name": "strain=Sw-45", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/24", "asm_name": "ASM333670v1", "asm_submitter": "School of Bioprocess Engineering, Universiti Malaysia Perlis, Malaysia.", "gbrs_paired_asm": "GCA_003336705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/336/705/GCF_003336705.1_ASM333670v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3452504", "genome_size_ungapped": "3452504", "gc_percent": "54.500000", "replicon_count": "0", "scaffold_count": "9", "contig_count": "9", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003336705.1-RS_2024_11_26", "annotation_date": "2024-11-26", "total_gene_count": "3182", "protein_coding_gene_count": "3119", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-24", "dateModified": "2018-07-24", "datePublished": "2018-07-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Marinobacter litoralis" ], "sample_taxid": [ "187981" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Malaysia: Johor Bahru" ], "sample_host_location_id": [], "data_size": "0.984 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 35.0, "max": 35.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3452504", "Number of Sequences": "9", "Longest Sequences (bp)": "1183739", "N50 (bp)": "903369", "Gap Ratio (%)": "0.000087", "GCcontent (%)": "54.4", "Number of CDSs": "3148", "Average Protein Length": "334.1", "Coding Ratio (%)": "91.4", "Number of rRNAs": "3", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Marinobacter litoralis", "strain": "strain=Sw-45", "accession": "GCA_003336705.1", "taxid": 187981, "species_taxid": 187981, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1147, "total_fragments": 1147, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Marinobacter vinifirmus", "strain": "strain=FB1", "accession": "GCA_002258215.1", "taxid": 355591, "species_taxid": 355591, "relation_to_type": "type", "validated": true, "ani": 80.8709, "matched_fragments": 538, "total_fragments": 1147, "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": 80.0767, "matched_fragments": 520, "total_fragments": 1147, "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": 80.0202, "matched_fragments": 525, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter nauticus", "strain": "strain=DSM 50418", "accession": "GCA_003634635.1", "taxid": 2743, "species_taxid": 2743, "relation_to_type": "type", "validated": true, "ani": 79.8801, "matched_fragments": 501, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter halophilus", "strain": "strain=CGMCC 1.12481", "accession": "GCA_014637865.1", "taxid": 1323740, "species_taxid": 1323740, "relation_to_type": "type", "validated": true, "ani": 79.6222, "matched_fragments": 495, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter halophilus", "strain": "strain=JCM 30472", "accession": "GCA_003007685.1", "taxid": 1323740, "species_taxid": 1323740, "relation_to_type": "type", "validated": true, "ani": 79.5948, "matched_fragments": 496, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter daepoensis", "strain": "strain=DSM 16072", "accession": "GCA_000421165.1", "taxid": 262077, "species_taxid": 262077, "relation_to_type": "type", "validated": true, "ani": 78.9515, "matched_fragments": 451, "total_fragments": 1147, "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": 78.8563, "matched_fragments": 357, "total_fragments": 1147, "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": 78.7079, "matched_fragments": 355, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter guineae", "strain": "strain=M3B", "accession": "GCA_002744735.1", "taxid": 432303, "species_taxid": 432303, "relation_to_type": "type", "validated": true, "ani": 78.6304, "matched_fragments": 388, "total_fragments": 1147, "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": 78.5637, "matched_fragments": 311, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas tumuqii", "strain": "strain=LAMW06", "accession": "GCA_013184545.1", "taxid": 2715755, "species_taxid": 2715755, "relation_to_type": "type", "validated": true, "ani": 76.533, "matched_fragments": 82, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pergaminensis", "strain": "strain=1008", "accession": "GCA_024112395.1", "taxid": 2853159, "species_taxid": 2853159, "relation_to_type": "type", "validated": true, "ani": 76.433, "matched_fragments": 65, "total_fragments": 1147, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003336705.1", "gtdb_species": "s__Marinobacter litoralis", "ani": 100.0, "matched_fragments": 1147, "total_fragments": 1147, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "98.25", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_004353225.1", "gtdb_species": "s__Marinobacter sp004353225", "ani": 87.1998, "matched_fragments": 984, "total_fragments": 1147, "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_016427555.1", "gtdb_species": "s__Marinobacter litoralis_A", "ani": 87.0607, "matched_fragments": 924, "total_fragments": 1147, "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_002258215.1", "gtdb_species": "s__Marinobacter vinifirmus", "ani": 80.8783, "matched_fragments": 537, 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1147, "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_018402255.1", "gtdb_species": "s__Marinobacter sp018402255", "ani": 79.8677, "matched_fragments": 442, "total_fragments": 1147, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "99.33", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_017301335.1", "gtdb_species": "s__Marinobacter sp017301335", "ani": 78.5421, "matched_fragments": 302, "total_fragments": 1147, "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": 30.0, "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": 0.0, "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": 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 }, "_genome_taxon": [ "Marinobacter", "litoralis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }