{ "type": "genome", "identifier": "GCF_900107725.1", "organism": "Microbulbifer marinus", "title": "Microbulbifer marinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900107725.1", "bioproject": "PRJNA224116", "biosample": "SAMN05216562", "wgs_master": "FNQO00000000.1", "refseq_category": "reference genome", "taxid": "658218", "species_taxid": "658218", "organism_name": "Microbulbifer marinus", "infraspecific_name": "strain=CGMCC 1.10657", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/22", "asm_name": "IMG-taxon 2667527380 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900107725.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/107/725/GCF_900107725.1_IMG-taxon_2667527380_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3982390", "genome_size_ungapped": "3982200", "gc_percent": "60.000000", "replicon_count": "0", "scaffold_count": "11", "contig_count": "11", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900107725.1-RS_2024_04_24", "annotation_date": "2024-04-24", "total_gene_count": "3443", "protein_coding_gene_count": "3377", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-22", "dateModified": "2016-10-22", "datePublished": "2016-10-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Microbulbifer marinus" ], "sample_taxid": [ "658218" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.124 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)": "3982390", "Number of Sequences": "11", "Longest Sequences (bp)": "1857302", "N50 (bp)": "940988", "Gap Ratio (%)": "0.004771", "GCcontent (%)": "59.8", "Number of CDSs": "3425", "Average Protein Length": "338.7", "Coding Ratio (%)": "87.4", "Number of rRNAs": "4", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Microbulbifer marinus", "strain": "strain=CGMCC 1.10657", "accession": "GCA_900107725.1", "taxid": 658218, "species_taxid": 658218, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1323, "total_fragments": 1323, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Microbulbifer donghaiensis", "strain": "strain=CGMCC 1.7063", "accession": "GCA_900129095.1", "taxid": 494016, "species_taxid": 494016, "relation_to_type": "type", "validated": true, "ani": 86.4493, "matched_fragments": 1083, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer taiwanensis", "strain": "strain=LMG 26125", "accession": "GCA_014904815.1", "taxid": 986746, "species_taxid": 986746, "relation_to_type": "type", "validated": true, "ani": 83.1263, "matched_fragments": 863, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer hainanensis", "strain": "strain=NBU-8HK146", "accession": "GCA_014904735.1", "taxid": 2735675, "species_taxid": 2735675, "relation_to_type": "type", "validated": true, "ani": 81.6957, "matched_fragments": 766, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer rhizosphaerae", "strain": "strain=CECT 8799", "accession": "GCA_014191725.1", "taxid": 1562603, "species_taxid": 1562603, "relation_to_type": "type", "validated": true, "ani": 81.1133, "matched_fragments": 701, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer yueqingensis", "strain": "strain=CGMCC 1.10658", "accession": "GCA_900100355.1", "taxid": 658219, "species_taxid": 658219, "relation_to_type": "type", "validated": true, "ani": 80.7199, "matched_fragments": 684, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer aggregans", "strain": "strain=CCB-MM1", "accession": "GCA_001750105.1", "taxid": 1769779, "species_taxid": 1769779, "relation_to_type": "type", "validated": true, "ani": 80.3028, "matched_fragments": 614, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer harenosus", "strain": "strain=HB161719", "accession": "GCA_005771435.1", "taxid": 2576840, "species_taxid": 2576840, "relation_to_type": "type", "validated": true, "ani": 79.684, "matched_fragments": 558, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer elongatus", "strain": "strain=DSM 6810", "accession": "GCA_021165935.1", "taxid": 86173, "species_taxid": 86173, "relation_to_type": "type", "validated": true, "ani": 79.3892, "matched_fragments": 484, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer elongatus", "strain": "strain=DSM 6810", "accession": "GCA_022554105.1", "taxid": 86173, "species_taxid": 86173, "relation_to_type": "type", "validated": true, "ani": 79.368, "matched_fragments": 484, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer celer", "strain": "strain=KCTC 12973", "accession": "GCA_020991125.1", "taxid": 435905, "species_taxid": 435905, "relation_to_type": "type", "validated": true, "ani": 79.1519, "matched_fragments": 516, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aromaticivorans", "strain": "strain=MAP12", "accession": "GCA_019097855.1", "taxid": 2849492, "species_taxid": 2849492, "relation_to_type": "type", "validated": true, "ani": 77.2679, "matched_fragments": 209, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas insulae", "strain": "strain=UL073", "accession": "GCA_016901015.1", "taxid": 2809017, "species_taxid": 2809017, "relation_to_type": "type", "validated": true, "ani": 77.0334, "matched_fragments": 177, "total_fragments": 1323, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900107725.1", "gtdb_species": "s__Microbulbifer marinus", "ani": 100.0, "matched_fragments": 1323, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_900129095.1", "gtdb_species": "s__Microbulbifer donghaiensis", "ani": 86.4493, "matched_fragments": 1083, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_014904815.1", "gtdb_species": "s__Microbulbifer taiwanensis", "ani": 83.1463, "matched_fragments": 861, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_014904735.1", "gtdb_species": "s__Microbulbifer hainanensis", "ani": 81.6865, "matched_fragments": 767, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_014191725.1", "gtdb_species": "s__Microbulbifer rhizosphaerae", "ani": 81.1133, "matched_fragments": 701, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_900100355.1", "gtdb_species": "s__Microbulbifer yueqingensis", "ani": 80.7186, "matched_fragments": 686, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_001750105.1", "gtdb_species": "s__Microbulbifer aggregans", "ani": 80.3009, "matched_fragments": 614, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_009903625.1", "gtdb_species": "s__Microbulbifer sp009903625", "ani": 79.5335, "matched_fragments": 516, "total_fragments": 1323, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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": 0.397, "doubling_h": null, "growth_tmp": 31.3, "optimum_tmp": 27.5, "optimum_ph": 7.262, "genome_size": 3982390.0, "gc_content": 56.958, "coding_genes": 3303.166, "rRNA16S_genes": 3.333, "tRNA_genes": 59.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "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": [ "Microbulbifer", "marinus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }