{ "type": "genome", "identifier": "GCF_904846685.1", "organism": "Psychrobacter submarinus", "title": "Psychrobacter submarinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY", "publication": [ {} ], "properties": { "assembly_accession": "GCF_904846685.1", "bioproject": "PRJNA224116", "biosample": "SAMEA7339795", "wgs_master": "CAJHBQ000000000.1", "refseq_category": "reference genome", "taxid": "154108", "species_taxid": "154108", "organism_name": "Psychrobacter submarinus", "infraspecific_name": "strain=KMM 225", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/11/21", "asm_name": "ASM90484668v1", "asm_submitter": "MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY", "gbrs_paired_asm": "GCA_904846685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/904/846/685/GCF_904846685.1_ASM90484668v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3013331", "genome_size_ungapped": "3013331", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "6", "contig_count": "6", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_904846685.1-RS_2024_10_11", "annotation_date": "2024-10-11", "total_gene_count": "2624", "protein_coding_gene_count": "2513", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-11-21", "dateModified": "2020-11-21", "datePublished": "2020-11-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Psychrobacter submarinus" ], "sample_taxid": [ "154108" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.856 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)": "3013331", "Number of Sequences": "6", "Longest Sequences (bp)": "1431514", "N50 (bp)": "737933", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "44.8", "Number of CDSs": "2577", "Average Protein Length": "322.4", "Coding Ratio (%)": "82.7", "Number of rRNAs": "3", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Psychrobacter celer", "strain": "strain=DSM 23510", "accession": "GCA_016107555.1", "taxid": 306572, "species_taxid": 306572, "relation_to_type": "type", "validated": true, "ani": 82.5183, "matched_fragments": 463, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter pacificensis", "strain": "strain=DSM 23406", "accession": "GCA_900101915.1", "taxid": 112002, "species_taxid": 112002, "relation_to_type": "type", "validated": true, "ani": 81.5783, "matched_fragments": 437, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter halodurans", "strain": "strain=F2608", "accession": "GCA_017498075.1", "taxid": 2818439, "species_taxid": 2818439, "relation_to_type": "type", "validated": true, "ani": 79.9332, "matched_fragments": 432, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter communis", "strain": "strain=Sa4CVA2", "accession": "GCA_014836505.1", "taxid": 2762238, "species_taxid": 2762238, "relation_to_type": "type", "validated": true, "ani": 79.1236, "matched_fragments": 388, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter coccoides", "strain": "strain=F1192", "accession": "GCA_017498085.1", "taxid": 2818440, "species_taxid": 2818440, "relation_to_type": "type", "validated": true, "ani": 79.1032, "matched_fragments": 366, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter faecalis", "strain": "strain=DSM 14664", "accession": "GCA_016107575.1", "taxid": 180588, "species_taxid": 180588, "relation_to_type": "type", "validated": true, "ani": 79.0331, "matched_fragments": 418, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter glaciei", "strain": "strain=KCTC 42280", "accession": "GCA_014652895.1", "taxid": 619771, "species_taxid": 619771, "relation_to_type": "type", "validated": true, "ani": 79.005, "matched_fragments": 398, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter namhaensis", "strain": "strain=DSM 16330", "accession": "GCA_016107545.1", "taxid": 292734, "species_taxid": 292734, "relation_to_type": "type", "validated": true, "ani": 78.8599, "matched_fragments": 369, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter aquimaris", "strain": "strain=DSM 16329", "accession": "GCA_016107525.1", "taxid": 292733, "species_taxid": 292733, "relation_to_type": "type", "validated": true, "ani": 78.685, "matched_fragments": 368, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter luti", "strain": "strain=CECT 5885", "accession": "GCA_014192115.1", "taxid": 198481, "species_taxid": 198481, "relation_to_type": "type", "validated": true, "ani": 78.6601, "matched_fragments": 375, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter cibarius", "strain": "strain=DSM 16327", "accession": "GCA_016107535.1", "taxid": 282669, "species_taxid": 282669, "relation_to_type": "type", "validated": true, "ani": 78.6043, "matched_fragments": 374, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter immobilis", "strain": "strain=DSM 7229", "accession": "GCA_003148585.1", "taxid": 498, "species_taxid": 498, "relation_to_type": "suspected-type", "validated": true, "ani": 78.5796, "matched_fragments": 385, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter cryohalolentis", "strain": "strain=K5", "accession": "GCA_000013905.1", "taxid": 330922, "species_taxid": 330922, "relation_to_type": "type", "validated": true, "ani": 78.4895, "matched_fragments": 379, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter aquaticus", "strain": "strain=CMS 56", "accession": "GCA_000471625.1", "taxid": 248452, "species_taxid": 248452, "relation_to_type": "type", "validated": true, "ani": 78.3557, "matched_fragments": 385, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter fozii", "strain": "strain=CECT 5889", "accession": "GCA_003217155.1", "taxid": 198480, "species_taxid": 198480, "relation_to_type": "type", "validated": true, "ani": 78.2716, "matched_fragments": 356, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter frigidicola", "strain": "strain=ACAM 304", "accession": "GCA_007997305.1", "taxid": 45611, "species_taxid": 45611, "relation_to_type": "type", "validated": true, "ani": 77.8355, "matched_fragments": 328, "total_fragments": 1002, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_904846685.1", "gtdb_species": "s__Psychrobacter sp000511655", "ani": 100.0, "matched_fragments": 1001, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.68", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_016107555.1", "gtdb_species": "s__Psychrobacter celer", "ani": 82.5459, "matched_fragments": 462, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.12", "min_intra_species_ani": "95.68", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 9, "status": "-" }, { 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"GCF_904846415.1", "gtdb_species": "s__Psychrobacter piscatorii_A", "ani": 79.7393, "matched_fragments": 394, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "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_002836735.1", "gtdb_species": "s__Psychrobacter sp002836735", "ani": 79.5029, "matched_fragments": 388, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.08", "min_intra_species_ani": "95.08", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_904846185.1", "gtdb_species": "s__Psychrobacter immobilis_B", "ani": 79.3337, "matched_fragments": 389, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 96.3523, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_904846145.1", "gtdb_species": "s__Psychrobacter immobilis_G", "ani": 79.3258, "matched_fragments": 426, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "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_002414005.1", "gtdb_species": "s__Psychrobacter sp002414005", "ani": 79.2204, "matched_fragments": 384, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "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_001921745.1", "gtdb_species": "s__Psychrobacter sp001921745", "ani": 79.1843, "matched_fragments": 399, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.15", "min_intra_species_ani": "99.15", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_904846315.1", "gtdb_species": "s__Psychrobacter 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"matched_fragments": 400, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 96.4049, "mean_intra_species_ani": "96.53", "min_intra_species_ani": "96.53", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014861365.1", "gtdb_species": "s__Psychrobacter sp014861365", "ani": 78.8006, "matched_fragments": 379, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.77", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003350005.1", "gtdb_species": "s__Psychrobacter proteolyticus_A", "ani": 78.7963, 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391, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 96.2677, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "96.39", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014192115.1", "gtdb_species": "s__Psychrobacter luti", "ani": 78.6601, "matched_fragments": 375, "total_fragments": 1002, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "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_904846285.1", "gtdb_species": "s__Psychrobacter immobilis_D", "ani": 78.5099, "matched_fragments": 398, 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "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": -0.036, "cell_length": 0.148, "doubling_h": 0.331, "growth_tmp": 25.0, "optimum_tmp": 27.22, "optimum_ph": 7.222, "genome_size": 3154087.83, "gc_content": 42.3, "coding_genes": 2421.833, "rRNA16S_genes": 4.875, "tRNA_genes": 50.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.333, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.666, "bacillus_cell_shape": 0.235, "coccus_cell_shape": 0.294, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.47, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Psychrobacter", "submarinus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }