{ "type": "genome", "identifier": "GCF_000382145.1", "organism": "Psychrobacter lutiphocae DSM 21542", "title": "Psychrobacter lutiphocae DSM 21542", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000382145.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441319", "wgs_master": "ARNF00000000.1", "refseq_category": "na", "taxid": "1123033", "species_taxid": "540500", "organism_name": "Psychrobacter lutiphocae DSM 21542", "infraspecific_name": "strain=DSM 21542", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/04/24", "asm_name": "ASM38214v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000382145.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/382/145/GCF_000382145.1_ASM38214v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3176011", "genome_size_ungapped": "3172127", "gc_percent": "41.500000", "replicon_count": "0", "scaffold_count": "79", "contig_count": "89", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000382145.1-RS_2024_12_23", "annotation_date": "2024-12-23", "total_gene_count": "2685", "protein_coding_gene_count": "2573", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-04-24", "dateModified": "2013-04-24", "datePublished": "2013-04-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Psychrobacter lutiphocae DSM 21542" ], "sample_taxid": [ "1123033" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "0.903 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)": "3176011", "Number of Sequences": "79", "Longest Sequences (bp)": "198408", "N50 (bp)": "75311", "Gap Ratio (%)": "0.122292", "GCcontent (%)": "41.5", "Number of CDSs": "2553", "Average Protein Length": "325.9", "Coding Ratio (%)": "78.6", "Number of rRNAs": "3", "Number of tRNAs": "45", "Number of CRISPRs": "9" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Psychrobacter lutiphocae", "strain": "strain=DSM 21542", "accession": "GCA_000382145.1", "taxid": 540500, "species_taxid": 540500, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1014, "total_fragments": 1017, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Psychrobacter phenylpyruvicus", "strain": "strain=NCTC10526", "accession": "GCA_900455955.1", "taxid": 29432, "species_taxid": 29432, "relation_to_type": "type", "validated": true, "ani": 79.4815, "matched_fragments": 322, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter phenylpyruvicus", "strain": "strain=DSM 7000", "accession": "GCA_000685805.1", "taxid": 29432, "species_taxid": 29432, "relation_to_type": "type", "validated": true, "ani": 79.3362, "matched_fragments": 324, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter phenylpyruvicus", "strain": "strain=NBRC 102152", "accession": "GCA_001591185.1", "taxid": 29432, "species_taxid": 29432, "relation_to_type": "type", "validated": true, "ani": 79.2504, "matched_fragments": 306, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter sanguinis", "strain": "strain=FDAARGOS_1598", "accession": "GCA_020736705.1", "taxid": 861445, "species_taxid": 861445, "relation_to_type": "type", "validated": true, "ani": 79.0872, "matched_fragments": 312, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter arcticus", "strain": "strain=273-4", "accession": "GCA_000012305.1", "taxid": 334543, "species_taxid": 334543, "relation_to_type": "type", "validated": true, "ani": 77.4349, "matched_fragments": 127, "total_fragments": 1017, "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": 77.1743, "matched_fragments": 146, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter celer", "strain": "strain=DSM 23510", "accession": "GCA_016107555.1", "taxid": 306572, "species_taxid": 306572, "relation_to_type": "type", "validated": true, "ani": 77.1546, "matched_fragments": 124, "total_fragments": 1017, "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": 77.0226, "matched_fragments": 115, "total_fragments": 1017, "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": 76.9357, "matched_fragments": 143, "total_fragments": 1017, "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": 76.8311, "matched_fragments": 112, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Moraxella boevrei", "strain": "strain=DSM 14165", "accession": "GCA_000379845.1", "taxid": 346665, "species_taxid": 346665, "relation_to_type": "type", "validated": true, "ani": 76.4217, "matched_fragments": 51, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000382145.1", "gtdb_species": "s__Psychrobacter lutiphocae", "ani": 100.0, "matched_fragments": 1014, "total_fragments": 1017, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_002313155.2", "gtdb_species": "s__Psychrobacter sp002313155", "ani": 80.505, "matched_fragments": 547, "total_fragments": 1017, "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_900162815.1", "gtdb_species": "s__Psychrobacter pasteurii", "ani": 79.3543, "matched_fragments": 330, "total_fragments": 1017, "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_000685805.1", "gtdb_species": "s__Psychrobacter phenylpyruvicus", "ani": 79.3249, "matched_fragments": 324, "total_fragments": 1017, "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": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_009725675.1", "gtdb_species": "s__Psychrobacter sanguinis_A", "ani": 79.3155, "matched_fragments": 339, "total_fragments": 1017, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.56", 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"96.57", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_002385225.1", "gtdb_species": "s__Psychrobacter sp002385225", "ani": 78.8441, "matched_fragments": 308, "total_fragments": 1017, "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_018260445.1", "gtdb_species": "s__Psychrobacter sp018260445", "ani": 77.2636, "matched_fragments": 132, "total_fragments": 1017, "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", 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"mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_000379845.1", "gtdb_species": "s__Moraxella_A boevrei", "ani": 76.4217, "matched_fragments": 51, "total_fragments": 1017, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Moraxella_A", "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": 37.0, "optimum_tmp": 30.25, "optimum_ph": 7.222, "genome_size": 3176011.0, "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": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 1.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Psychrobacter", "lutiphocae", "DSM", "21542" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }