{ "type": "genome", "identifier": "GCF_004335015.1", "organism": "Psychrobacter pygoscelis", "title": "Psychrobacter pygoscelis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Universidad Andres Bello", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004335015.1", "bioproject": "PRJNA224116", "biosample": "SAMN10415396", "wgs_master": "RQRU00000000.1", "refseq_category": "reference genome", "taxid": "2488563", "species_taxid": "2488563", "organism_name": "Psychrobacter pygoscelis", "infraspecific_name": "strain=I-STPP5b", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/08", "asm_name": "ASM433501v1", "asm_submitter": "Universidad Andres Bello", "gbrs_paired_asm": "GCA_004335015.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/335/015/GCF_004335015.1_ASM433501v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3407407", "genome_size_ungapped": "3407407", "gc_percent": "44.500000", "replicon_count": "0", "scaffold_count": "36", "contig_count": "36", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004335015.1-RS_2024_04_11", "annotation_date": "2024-04-11", "total_gene_count": "2794", "protein_coding_gene_count": "2711", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-08", "dateModified": "2019-03-08", "datePublished": "2019-03-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Psychrobacter pygoscelis" ], "sample_taxid": [ "2488563" ], "sample_host_organism": [ "Pygoscelis papua" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica" ], "sample_host_location_id": [], "data_size": "0.971 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)": "3407407", "Number of Sequences": "36", "Longest Sequences (bp)": "1204996", "N50 (bp)": "880235", "Gap Ratio (%)": "0.000117", "GCcontent (%)": "44.4", "Number of CDSs": "2739", "Average Protein Length": "326.0", "Coding Ratio (%)": "78.6", "Number of rRNAs": "3", "Number of tRNAs": "43", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Psychrobacter pygoscelis", "strain": "strain=I-STPP5b", "accession": "GCA_004335015.1", "taxid": 2488563, "species_taxid": 2488563, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1125, "total_fragments": 1126, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Psychrobacter cryohalolentis", "strain": "strain=K5", "accession": "GCA_000013905.1", "taxid": 330922, "species_taxid": 330922, "relation_to_type": "type", "validated": true, "ani": 77.7875, "matched_fragments": 162, "total_fragments": 1126, "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": 77.6925, "matched_fragments": 122, "total_fragments": 1126, "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": 77.5896, "matched_fragments": 178, "total_fragments": 1126, "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": 77.5576, "matched_fragments": 159, "total_fragments": 1126, "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": 77.5446, "matched_fragments": 159, "total_fragments": 1126, "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": 77.5338, "matched_fragments": 161, "total_fragments": 1126, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter phenylpyruvicus", "strain": "strain=NCTC10526", "accession": "GCA_900455955.1", "taxid": 29432, "species_taxid": 29432, "relation_to_type": "type", "validated": true, "ani": 77.4973, "matched_fragments": 114, "total_fragments": 1126, "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": 77.4855, "matched_fragments": 155, "total_fragments": 1126, "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": 77.4824, "matched_fragments": 162, "total_fragments": 1126, "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": 77.4595, "matched_fragments": 113, "total_fragments": 1126, "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": 77.4409, "matched_fragments": 191, "total_fragments": 1126, "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": 77.4273, "matched_fragments": 153, "total_fragments": 1126, "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": 77.3378, "matched_fragments": 161, "total_fragments": 1126, "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": 77.2206, "matched_fragments": 164, "total_fragments": 1126, "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": 77.2125, "matched_fragments": 102, "total_fragments": 1126, "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": 77.1586, "matched_fragments": 166, "total_fragments": 1126, "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": 77.155, "matched_fragments": 194, "total_fragments": 1126, "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": 77.0463, "matched_fragments": 188, "total_fragments": 1126, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacter lutiphocae", "strain": "strain=DSM 21542", "accession": "GCA_000382145.1", "taxid": 540500, "species_taxid": 540500, "relation_to_type": "type", "validated": true, "ani": 76.8627, "matched_fragments": 124, "total_fragments": 1126, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004335015.1", "gtdb_species": "s__Psychrobacter pygoscelis", "ani": 100.0, "matched_fragments": 1125, "total_fragments": 1126, "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": "conclusive" }, { "accession": "GCF_904848165.1", "gtdb_species": "s__Psychrobacter arenosus", "ani": 78.7192, "matched_fragments": 337, "total_fragments": 1126, "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_904846035.1", "gtdb_species": "s__Psychrobacter aestuarii", "ani": 77.7367, "matched_fragments": 151, "total_fragments": 1126, "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_001435845.1", "gtdb_species": "s__Psychrobacter sp001435845", "ani": 77.6526, "matched_fragments": 172, "total_fragments": 1126, "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_904846685.1", "gtdb_species": "s__Psychrobacter sp000511655", "ani": 77.5151, "matched_fragments": 178, "total_fragments": 1126, "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": "-" }, { "accession": "GCF_016107545.1", "gtdb_species": "s__Psychrobacter namhaensis", "ani": 77.4758, "matched_fragments": 161, "total_fragments": 1126, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_003350005.1", "gtdb_species": "s__Psychrobacter proteolyticus_A", "ani": 77.4657, "matched_fragments": 173, "total_fragments": 1126, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000685805.1", "gtdb_species": "s__Psychrobacter phenylpyruvicus", "ani": 77.4534, "matched_fragments": 114, "total_fragments": 1126, "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_002836735.1", "gtdb_species": "s__Psychrobacter sp002836735", "ani": 77.4472, "matched_fragments": 169, "total_fragments": 1126, "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_016107555.1", "gtdb_species": "s__Psychrobacter celer", "ani": 77.4409, "matched_fragments": 191, "total_fragments": 1126, "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": "-" }, { "accession": "GCF_003217155.1", "gtdb_species": "s__Psychrobacter fozii", "ani": 77.4259, "matched_fragments": 153, "total_fragments": 1126, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.56", "min_intra_species_ani": "95.06", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_013248965.1", "gtdb_species": "s__Psychrobacter okhotskensis", "ani": 77.4041, "matched_fragments": 197, "total_fragments": 1126, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Psychrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.29", 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"98.77", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001298525.1", "gtdb_species": "s__Psychrobacter urativorans_A", "ani": 77.3262, "matched_fragments": 151, "total_fragments": 1126, "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_904846055.1", "gtdb_species": "s__Psychrobacter ciconiae_A", "ani": 77.3184, "matched_fragments": 120, "total_fragments": 1126, "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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"0.86", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_002377945.1", "gtdb_species": "s__Psychrobacter sp002377945", "ani": 77.0258, "matched_fragments": 181, "total_fragments": 1126, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.036, "cell_length": 0.148, "doubling_h": 0.331, "growth_tmp": 25.518, "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": 0.028, "anaerobic_respiration": 0.028, "aerobic_respiration": 0.942, "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", "pygoscelis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }