{ "type": "genome", "identifier": "GCF_004403975.1", "organism": "Cryobacterium psychrophilum", "title": "Cryobacterium psychrophilum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Microbiology, Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004403975.1", "bioproject": "PRJNA224116", "biosample": "SAMN11157752", "wgs_master": "SOHQ00000000.1", "refseq_category": "na", "taxid": "41988", "species_taxid": "41988", "organism_name": "Cryobacterium psychrophilum", "infraspecific_name": "strain=CGMCC 1.4292", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/26", "asm_name": "ASM440397v1", "asm_submitter": "Institute of Microbiology, Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_004403975.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/403/975/GCF_004403975.1_ASM440397v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3618383", "genome_size_ungapped": "3618383", "gc_percent": "65.000000", "replicon_count": "0", "scaffold_count": "51", "contig_count": "51", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004403975.1-RS_2024_04_05", "annotation_date": "2024-04-05", "total_gene_count": "3477", "protein_coding_gene_count": "3331", "non_coding_gene_count": "56", "pubmed_id": "32090405" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-26", "dateModified": "2019-03-26", "datePublished": "2019-03-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Cryobacterium psychrophilum" ], "sample_taxid": [ "41988" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica" ], "sample_host_location_id": [], "data_size": "1.013 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)": "3618383", "Number of Sequences": "51", "Longest Sequences (bp)": "348319", "N50 (bp)": "148441", "Gap Ratio (%)": "0.000636", "GCcontent (%)": "64.9", "Number of CDSs": "3454", "Average Protein Length": "308.9", "Coding Ratio (%)": "88.5", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cryobacterium psychrophilum", "strain": "strain=DSM 4854", "accession": "GCA_004365915.1", "taxid": 41988, "species_taxid": 41988, "relation_to_type": "type", "validated": true, "ani": 99.9946, "matched_fragments": 1174, "total_fragments": 1177, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cryobacterium roopkundense", "strain": "strain=DSM 21065", "accession": "GCA_014200405.1", "taxid": 1001240, "species_taxid": 1001240, "relation_to_type": "type", "validated": true, "ani": 81.5466, "matched_fragments": 656, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium roopkundense", "strain": "strain=RuG17", "accession": "GCA_000764165.1", "taxid": 1001240, "species_taxid": 1001240, "relation_to_type": "type", "validated": true, "ani": 81.4844, "matched_fragments": 628, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium melibiosiphilum", "strain": "strain=Hh39", "accession": "GCA_003602235.1", "taxid": 995039, "species_taxid": 995039, "relation_to_type": "type", "validated": true, "ani": 80.36, "matched_fragments": 551, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium luteum", "strain": "strain=Hh15", "accession": "GCA_004402515.1", "taxid": 1424661, "species_taxid": 1424661, "relation_to_type": "type", "validated": true, "ani": 80.2239, "matched_fragments": 514, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium flavum", "strain": "strain=Hh8", "accession": "GCA_004402625.1", "taxid": 1424659, "species_taxid": 1424659, "relation_to_type": "type", "validated": true, "ani": 80.2123, "matched_fragments": 549, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium flavum", "strain": "strain=CGMCC 1.11215", "accession": "GCA_900103805.1", "taxid": 1424659, "species_taxid": 1424659, "relation_to_type": "type", "validated": true, "ani": 80.1633, "matched_fragments": 550, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium aureum", "strain": "strain=Hh31", "accession": "GCA_002954245.1", "taxid": 995037, "species_taxid": 995037, "relation_to_type": "type", "validated": true, "ani": 80.1105, "matched_fragments": 504, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium levicorallinum", "strain": "strain=NBRC 107883", "accession": "GCA_007992355.1", "taxid": 995038, "species_taxid": 995038, "relation_to_type": "type", "validated": true, "ani": 80.0493, "matched_fragments": 506, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium levicorallinum", "strain": "strain=GMCC 1.11211", "accession": "GCA_900113585.1", "taxid": 995038, "species_taxid": 995038, "relation_to_type": "type", "validated": true, "ani": 80.0438, "matched_fragments": 506, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium levicorallinum", "strain": "strain=Hh34", "accession": "GCA_004402405.1", "taxid": 995038, "species_taxid": 995038, "relation_to_type": "type", "validated": true, "ani": 80.0345, "matched_fragments": 510, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium ruanii", "strain": "strain=Sr36", "accession": "GCA_004404055.1", "taxid": 1259197, "species_taxid": 1259197, "relation_to_type": "type", "validated": true, "ani": 79.9272, "matched_fragments": 487, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium soli", "strain": "strain=GCJ02", "accession": "GCA_003611035.1", "taxid": 2220095, "species_taxid": 2220095, "relation_to_type": "type", "validated": true, "ani": 79.773, "matched_fragments": 456, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium arcticum", "strain": "strain=SK-1", "accession": "GCA_003185895.1", "taxid": 670052, "species_taxid": 670052, "relation_to_type": "type", "validated": true, "ani": 79.6639, "matched_fragments": 469, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. tessellarius", "strain": "strain=ATCC 33566", "accession": "GCA_002240635.1", "taxid": 31965, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 77.814, "matched_fragments": 255, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mariniharenae", "strain": "strain=NEAU-184", "accession": "GCA_008122505.1", "taxid": 2604423, "species_taxid": 2604423, "relation_to_type": "type", "validated": true, "ani": 77.7924, "matched_fragments": 302, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces cavernae", "strain": "strain=SYSU K20354", "accession": "GCA_021044935.1", "taxid": 2898659, "species_taxid": 2898659, "relation_to_type": "type", "validated": true, "ani": 77.5416, "matched_fragments": 285, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces humatus", "strain": "strain=JCM 14319", "accession": "GCA_021228295.1", "taxid": 279573, "species_taxid": 279573, "relation_to_type": "type", "validated": true, "ani": 77.4647, "matched_fragments": 295, "total_fragments": 1177, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004365915.1", "gtdb_species": "s__Cryobacterium psychrophilum", "ani": 99.9946, "matched_fragments": 1174, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_014200405.1", "gtdb_species": "s__Cryobacterium roopkundense", "ani": 81.5454, "matched_fragments": 655, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_000738085.1", "gtdb_species": "s__Cryobacterium sp000738085", "ani": 80.8289, "matched_fragments": 592, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_015751745.1", "gtdb_species": "s__Cryobacterium sp015751745", "ani": 80.6869, "matched_fragments": 540, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_003602235.1", "gtdb_species": "s__Cryobacterium sp003602235", "ani": 80.3363, "matched_fragments": 554, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_004402535.1", "gtdb_species": "s__Cryobacterium sp004402535", "ani": 80.1702, "matched_fragments": 539, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_900103805.1", "gtdb_species": "s__Cryobacterium flavum", "ani": 80.1575, "matched_fragments": 551, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "97.38", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_004403305.1", "gtdb_species": "s__Cryobacterium sp004403305", "ani": 80.1205, "matched_fragments": 536, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_004402405.1", "gtdb_species": "s__Cryobacterium levicorallinum", "ani": 80.0634, "matched_fragments": 507, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "96.46", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.78", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_015752155.1", "gtdb_species": "s__Cryobacterium sp015752155", "ani": 80.0616, "matched_fragments": 503, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_004403985.1", "gtdb_species": "s__Cryobacterium sp004403985", "ani": 79.9708, "matched_fragments": 456, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.96", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004403185.1", "gtdb_species": "s__Cryobacterium sp004403185", "ani": 79.8828, "matched_fragments": 467, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_002929825.1", "gtdb_species": "s__Cryobacterium sp002929825", "ani": 79.8712, "matched_fragments": 449, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.15", "min_intra_species_ani": "95.07", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.81", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002929555.1", "gtdb_species": "s__Cryobacterium sp002929555", "ani": 79.6879, "matched_fragments": 443, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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_004403945.1", "gtdb_species": "s__Cryobacterium sp004403945", "ani": 79.3258, "matched_fragments": 466, "total_fragments": 1177, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "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": -0.302, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 10.0, "optimum_tmp": 19.125, "optimum_ph": 7.25, "genome_size": 3930741.888, "gc_content": 66.834, "coding_genes": 3934.0, "rRNA16S_genes": 3.0, "tRNA_genes": 51.0, "gram_stain": 1.0, "sporulation": null, "motility": 1.0, "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": [ "Cryobacterium", "psychrophilum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }