{ "type": "genome", "identifier": "GCF_013409205.1", "organism": "Janibacter cremeus", "title": "Janibacter cremeus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013409205.1", "bioproject": "PRJNA224116", "biosample": "SAMN05878109", "wgs_master": "JACCAE000000000.1", "refseq_category": "reference genome", "taxid": "1285192", "species_taxid": "1285192", "organism_name": "Janibacter cremeus", "infraspecific_name": "strain=DSM 26154", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/13", "asm_name": "ASM1340920v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_013409205.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/409/205/GCF_013409205.1_ASM1340920v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3307489", "genome_size_ungapped": "3307489", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013409205.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3138", "protein_coding_gene_count": "3065", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-13", "dateModified": "2020-07-13", "datePublished": "2020-07-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Janibacter cremeus" ], "sample_taxid": [ "1285192" ], "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": "0.888 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)": "3307489", "Number of Sequences": "1", "Longest Sequences (bp)": "3307489", "N50 (bp)": "3307489", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "69.7", "Number of CDSs": "3120", "Average Protein Length": "326.8", "Coding Ratio (%)": "92.5", "Number of rRNAs": "6", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Janibacter cremeus", "strain": "strain=DSM 26154", "accession": "GCA_013409205.1", "taxid": 1285192, "species_taxid": 1285192, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1102, "total_fragments": 1102, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Janibacter anophelis", "strain": "strain=NBRC 107843", "accession": "GCA_001570945.1", "taxid": 319054, "species_taxid": 319054, "relation_to_type": "type", "validated": true, "ani": 83.2099, "matched_fragments": 698, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter terrae", "strain": "strain=NBRC 107853", "accession": "GCA_001591405.1", "taxid": 103817, "species_taxid": 103817, "relation_to_type": "type", "validated": true, "ani": 83.1978, "matched_fragments": 712, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter indicus", "strain": "strain=CGMCC 1.12511", "accession": "GCA_900176385.1", "taxid": 857417, "species_taxid": 857417, "relation_to_type": "type", "validated": true, "ani": 83.0796, "matched_fragments": 720, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter hoylei", "strain": "strain=PVAS-1", "accession": "GCA_004025845.1", "taxid": 364298, "species_taxid": 364298, "relation_to_type": "type", "validated": true, "ani": 83.024, "matched_fragments": 700, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter hoylei", "strain": "strain=PVAS-1", "accession": "GCA_000297495.1", "taxid": 364298, "species_taxid": 364298, "relation_to_type": "type", "validated": true, "ani": 82.9914, "matched_fragments": 674, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter limosus", "strain": "strain=NBRC 16128", "accession": "GCA_001570985.1", "taxid": 53458, "species_taxid": 53458, "relation_to_type": "type", "validated": true, "ani": 82.9751, "matched_fragments": 682, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter corallicola", "strain": "strain=NBRC 107790", "accession": "GCA_001570965.1", "taxid": 415212, "species_taxid": 415212, "relation_to_type": "type", "validated": true, "ani": 82.5242, "matched_fragments": 702, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter endophyticus", "strain": "strain=YIM B02568", "accession": "GCA_016888335.1", "taxid": 2806261, "species_taxid": 2806261, "relation_to_type": "type", "validated": true, "ani": 80.7643, "matched_fragments": 528, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janibacter melonis", "strain": "strain=NBRC107855", "accession": "GCA_020567375.1", "taxid": 262209, "species_taxid": 262209, "relation_to_type": "type", "validated": true, "ani": 80.5839, "matched_fragments": 581, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arsenicicoccus piscis", "strain": "strain=DSM 22760", "accession": "GCA_022568835.1", "taxid": 673954, "species_taxid": 673954, "relation_to_type": "type", "validated": true, "ani": 78.5804, "matched_fragments": 345, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arsenicicoccus dermatophilus", "strain": "strain=DSM 25571", "accession": "GCA_022568795.1", "taxid": 1076331, "species_taxid": 1076331, "relation_to_type": "type", "validated": true, "ani": 78.4393, "matched_fragments": 343, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ornithinimicrobium sediminis", "strain": "strain=EGI L100131", "accession": "GCA_021272345.1", "taxid": 2904603, "species_taxid": 2904603, "relation_to_type": "type", "validated": true, "ani": 78.005, "matched_fragments": 311, "total_fragments": 1102, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013409205.1", "gtdb_species": "s__Janibacter cremeus", 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"total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.98", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001570945.1", "gtdb_species": "s__Janibacter anophelis", "ani": 83.2102, "matched_fragments": 698, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.19", "min_intra_species_ani": "96.19", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900176385.1", "gtdb_species": "s__Janibacter indicus", "ani": 83.068, "matched_fragments": 721, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.60", "min_intra_species_ani": "97.16", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_004295485.1", "gtdb_species": "s__Janibacter limosus_A", "ani": 83.0321, "matched_fragments": 754, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "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_000297495.1", "gtdb_species": "s__Janibacter hoylei", "ani": 82.969, "matched_fragments": 677, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001570985.1", "gtdb_species": "s__Janibacter limosus", "ani": 82.9569, "matched_fragments": 683, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "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_001428305.1", "gtdb_species": "s__Janibacter sp001428305", "ani": 82.7498, "matched_fragments": 758, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "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_001570965.1", "gtdb_species": "s__Janibacter corallicola", "ani": 82.5124, "matched_fragments": 703, "total_fragments": 1102, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Janibacter", "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": -0.188, "cell_length": -0.097, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 25.0, "optimum_ph": 7.0, "genome_size": 3280282.128, "gc_content": 71.145, "coding_genes": 3156.0, "rRNA16S_genes": 2.0, "tRNA_genes": 48.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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": [ "Janibacter", "cremeus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }