{ "type": "genome", "identifier": "GCF_002250565.1", "organism": "Parenemella sanctibonifatiensis", "title": "Parenemella sanctibonifatiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Public Health Agency of Canada", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002250565.1", "bioproject": "PRJNA224116", "biosample": "SAMN07253281", "wgs_master": "NMVJ00000000.1", "refseq_category": "reference genome", "taxid": "2016505", "species_taxid": "2016505", "organism_name": "Parenemella sanctibonifatiensis", "infraspecific_name": "strain=NML 150081", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/08/14", "asm_name": "ASM225056v1", "asm_submitter": "Public Health Agency of Canada", "gbrs_paired_asm": "GCA_002250565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/250/565/GCF_002250565.1_ASM225056v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3052532", "genome_size_ungapped": "3052532", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "13", "contig_count": "13", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002250565.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2820", "protein_coding_gene_count": "2718", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-08-14", "dateModified": "2017-08-14", "datePublished": "2017-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Parenemella sanctibonifatiensis" ], "sample_taxid": [ "2016505" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Quebec" ], "sample_host_location_id": [], "data_size": "0.830 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)": "3052532", "Number of Sequences": "13", "Longest Sequences (bp)": "986055", "N50 (bp)": "786538", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.0", "Number of CDSs": "2781", "Average Protein Length": "334.2", "Coding Ratio (%)": "91.3", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Parenemella sanctibonifatiensis", "strain": "strain=NML 150081", "accession": "GCA_002250565.1", "taxid": 2016505, "species_taxid": 2016505, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1009, "total_fragments": 1011, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Desertihabitans brevis", "strain": "strain=16Sb5-5", "accession": "GCA_003327535.1", "taxid": 2268447, "species_taxid": 2268447, "relation_to_type": "type", "validated": true, "ani": 78.0616, "matched_fragments": 305, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enemella evansiae", "strain": "strain=NML 020265", "accession": "GCA_002250705.1", "taxid": 2016499, "species_taxid": 2016499, "relation_to_type": "type", "validated": true, "ani": 78.0464, "matched_fragments": 309, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enemella dayhoffiae", "strain": "strain=NML 130396", "accession": "GCA_002250625.1", "taxid": 2016507, "species_taxid": 2016507, "relation_to_type": "type", "validated": true, "ani": 78.0399, "matched_fragments": 271, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desertihabitans aurantiacus", "strain": "strain=CPCC 204711", "accession": "GCA_003344635.1", "taxid": 2282477, "species_taxid": 2282477, "relation_to_type": "type", "validated": true, "ani": 77.9208, "matched_fragments": 274, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tessaracoccus flavescens", "strain": "strain=SST-39T", "accession": "GCA_001998865.1", "taxid": 399497, "species_taxid": 399497, "relation_to_type": "type", "validated": true, "ani": 77.8372, "matched_fragments": 205, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Auraticoccus cholistanensis", "strain": "strain=F435", "accession": "GCA_009742705.1", "taxid": 2656650, "species_taxid": 2656650, "relation_to_type": "type", "validated": true, "ani": 77.8076, "matched_fragments": 294, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Auraticoccus monumenti", "strain": "strain=MON 2.2", "accession": "GCA_900101785.1", "taxid": 675864, "species_taxid": 675864, "relation_to_type": "type", "validated": true, "ani": 77.7718, "matched_fragments": 281, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tessaracoccus defluvii", "strain": "strain=JCM 17540", "accession": "GCA_014489575.1", "taxid": 1285901, "species_taxid": 1285901, "relation_to_type": "type", "validated": true, "ani": 77.6009, "matched_fragments": 206, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propioniciclava coleopterorum", "strain": "strain=HDW11", "accession": "GCA_011393335.1", "taxid": 2714937, "species_taxid": 2714937, "relation_to_type": "type", "validated": true, "ani": 77.4973, "matched_fragments": 247, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Raineyella fluvialis", "strain": "strain=CBA3103", "accession": "GCA_009646095.1", "taxid": 2662261, "species_taxid": 2662261, "relation_to_type": "type", "validated": true, "ani": 77.2983, "matched_fragments": 200, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microlunatus phosphovorus", "strain": "strain=NM-1", "accession": "GCA_000270245.1", "taxid": 29405, "species_taxid": 29405, "relation_to_type": "type", "validated": true, "ani": 77.273, "matched_fragments": 227, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microlunatus elymi", "strain": "strain=KUDC0627", "accession": "GCA_007362775.1", "taxid": 2596828, "species_taxid": 2596828, "relation_to_type": "type", "validated": true, "ani": 77.205, "matched_fragments": 218, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides zhouii", "strain": "strain=HLT2-9", "accession": "GCA_004137345.1", "taxid": 1168729, "species_taxid": 1168729, "relation_to_type": "type", "validated": true, "ani": 77.0473, "matched_fragments": 179, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lacusdianchii", "strain": "strain=JXJ CY 38", "accession": "GCA_020102855.1", "taxid": 2783664, "species_taxid": 2783664, "relation_to_type": "type", "validated": true, "ani": 76.8998, "matched_fragments": 203, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium sediminis", "strain": "strain=YLB-01", "accession": "GCA_004564075.1", "taxid": 904291, "species_taxid": 904291, "relation_to_type": "type", "validated": true, "ani": 76.2575, "matched_fragments": 118, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nonomuraea roseoviolacea subsp. carminata", "strain": "strain=DSM 44170", "accession": "GCA_024172185.1", "taxid": 160689, "species_taxid": 103837, "relation_to_type": "type", "validated": true, "ani": 76.071, "matched_fragments": 235, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium sediminis", "strain": "strain=YLB-01", "accession": "GCA_002741995.1", "taxid": 904291, "species_taxid": 904291, "relation_to_type": "type", "validated": true, "ani": 76.0341, "matched_fragments": 112, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium sediminis", "strain": "strain=YLB-01", "accession": "GCA_001689915.1", "taxid": 904291, "species_taxid": 904291, "relation_to_type": "type", "validated": true, "ani": 76.0341, "matched_fragments": 112, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces albulus", "strain": "strain=JCM 4718", "accession": "GCA_014650635.1", "taxid": 68570, "species_taxid": 68570, "relation_to_type": "suspected-type", "validated": true, "ani": 75.9202, "matched_fragments": 211, "total_fragments": 1011, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_002250475.1", "gtdb_species": "s__NML-160184 sp002250475", "ani": 97.5828, "matched_fragments": 888, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__NML-160184", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.56", "min_intra_species_ani": "97.56", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_002250625.1", "gtdb_species": "s__Enemella sp002250625", "ani": 78.0287, "matched_fragments": 272, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Enemella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004362375.1", "gtdb_species": "s__Enemella evansiae", "ani": 77.9597, "matched_fragments": 316, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Enemella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "97.98", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_003344635.1", "gtdb_species": "s__Desertihabitans aurantiacus", "ani": 77.8919, "matched_fragments": 277, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Desertihabitans", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.17", "min_intra_species_ani": "95.17", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_015352975.1", "gtdb_species": "s__Aestuariimicrobium ganziense", "ani": 77.8634, "matched_fragments": 255, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Aestuariimicrobium", "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_001998865.1", "gtdb_species": "s__Arachnia flavescens", "ani": 77.8375, "matched_fragments": 205, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Arachnia", "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_009742705.1", "gtdb_species": "s__Auraticoccus cholistanensis", "ani": 77.8193, "matched_fragments": 293, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Auraticoccus", "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_900101785.1", "gtdb_species": "s__Auraticoccus monumenti", "ani": 77.7954, "matched_fragments": 279, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Auraticoccus", "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_017876495.1", "gtdb_species": "s__Friedmanniella capsulata", "ani": 77.6976, "matched_fragments": 278, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Friedmanniella", "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_000423085.1", "gtdb_species": "s__Granulicoccus phenolivorans", "ani": 77.4936, "matched_fragments": 234, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Granulicoccus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016711325.1", "gtdb_species": "s__Brevilactibacter sp016711325", "ani": 77.4663, "matched_fragments": 168, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Brevilactibacter", "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_002841335.1", "gtdb_species": "s__Propionicimonas sp002841335", "ani": 77.422, "matched_fragments": 156, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Propionicimonas", "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_000270245.1", "gtdb_species": "s__Microlunatus phosphovorus", "ani": 77.2858, "matched_fragments": 226, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Microlunatus", "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_009646095.1", "gtdb_species": "s__Raineyella sp009646095", "ani": 77.2684, "matched_fragments": 203, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Raineyella", "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_007362775.1", "gtdb_species": "s__Microlunatus_A sp007362775", "ani": 77.1815, "matched_fragments": 220, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Microlunatus_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": "-" }, { "accession": "GCA_018055925.1", "gtdb_species": "s__Micropruina sp018055925", "ani": 77.0972, "matched_fragments": 211, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Micropruina", "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_000024345.1", "gtdb_species": "s__Kribbella flavida", "ani": 76.9619, "matched_fragments": 235, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Kribbellaceae;g__Kribbella", "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_004564075.1", "gtdb_species": "s__Microbacterium sediminis", "ani": 76.2394, "matched_fragments": 118, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001700505.1", "gtdb_species": "s__Streptomyces mutomycini", "ani": 76.1553, "matched_fragments": 138, "total_fragments": 1011, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.53", "min_intra_species_ani": "99.53", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Parenemella", "sanctibonifatiensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }