{ "type": "genome", "identifier": "GCF_000423465.1", "organism": "Propionicicella superfundia DSM 22317", "title": "Propionicicella superfundia DSM 22317", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000423465.1", "bioproject": "PRJNA224116", "biosample": "SAMN02440659", "wgs_master": "AUIA00000000.1", "refseq_category": "reference genome", "taxid": "1122999", "species_taxid": "348582", "organism_name": "Propionicicella superfundia DSM 22317", "infraspecific_name": "strain=DSM 22317", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/11", "asm_name": "ASM42346v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000423465.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/423/465/GCF_000423465.1_ASM42346v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3623963", "genome_size_ungapped": "3617468", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "23", "contig_count": "35", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000423465.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "3340", "protein_coding_gene_count": "3259", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-11", "dateModified": "2013-07-11", "datePublished": "2013-07-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Propionicicella superfundia DSM 22317" ], "sample_taxid": [ "1122999" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "0.978 MB", "sample_ph_range": { "min": 4585.0, "max": 4585.0 }, "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)": "3623963", "Number of Sequences": "23", "Longest Sequences (bp)": "1024756", "N50 (bp)": "799902", "Gap Ratio (%)": "0.179224", "GCcontent (%)": "70.0", "Number of CDSs": "3317", "Average Protein Length": "326.7", "Coding Ratio (%)": "89.7", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Propionicicella superfundia", "strain": "strain=DSM 22317", "accession": "GCA_000423465.1", "taxid": 348582, "species_taxid": 348582, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1194, "total_fragments": 1196, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Propioniciclava coleopterorum", "strain": "strain=HDW11", "accession": "GCA_011393335.1", "taxid": 2714937, "species_taxid": 2714937, "relation_to_type": "type", "validated": true, "ani": 78.6985, "matched_fragments": 333, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propioniciclava sinopodophylli", "strain": "strain=KCTC 33808", "accession": "GCA_004324755.1", "taxid": 1837344, "species_taxid": 1837344, "relation_to_type": "type", "validated": true, "ani": 78.1734, "matched_fragments": 300, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propioniciclava soli", "strain": "strain=YIM S02567", "accession": "GCA_014858005.1", "taxid": 2775081, "species_taxid": 2775081, "relation_to_type": "type", "validated": true, "ani": 78.0475, "matched_fragments": 308, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propioniciclava tarda", "strain": "strain=DSM 22130", "accession": "GCA_900182665.1", "taxid": 433330, "species_taxid": 433330, "relation_to_type": "type", "validated": true, "ani": 77.817, "matched_fragments": 239, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propioniciclava tarda", "strain": "strain=DSM 22130", "accession": "GCA_004324765.1", "taxid": 433330, "species_taxid": 433330, "relation_to_type": "type", "validated": true, "ani": 77.7931, "matched_fragments": 240, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micropruina glycogenica", "strain": "", "accession": "GCA_900289045.1", "taxid": 75385, "species_taxid": 75385, "relation_to_type": "type", "validated": true, "ani": 77.6007, "matched_fragments": 256, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propionicimonas paludicola", "strain": "strain=DSM 15597", "accession": "GCA_002563675.1", "taxid": 185243, "species_taxid": 185243, "relation_to_type": "type", "validated": true, "ani": 77.5276, "matched_fragments": 236, "total_fragments": 1196, "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": 77.3204, "matched_fragments": 237, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microlunatus sagamiharensis", "strain": "strain=DSM 21743", "accession": "GCA_900105785.1", "taxid": 546874, "species_taxid": 546874, "relation_to_type": "type", "validated": true, "ani": 77.2699, "matched_fragments": 278, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brooklawnia cerclae", "strain": "strain=DSM 19609", "accession": "GCA_011758645.1", "taxid": 349934, "species_taxid": 349934, "relation_to_type": "type", "validated": true, "ani": 77.2208, "matched_fragments": 241, "total_fragments": 1196, "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": 77.0651, "matched_fragments": 236, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microlunatus flavus", "strain": "strain=CGMCC 4.6856", "accession": "GCA_900110855.1", "taxid": 1036181, "species_taxid": 1036181, "relation_to_type": "type", "validated": true, "ani": 77.06, "matched_fragments": 310, "total_fragments": 1196, "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": 77.0576, "matched_fragments": 286, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Raineyella antarctica", "strain": "strain=LZ-22", "accession": "GCA_900092135.1", "taxid": 1577474, "species_taxid": 1577474, "relation_to_type": "type", "validated": true, "ani": 77.0201, "matched_fragments": 223, "total_fragments": 1196, "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": 76.9216, "matched_fragments": 200, "total_fragments": 1196, "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": 76.9039, "matched_fragments": 267, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides donggukensis", "strain": "strain=MJB4", "accession": "GCA_014842875.1", "taxid": 2774019, "species_taxid": 2774019, "relation_to_type": "type", "validated": true, "ani": 76.8318, "matched_fragments": 181, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides islandensis", "strain": "strain=KCTC 19275", "accession": "GCA_015352455.1", "taxid": 433663, "species_taxid": 433663, "relation_to_type": "type", "validated": true, "ani": 76.5425, "matched_fragments": 217, "total_fragments": 1196, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mobilicoccus massiliensis", "strain": "strain=SIT2", "accession": "GCA_000826525.2", "taxid": 1522310, 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_011393335.1", "gtdb_species": "s__Brevilactibacter coleopterorum", "ani": 78.7322, "matched_fragments": 333, "total_fragments": 1196, "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": "GCF_000826085.1", "gtdb_species": "s__Nigerium massiliense", "ani": 78.1532, "matched_fragments": 268, "total_fragments": 1196, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Nigerium", "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": "GCA_013693855.1", "gtdb_species": "s__Micropruina sp013693855", "ani": 78.0534, "matched_fragments": 298, "total_fragments": 1196, "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": "GCA_014858005.1", "gtdb_species": "s__Brevilactibacter sp014858005", "ani": 78.0026, "matched_fragments": 309, "total_fragments": 1196, "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_017306015.1", "gtdb_species": "s__Propionicimonas sp017306015", "ani": 77.9144, "matched_fragments": 318, "total_fragments": 1196, "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": "GCA_012838755.1", "gtdb_species": "s__Brevilactibacter sp012838755", "ani": 77.8714, "matched_fragments": 249, "total_fragments": 1196, "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", 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_017876495.1", "gtdb_species": "s__Friedmanniella capsulata", "ani": 77.3512, "matched_fragments": 296, "total_fragments": 1196, "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_004362375.1", "gtdb_species": "s__Enemella evansiae", "ani": 77.3184, "matched_fragments": 235, "total_fragments": 1196, "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": "GCA_012517965.1", "gtdb_species": "s__Propioniciclava sp012517965", "ani": 77.31, "matched_fragments": 275, "total_fragments": 1196, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Propioniciclava", "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_900605005.1", "gtdb_species": "s__Cutibacterium timonense", "ani": 77.1237, "matched_fragments": 210, "total_fragments": 1196, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Cutibacterium", "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", 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