{ "type": "genome", "identifier": "GCF_012911935.1", "organism": "Pseudonocardia acidicola", "title": "Pseudonocardia acidicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kasetsart University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012911935.1", "bioproject": "PRJNA224116", "biosample": "SAMN14542782", "wgs_master": "JAAXLA000000000.1", "refseq_category": "reference genome", "taxid": "2724939", "species_taxid": "2724939", "organism_name": "Pseudonocardia acidicola", "infraspecific_name": "strain=K10HN5", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/27", "asm_name": "ASM1291193v1", "asm_submitter": "Kasetsart University", "gbrs_paired_asm": "GCA_012911935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/911/935/GCF_012911935.1_ASM1291193v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7160315", "genome_size_ungapped": "7160315", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "166", "contig_count": "166", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012911935.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "6906", "protein_coding_gene_count": "6702", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-27", "dateModified": "2020-04-27", "datePublished": "2020-04-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudonocardia acidicola" ], "sample_taxid": [ "2724939" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Thailand: Surat Thani province" ], "sample_host_location_id": [], "data_size": "1.919 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.55, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7160315", "Number of Sequences": "166", "Longest Sequences (bp)": "228753", "N50 (bp)": "75827", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.4", "Number of CDSs": "6802", "Average Protein Length": "306.9", "Coding Ratio (%)": "87.5", "Number of rRNAs": "3", "Number of tRNAs": "68", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudonocardia acidicola", "strain": "strain=K10HN5", "accession": "GCA_012911935.1", "taxid": 2724939, "species_taxid": 2724939, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2297, "total_fragments": 2306, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudonocardia bannensis", "strain": "strain=DSM 45300", "accession": "GCA_012911875.1", "taxid": 630973, "species_taxid": 630973, "relation_to_type": "type", "validated": true, "ani": 85.6301, "matched_fragments": 1354, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia asaccharolytica", "strain": "strain=DSM 44247", "accession": "GCA_000423625.1", "taxid": 54010, "species_taxid": 54010, "relation_to_type": "type", "validated": true, "ani": 81.5943, "matched_fragments": 960, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia asaccharolytica", "strain": "strain=NBRC 16224", "accession": "GCA_007989065.1", "taxid": 54010, "species_taxid": 54010, "relation_to_type": "type", "validated": true, "ani": 81.5148, "matched_fragments": 944, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia hydrocarbonoxydans", "strain": "strain=NBRC 14498", "accession": "GCA_006539565.1", "taxid": 76726, "species_taxid": 76726, "relation_to_type": "type", "validated": true, "ani": 80.9742, "matched_fragments": 1017, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia dioxanivorans", "strain": "strain=CB1190", "accession": "GCA_000196675.2", "taxid": 240495, "species_taxid": 240495, "relation_to_type": "type", "validated": true, "ani": 80.7306, "matched_fragments": 1131, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia sulfidoxydans", "strain": "strain=NBRC 16205", "accession": "GCA_007989085.1", "taxid": 54011, "species_taxid": 54011, "relation_to_type": "type", "validated": true, "ani": 80.616, "matched_fragments": 995, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia kujensis", "strain": "strain=KCTC 29062", "accession": "GCA_021283305.1", "taxid": 1128675, "species_taxid": 1128675, "relation_to_type": "type", "validated": true, "ani": 80.5528, "matched_fragments": 1155, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia terrae", "strain": "strain=RS11V-5", "accession": "GCA_021343995.1", "taxid": 2905831, "species_taxid": 2905831, "relation_to_type": "type", "validated": true, "ani": 80.5216, "matched_fragments": 1105, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia xinjiangensis", "strain": "strain=JCM 11839", "accession": "GCA_012911925.1", "taxid": 75289, "species_taxid": 75289, "relation_to_type": "type", "validated": true, "ani": 80.3342, "matched_fragments": 997, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia hierapolitana", "strain": "strain=DSM 45671", "accession": "GCA_007994075.1", "taxid": 1128676, "species_taxid": 1128676, "relation_to_type": "type", "validated": true, "ani": 79.8481, "matched_fragments": 1061, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia antarctica", "strain": "strain=DSM 44749", "accession": "GCA_013408715.1", "taxid": 237656, "species_taxid": 237656, "relation_to_type": "type", "validated": true, "ani": 79.8425, "matched_fragments": 968, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia ammonioxydans", "strain": "strain=CGMCC 4.1877", "accession": "GCA_900115005.1", "taxid": 260086, "species_taxid": 260086, "relation_to_type": "type", "validated": true, "ani": 79.769, "matched_fragments": 1023, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia parietis", "strain": "strain=DSM 45256", "accession": "GCA_017876315.1", "taxid": 570936, "species_taxid": 570936, "relation_to_type": "type", "validated": true, "ani": 79.6361, "matched_fragments": 1028, "total_fragments": 2306, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.55, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_012911935.1", "gtdb_species": "s__Pseudonocardia sp012911935", "ani": 100.0, "matched_fragments": 2297, "total_fragments": 2306, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Pseudonocardia", "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_018531475.1", "gtdb_species": "s__Pseudonocardia sp018531475", "ani": 85.6848, "matched_fragments": 1426, "total_fragments": 2306, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Pseudonocardia", "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_012911875.1", "gtdb_species": "s__Pseudonocardia bannensis", "ani": 85.6185, "matched_fragments": 1355, "total_fragments": 2306, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Pseudonocardia", "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_000423625.1", "gtdb_species": "s__Pseudonocardia asaccharolytica", "ani": 81.609, "matched_fragments": 958, "total_fragments": 2306, "gtdb_taxonomy": 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