{ "type": "genome", "identifier": "GCF_027922425.1", "organism": "Pseudonocardia halophobica", "title": "Pseudonocardia halophobica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_027922425.1", "bioproject": "PRJNA224116", "biosample": "SAMD00253136", "wgs_master": "BSFQ00000000.1", "refseq_category": "reference genome", "taxid": "29401", "species_taxid": "29401", "organism_name": "Pseudonocardia halophobica", "infraspecific_name": "strain=VKM Ac-1069", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/19", "asm_name": "ASM2792242v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_027922425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/027/922/425/GCF_027922425.1_ASM2792242v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8032035", "genome_size_ungapped": "8031531", "gc_percent": "73.500000", "replicon_count": "0", "scaffold_count": "312", "contig_count": "312", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_027922425.1-RS_2024_08_04", "annotation_date": "2024-08-04", "total_gene_count": "7786", "protein_coding_gene_count": "7557", "non_coding_gene_count": "64", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-01-19", "dateModified": "2023-01-19", "datePublished": "2023-01-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudonocardia halophobica" ], "sample_taxid": [ "29401" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "2.125 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "8032035", "Number of Sequences": "312", "Longest Sequences (bp)": "492965", "N50 (bp)": "157229", "Gap Ratio (%)": "0.006275", "GCcontent (%)": "73.4", "Number of CDSs": "7468", "Average Protein Length": "315.9", "Coding Ratio (%)": "88.1", "Number of rRNAs": "3", "Number of tRNAs": "64", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudonocardia kujensis", "strain": "strain=KCTC 29062", "accession": "GCA_021283305.1", "taxid": 1128675, "species_taxid": 1128675, "relation_to_type": "type", "validated": true, "ani": 90.8805, "matched_fragments": 1814, "total_fragments": 2572, "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": 90.8616, "matched_fragments": 1891, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia pini", "strain": "strain=CAP47R", "accession": "GCA_013870575.1", "taxid": 2758030, "species_taxid": 2758030, "relation_to_type": "type", "validated": true, "ani": 83.8213, "matched_fragments": 920, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia oroxyli", "strain": "strain=CGMCC 4.3143", "accession": "GCA_900102195.1", "taxid": 366584, "species_taxid": 366584, "relation_to_type": "type", "validated": true, "ani": 83.448, "matched_fragments": 1312, "total_fragments": 2572, "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": 80.2923, "matched_fragments": 1209, "total_fragments": 2572, "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": 80.2123, "matched_fragments": 1117, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia sediminis", "strain": "strain=DSM 45779", "accession": "GCA_004217185.1", "taxid": 1397368, "species_taxid": 1397368, "relation_to_type": "type", "validated": true, "ani": 80.1887, "matched_fragments": 1190, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia oceani", "strain": "strain=KRD185", "accession": "GCA_019263585.2", "taxid": 2792013, "species_taxid": 2792013, "relation_to_type": "type", "validated": true, "ani": 80.1548, "matched_fragments": 1221, "total_fragments": 2572, "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": 79.9575, "matched_fragments": 1104, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia kunmingensis", "strain": "strain=DSM 45301", "accession": "GCA_006716445.1", "taxid": 630975, "species_taxid": 630975, "relation_to_type": "type", "validated": true, "ani": 79.5418, "matched_fragments": 1248, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia nigra", "strain": "strain=DSM 104088", "accession": "GCA_019396355.1", "taxid": 1921578, "species_taxid": 1921578, "relation_to_type": "type", "validated": true, "ani": 79.5371, "matched_fragments": 1137, "total_fragments": 2572, "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": 79.3331, "matched_fragments": 1185, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia thermophila", "strain": "strain=DSM 43832", "accession": "GCA_900142365.1", "taxid": 1848, "species_taxid": 1848, "relation_to_type": "type", "validated": true, "ani": 79.2333, "matched_fragments": 1064, "total_fragments": 2572, "ani_threshold": 95, "status": "below_threshold" } ], 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"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": 80.5465, "matched_fragments": 1025, "total_fragments": 2572, "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_000196675.1", "gtdb_species": "s__Pseudonocardia dioxanivorans", "ani": 80.2408, "matched_fragments": 1215, "total_fragments": 2572, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Pseudonocardia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "98.74", 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