{ "type": "genome", "identifier": "GCF_013870575.1", "organism": "Pseudonocardia pini", "title": "Pseudonocardia pini", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Mahasarakham University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013870575.1", "bioproject": "PRJNA224116", "biosample": "SAMN15407412", "wgs_master": "JACBXB000000000.1", "refseq_category": "reference genome", "taxid": "2758030", "species_taxid": "2758030", "organism_name": "Pseudonocardia pini", "infraspecific_name": "strain=CAP47R", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/29", "asm_name": "ASM1387057v1", "asm_submitter": "Mahasarakham University", "gbrs_paired_asm": "GCA_013870575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/870/575/GCF_013870575.1_ASM1387057v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6050864", "genome_size_ungapped": "6050864", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "1246", "contig_count": "1246", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013870575.1-RS_2024_09_29", "annotation_date": "2024-09-29", "total_gene_count": "6810", "protein_coding_gene_count": "6318", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-29", "dateModified": "2020-07-29", "datePublished": "2020-07-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudonocardia pini" ], "sample_taxid": [ "2758030" ], "sample_host_organism": [ "Callitris preissii" ], "sample_host_organism_id": [], "sample_host_disease": [ "None" ], "sample_host_disease_id": [], "sample_host_location": [ "Australia: Adelaide, Flinders University", "Incubator" ], "sample_host_location_id": [], "data_size": "1.627 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 20.0, "max": 38.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6050864", "Number of Sequences": "1246", "Longest Sequences (bp)": "68070", "N50 (bp)": "7017", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.5", "Number of CDSs": "5093", "Average Protein Length": "282.9", "Coding Ratio (%)": "71.4", "Number of rRNAs": "3", "Number of tRNAs": "58", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudonocardia pini", "strain": "strain=CAP47R", "accession": "GCA_013870575.1", "taxid": 2758030, "species_taxid": 2758030, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1358, "total_fragments": 1389, "ani_threshold": 95, "status": "conclusive" }, { "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": 84.8462, "matched_fragments": 880, "total_fragments": 1389, "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": 83.7597, "matched_fragments": 894, "total_fragments": 1389, "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": 83.5694, "matched_fragments": 904, "total_fragments": 1389, "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": 79.7385, "matched_fragments": 684, "total_fragments": 1389, "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": 79.5688, "matched_fragments": 729, "total_fragments": 1389, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia endophytica", "strain": "strain=DSM 44969", "accession": "GCA_004339565.1", "taxid": 401976, "species_taxid": 401976, "relation_to_type": "type", "validated": true, "ani": 79.3649, "matched_fragments": 708, "total_fragments": 1389, "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": 79.285, "matched_fragments": 690, "total_fragments": 1389, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentzea nigeriaca", "strain": "strain=DSM 45680", "accession": "GCA_016907955.1", "taxid": 1128665, "species_taxid": 1128665, "relation_to_type": "type", "validated": true, "ani": 77.6815, "matched_fragments": 421, "total_fragments": 1389, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900102195.1", "gtdb_species": "s__Pseudonocardia oroxyli", "ani": 84.885, "matched_fragments": 877, "total_fragments": 1389, "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_000717175.1", "gtdb_species": "s__Pseudonocardia autotrophica_A", "ani": 83.8427, "matched_fragments": 937, "total_fragments": 1389, "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": "GCA_019263595.1", "gtdb_species": "s__Pseudonocardia sp019263595", "ani": 80.1066, "matched_fragments": 659, "total_fragments": 1389, "gtdb_taxonomy": 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