{ "type": "genome", "identifier": "GCA_025928855.1", "organism": "Nocardioides sp.", "title": "Nocardioides sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "CAU", "publication": [ {} ], "properties": { "assembly_accession": "GCA_025928855.1", "bioproject": "PRJNA744024", "biosample": "SAMN20132901", "wgs_master": "JAICIQ000000000.1", "refseq_category": "na", "taxid": "35761", "species_taxid": "35761", "organism_name": "Nocardioides sp.", "infraspecific_name": "", "isolate": "GZL_FP_2_bin.113", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/31", "asm_name": "ASM2592885v1", "submitter": "CAU", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/025/928/855/GCA_025928855.1_ASM2592885v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-31", "dateModified": "2022-10-31", "datePublished": "2022-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardioides sp." ], "sample_taxid": [ "35761" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Gongzhuling" ], "sample_host_location_id": [], "data_size": "0.987 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 64.65, "contamination": 5.61, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3659166", "Number of Sequences": "336", "Longest Sequences (bp)": "57870", "N50 (bp)": "15200", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.1", "Number of CDSs": "3335", "Average Protein Length": "306.8", "Coding Ratio (%)": "83.9", "Number of rRNAs": "2", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardioides cynanchi", "strain": "strain=SB3-45", "accession": "GCA_008761635.1", "taxid": 2558918, "species_taxid": 2558918, "relation_to_type": "type", "validated": true, "ani": 82.3066, "matched_fragments": 727, "total_fragments": 1049, "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": 80.0662, "matched_fragments": 592, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides ginsengisegetis", "strain": "strain=DSM 21349", "accession": "GCA_014138045.1", "taxid": 661491, "species_taxid": 661491, "relation_to_type": "type", "validated": true, "ani": 79.9387, "matched_fragments": 565, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides szechwanensis", "strain": "strain=NBRC 108562", "accession": "GCA_007992395.1", "taxid": 1005944, "species_taxid": 1005944, "relation_to_type": "type", "validated": true, "ani": 79.8623, "matched_fragments": 511, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides szechwanensis", "strain": "strain=CGMCC 1.11147", "accession": "GCA_900103935.1", "taxid": 1005944, "species_taxid": 1005944, "relation_to_type": "type", "validated": true, "ani": 79.7418, "matched_fragments": 521, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides agariphilus", "strain": "strain=KCTC 19276", "accession": "GCA_015352445.1", "taxid": 433664, "species_taxid": 433664, "relation_to_type": "type", "validated": true, "ani": 79.7295, "matched_fragments": 530, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides luti", "strain": "strain=KIGAM211", "accession": "GCA_014212315.1", "taxid": 2761101, "species_taxid": 2761101, "relation_to_type": "type", "validated": true, "ani": 79.5626, "matched_fragments": 572, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides guangzhouensis", "strain": "strain=130", "accession": "GCA_004519545.1", "taxid": 2497878, "species_taxid": 2497878, "relation_to_type": "type", "validated": true, "ani": 79.5283, "matched_fragments": 537, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lijunqiniae", "strain": "strain=S-531", "accession": "GCA_015024225.1", "taxid": 2760832, "species_taxid": 2760832, "relation_to_type": "type", "validated": true, "ani": 79.5, "matched_fragments": 521, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides euryhalodurans", "strain": "strain=MMS17-SY117", "accession": "GCA_004564375.1", "taxid": 2518370, "species_taxid": 2518370, "relation_to_type": "type", "validated": true, "ani": 79.4931, "matched_fragments": 529, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides okcheonensis", "strain": "strain=MMS20-HV4-12", "accession": "GCA_020991065.1", "taxid": 2894081, "species_taxid": 2894081, "relation_to_type": "type", "validated": true, "ani": 79.3576, "matched_fragments": 539, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides anomalus", "strain": "strain=HKS04", "accession": "GCA_011046535.1", "taxid": 2712223, "species_taxid": 2712223, "relation_to_type": "type", "validated": true, "ani": 79.3438, "matched_fragments": 568, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides gansuensis", "strain": "strain=WSJ-1", "accession": "GCA_003076135.1", "taxid": 2138300, "species_taxid": 2138300, "relation_to_type": "type", "validated": true, "ani": 79.328, "matched_fragments": 439, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lianchengensis", "strain": "strain=CGMCC 4.6858", "accession": "GCA_900101465.1", "taxid": 1045774, "species_taxid": 1045774, "relation_to_type": "type", "validated": true, "ani": 79.2784, "matched_fragments": 539, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides coralli", "strain": "strain=SCSIO 67246", "accession": "GCA_019880385.1", "taxid": 2872154, "species_taxid": 2872154, "relation_to_type": "type", "validated": true, "ani": 79.248, "matched_fragments": 469, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides marinisabuli", "strain": "strain=DSM 18965", "accession": "GCA_013466785.1", "taxid": 419476, "species_taxid": 419476, "relation_to_type": "type", "validated": true, "ani": 79.2303, "matched_fragments": 516, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lianchengensis", "strain": "strain=CGMCC 4.6858", "accession": "GCA_013409225.1", "taxid": 1045774, "species_taxid": 1045774, "relation_to_type": "type", "validated": true, "ani": 79.2185, "matched_fragments": 545, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides exalbidus", "strain": "strain=DSM 22017", "accession": "GCA_900105585.1", "taxid": 402596, "species_taxid": 402596, "relation_to_type": "type", "validated": true, "ani": 79.1799, "matched_fragments": 503, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides rubriscoriae", "strain": "strain=DSM 23986", "accession": "GCA_008087085.1", "taxid": 642762, "species_taxid": 642762, "relation_to_type": "type", "validated": true, "ani": 79.1358, "matched_fragments": 511, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides eburneiflavus", "strain": "strain=MMS17-SY213", "accession": "GCA_004785795.1", "taxid": 2518372, "species_taxid": 2518372, "relation_to_type": "type", "validated": true, "ani": 79.1286, "matched_fragments": 507, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides humi", "strain": "strain=DCY24", "accession": "GCA_006494775.1", "taxid": 449461, "species_taxid": 449461, "relation_to_type": "type", "validated": true, "ani": 78.8379, "matched_fragments": 522, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marmoricola scoriae", "strain": "strain=DSM 22127", "accession": "GCA_900104965.1", "taxid": 642780, "species_taxid": 642780, "relation_to_type": "type", "validated": true, "ani": 78.8307, "matched_fragments": 467, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus daqingensis", "strain": "strain=DSM 104001", "accession": "GCA_013408985.1", "taxid": 2026353, "species_taxid": 2026353, "relation_to_type": "type", "validated": true, "ani": 76.8455, "matched_fragments": 329, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus obscurus", "strain": "strain=DSM 43160", "accession": "GCA_000025345.1", "taxid": 1861, "species_taxid": 1861, "relation_to_type": "type", "validated": true, "ani": 76.489, "matched_fragments": 288, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Modestobacter altitudinis", "strain": "strain=1G4", "accession": "GCA_005930475.1", "taxid": 2213158, "species_taxid": 2213158, "relation_to_type": "type", "validated": true, "ani": 76.4238, "matched_fragments": 282, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus poikilotrophus", "strain": "strain=DSM 44209", "accession": "GCA_900111455.1", "taxid": 1333667, "species_taxid": 1333667, "relation_to_type": "type", "validated": true, "ani": 76.3649, "matched_fragments": 289, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Goekera deserti", "strain": "strain=CPCC 205119", "accession": "GCA_010685995.1", "taxid": 2497753, "species_taxid": 2497753, "relation_to_type": "type", "validated": true, "ani": 76.3167, "matched_fragments": 273, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora sagamiensis", "strain": "strain=DSM 43912", "accession": "GCA_007829995.1", "taxid": 47875, "species_taxid": 47875, "relation_to_type": "type", "validated": true, "ani": 76.3146, "matched_fragments": 259, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora sagamiensis", "strain": "strain=JCM 3310", "accession": "GCA_014680085.1", "taxid": 47875, "species_taxid": 47875, "relation_to_type": "type", "validated": true, "ani": 76.3015, "matched_fragments": 261, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora rifamycinica", "strain": "strain=DSM 44983", "accession": "GCA_900090265.1", "taxid": 291594, "species_taxid": 291594, "relation_to_type": "type", "validated": true, "ani": 76.1281, "matched_fragments": 293, "total_fragments": 1049, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 64.65, "contamination": 5.61, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_017354415.1", "gtdb_species": "s__Nocardioides sp017354415", "ani": 82.4906, "matched_fragments": 637, 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"gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_900103935.1", "gtdb_species": "s__Nocardioides szechwanensis", "ani": 79.7393, "matched_fragments": 522, "total_fragments": 1049, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902805925.1", "gtdb_species": "s__Nocardioides sp902805925", "ani": 79.6091, "matched_fragments": 430, "total_fragments": 1049, "gtdb_taxonomy": 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