{ "type": "genome", "identifier": "GCF_009720835.1", "organism": "Pseudoduganella buxea", "title": "Pseudoduganella buxea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Guangdong Institute of Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009720835.1", "bioproject": "PRJNA224116", "biosample": "SAMN13282856", "wgs_master": "WNKZ00000000.1", "refseq_category": "na", "taxid": "1949069", "species_taxid": "1949069", "organism_name": "Pseudoduganella buxea", "infraspecific_name": "strain=KCTC 52429", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/11/30", "asm_name": "ASM972083v1", "asm_submitter": "Guangdong Institute of Microbiology", "gbrs_paired_asm": "GCA_009720835.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/720/835/GCF_009720835.1_ASM972083v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6364785", "genome_size_ungapped": "6364598", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "359", "contig_count": "359", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009720835.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "5766", "protein_coding_gene_count": "5500", "non_coding_gene_count": "116", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-11-30", "dateModified": "2019-11-30", "datePublished": "2019-11-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoduganella buxea" ], "sample_taxid": [ "1949069" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.761 MB", "sample_ph_range": { "min": null, "max": null }, "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)": "6364785", "Number of Sequences": "359", "Longest Sequences (bp)": "212599", "N50 (bp)": "55161", "Gap Ratio (%)": "0.002938", "GCcontent (%)": "65.9", "Number of CDSs": "5239", "Average Protein Length": "343.5", "Coding Ratio (%)": "84.8", "Number of rRNAs": "2", "Number of tRNAs": "86", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoduganella buxea", "strain": "strain=KCTC 52429", "accession": "GCA_009720835.1", "taxid": 1949069, "species_taxid": 1949069, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1965, 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"below_threshold" }, { "organism_name": "Pseudoduganella plicata", "strain": "strain=KCTC 12344", "accession": "GCA_014651435.1", "taxid": 321984, "species_taxid": 321984, "relation_to_type": "type", "validated": true, "ani": 85.519, "matched_fragments": 1468, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella lurida", "strain": "strain=CGMCC 1.10822", "accession": "GCA_007830455.1", "taxid": 1036180, "species_taxid": 1036180, "relation_to_type": "type", "validated": true, "ani": 84.037, "matched_fragments": 1260, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella albidiflava", "strain": "strain=DSM 17472", "accession": "GCA_004322755.1", "taxid": 321983, "species_taxid": 321983, "relation_to_type": "type", "validated": true, "ani": 83.4899, "matched_fragments": 1377, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella albidiflava", "strain": "strain=KCTC 12343", "accession": "GCA_014651415.1", "taxid": 321983, "species_taxid": 321983, "relation_to_type": "type", "validated": true, "ani": 83.4551, "matched_fragments": 1375, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella lutea", "strain": "strain=DSM 17473", "accession": "GCA_004209755.1", "taxid": 321985, "species_taxid": 321985, "relation_to_type": "type", "validated": true, "ani": 83.0905, "matched_fragments": 1342, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella namucuonensis", "strain": "strain=CGMCC 1.11014", "accession": "GCA_900116645.1", "taxid": 1035707, "species_taxid": 1035707, "relation_to_type": "type", "validated": true, "ani": 82.2618, "matched_fragments": 1187, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella aquatica", "strain": "strain=FT127W", "accession": "GCA_009857595.1", "taxid": 2660641, "species_taxid": 2660641, "relation_to_type": "type", "validated": true, "ani": 81.9929, "matched_fragments": 1143, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella guangdongensis", "strain": "strain=DS3", "accession": "GCA_009857475.1", "taxid": 2692179, "species_taxid": 2692179, "relation_to_type": "type", "validated": true, "ani": 81.2097, "matched_fragments": 1010, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia cavernae", "strain": "strain=K1S02-61", "accession": "GCA_003590855.1", "taxid": 2320864, "species_taxid": 2320864, "relation_to_type": "type", "validated": true, "ani": 80.7521, "matched_fragments": 791, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia agri", "strain": "strain=JCM 31661", "accession": "GCA_024753255.1", "taxid": 1886785, "species_taxid": 1886785, "relation_to_type": "type", "validated": true, "ani": 80.604, "matched_fragments": 955, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia terrae", "strain": "strain=JCM 31606", "accession": "GCA_024753145.1", "taxid": 1811224, "species_taxid": 1811224, "relation_to_type": "type", "validated": true, "ani": 80.5507, "matched_fragments": 867, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia forsythiae", "strain": "strain=GN2-R2", "accession": "GCA_012849555.1", "taxid": 2728020, "species_taxid": 2728020, "relation_to_type": "type", "validated": true, "ani": 80.3894, "matched_fragments": 1006, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009720835.1", "gtdb_species": "s__Pseudoduganella buxea", "ani": 100.0, "matched_fragments": 1965, "total_fragments": 1983, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_008011715.1", "gtdb_species": "s__Pseudoduganella haloabium", "ani": 86.221, "matched_fragments": 1502, "total_fragments": 1983, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003028855.1", "gtdb_species": 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