{ "type": "genome", "identifier": "GCF_003028855.1", "organism": "Pseudoduganella armeniaca", "title": "Pseudoduganella armeniaca", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tianjin Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003028855.1", "bioproject": "PRJNA224116", "biosample": "SAMN08793633", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2072590", "species_taxid": "2072590", "organism_name": "Pseudoduganella armeniaca", "infraspecific_name": "strain=ZMN-3", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/04/02", "asm_name": "ASM302885v1", "asm_submitter": "Tianjin Agricultural University", "gbrs_paired_asm": "GCA_003028855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/028/855/GCF_003028855.1_ASM302885v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6337491", "genome_size_ungapped": "6337491", "gc_percent": "66.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003028855.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "5647", "protein_coding_gene_count": "5398", "non_coding_gene_count": "106", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-04-02", "dateModified": "2018-04-02", "datePublished": "2018-04-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoduganella armeniaca" ], "sample_taxid": [ "2072590" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Inner Mongolia, Ongniod qi" ], "sample_host_location_id": [], "data_size": "1.721 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)": "6337491", "Number of Sequences": "1", "Longest Sequences (bp)": "6337491", "N50 (bp)": "6337491", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.3", "Number of CDSs": "5577", "Average Protein Length": "342.6", "Coding Ratio (%)": "90.4", "Number of rRNAs": "21", "Number of tRNAs": "90", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoduganella armeniaca", "strain": "strain=ZMN-3", "accession": "GCA_003028855.1", "taxid": 2072590, "species_taxid": 2072590, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2112, "total_fragments": 2112, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoduganella plicata", "strain": "strain=DSM 17505", "accession": "GCA_004421005.1", "taxid": 321984, "species_taxid": 321984, "relation_to_type": "type", "validated": true, "ani": 86.5293, "matched_fragments": 1582, "total_fragments": 2112, "ani_threshold": 95, "status": "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": 86.4603, "matched_fragments": 1575, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella buxea", "strain": "strain=KCTC 52429", "accession": "GCA_009720835.1", "taxid": 1949069, "species_taxid": 1949069, "relation_to_type": "type", "validated": true, "ani": 86.3152, "matched_fragments": 1503, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella buxea", "strain": "strain=CGMCC 1.15931", "accession": "GCA_014644155.1", "taxid": 1949069, "species_taxid": 1949069, "relation_to_type": "type", "validated": true, "ani": 86.1658, "matched_fragments": 1572, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella flava", "strain": "strain=CGMCC 1.10685", "accession": "GCA_007830495.1", "taxid": 871742, "species_taxid": 871742, "relation_to_type": "type", "validated": true, "ani": 84.4111, "matched_fragments": 1478, "total_fragments": 2112, "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": 84.2705, "matched_fragments": 1303, "total_fragments": 2112, "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": 83.7529, "matched_fragments": 1398, "total_fragments": 2112, "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": 83.7467, "matched_fragments": 1423, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella umbonata", "strain": "strain=CECT 7753", "accession": "GCA_014192225.1", "taxid": 864828, "species_taxid": 864828, "relation_to_type": "type", "validated": true, "ani": 83.67, "matched_fragments": 1355, "total_fragments": 2112, "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": 81.3973, "matched_fragments": 1065, "total_fragments": 2112, "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": 81.0201, "matched_fragments": 864, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia norwichensis", "strain": "strain=LMG 28164", "accession": "GCA_024753245.1", "taxid": 1442366, "species_taxid": 1442366, "relation_to_type": "type", "validated": true, "ani": 80.8507, "matched_fragments": 1018, "total_fragments": 2112, "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": 80.7803, "matched_fragments": 989, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia solisilvae", "strain": "strain=JCM 31607", "accession": "GCA_024753215.1", "taxid": 1811225, "species_taxid": 1811225, "relation_to_type": "type", "validated": true, "ani": 80.7497, "matched_fragments": 919, "total_fragments": 2112, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003028855.1", "gtdb_species": "s__Pseudoduganella armeniaca", "ani": 100.0, "matched_fragments": 2112, "total_fragments": 2112, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella", "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": "GCA_008011715.1", "gtdb_species": "s__Pseudoduganella haloabium", "ani": 92.1634, "matched_fragments": 1787, "total_fragments": 2112, "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_004421005.1", "gtdb_species": "s__Pseudoduganella plicata", "ani": 86.5298, "matched_fragments": 1584, "total_fragments": 2112, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella", "ani_circumscription_radius": 95.0, 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