{ "type": "genome", "identifier": "GCF_003628125.1", "organism": "Pararobbsia silviterrae", "title": "Pararobbsia silviterrae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Sun Yat-sen University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003628125.1", "bioproject": "PRJNA224116", "biosample": "SAMN10142600", "wgs_master": "RBZU00000000.1", "refseq_category": "reference genome", "taxid": "1792498", "species_taxid": "1792498", "organism_name": "Pararobbsia silviterrae", "infraspecific_name": "strain=DHC34", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/11", "asm_name": "ASM362812v1", "asm_submitter": "Sun Yat-sen University", "gbrs_paired_asm": "GCA_003628125.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/628/125/GCF_003628125.1_ASM362812v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6642683", "genome_size_ungapped": "6641752", "gc_percent": "64.000000", "replicon_count": "0", "scaffold_count": "43", "contig_count": "43", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003628125.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "5720", "protein_coding_gene_count": "5576", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-11", "dateModified": "2018-10-11", "datePublished": "2018-10-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Pararobbsia silviterrae" ], "sample_taxid": [ "1792498" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Guangdong Province" ], "sample_host_location_id": [], "data_size": "1.816 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)": "6642683", "Number of Sequences": "43", "Longest Sequences (bp)": "1202958", "N50 (bp)": "343682", "Gap Ratio (%)": "0.014015", "GCcontent (%)": "64.2", "Number of CDSs": "5688", "Average Protein Length": "333.9", "Coding Ratio (%)": "85.8", "Number of rRNAs": "3", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pararobbsia alpina", "strain": "strain=LMG 28138", "accession": "GCA_902859895.1", "taxid": 621374, "species_taxid": 621374, "relation_to_type": "type", "validated": true, "ani": 80.9806, "matched_fragments": 858, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=ATCC BAA-247", "accession": "GCA_000286555.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 79.6806, "matched_fragments": 711, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia dolosa", "strain": "strain=LMG 18943", "accession": "GCA_902499135.1", "taxid": 152500, "species_taxid": 152500, "relation_to_type": "type", "validated": true, "ani": 79.6056, "matched_fragments": 742, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=NCTC13007", "accession": "GCA_900446205.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 79.5574, "matched_fragments": 811, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=ATCC BAA-247", "accession": "GCA_000959525.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 79.5572, "matched_fragments": 812, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia mayonis", "strain": "strain=BDU6", "accession": "GCA_001523745.2", "taxid": 1385591, "species_taxid": 1385591, "relation_to_type": "type", "validated": true, "ani": 79.3387, "matched_fragments": 760, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia ubonensis subsp. mesacidophila", "strain": "strain=ATCC 31433", "accession": "GCA_002362295.1", "taxid": 265293, "species_taxid": 101571, "relation_to_type": "type", "validated": true, "ani": 79.3211, "matched_fragments": 777, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia ubonensis", "strain": "", "accession": "GCA_902499185.1", "taxid": 101571, "species_taxid": 101571, "relation_to_type": "type", "validated": true, "ani": 79.3189, "matched_fragments": 786, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia ubonensis subsp. mesacidophila", "strain": "strain=ATCC 31433", "accession": "GCA_002097715.1", "taxid": 265293, "species_taxid": 101571, "relation_to_type": "type", "validated": true, "ani": 79.3186, "matched_fragments": 798, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia thailandensis", "strain": "strain=E264", "accession": "GCA_003568605.1", "taxid": 57975, "species_taxid": 57975, "relation_to_type": "type", "validated": true, "ani": 79.3136, "matched_fragments": 775, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia ubonensis", "strain": "strain=LMG 20358", "accession": "GCA_902833085.1", "taxid": 101571, "species_taxid": 101571, "relation_to_type": "type", "validated": true, "ani": 79.2943, "matched_fragments": 802, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia oklahomensis", "strain": "strain=LMG 23618", "accession": "GCA_900608545.1", "taxid": 342113, "species_taxid": 342113, "relation_to_type": "type", "validated": true, "ani": 79.2785, "matched_fragments": 798, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia mallei", "strain": "strain=ATCC 23344", "accession": "GCA_000011705.1", "taxid": 13373, "species_taxid": 13373, "relation_to_type": "type", "validated": true, "ani": 79.2545, "matched_fragments": 775, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia podalyriae", "strain": "strain=WC7.3b", "accession": "GCA_014397785.1", "taxid": 1938811, "species_taxid": 1938811, "relation_to_type": "type", "validated": true, "ani": 79.2244, "matched_fragments": 748, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia thailandensis", "strain": "strain=E264; ATCC 700388", "accession": "GCA_000012365.1", "taxid": 57975, "species_taxid": 57975, "relation_to_type": "type", "validated": true, "ani": 79.195, "matched_fragments": 804, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia pseudomallei", "strain": "strain=ATCC 23343", "accession": "GCA_001182285.1", "taxid": 28450, "species_taxid": 28450, "relation_to_type": "type", "validated": true, "ani": 79.1676, "matched_fragments": 798, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia sacchari", "strain": "strain=LMG 19450", "accession": "GCA_902833715.1", "taxid": 159450, "species_taxid": 159450, "relation_to_type": "type", "validated": true, "ani": 79.1426, "matched_fragments": 681, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia anthina", "strain": "strain=DSM 16086", "accession": "GCA_016836725.1", "taxid": 179879, "species_taxid": 179879, "relation_to_type": "suspected-type", "validated": true, "ani": 79.1348, "matched_fragments": 790, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia thailandensis", "strain": "strain=ATCC 700388", "accession": "GCA_000152285.1", "taxid": 57975, "species_taxid": 57975, "relation_to_type": "type", "validated": true, "ani": 79.1086, "matched_fragments": 762, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia flava", "strain": "strain=LD6", "accession": "GCA_004359985.1", "taxid": 2547393, "species_taxid": 2547393, "relation_to_type": "type", "validated": true, "ani": 79.1002, "matched_fragments": 761, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia nodosa", "strain": "strain=DSM 21604", "accession": "GCA_000519185.1", "taxid": 392320, "species_taxid": 392320, "relation_to_type": "type", "validated": true, "ani": 78.8773, "matched_fragments": 766, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia kururiensis", "strain": "strain=LMG 19447", "accession": "GCA_902833705.1", "taxid": 984307, "species_taxid": 984307, "relation_to_type": "type", "validated": true, "ani": 78.7559, "matched_fragments": 658, "total_fragments": 2195, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia kururiensis", "strain": "strain=KP23", "accession": "GCA_003986935.1", "taxid": 984307, "species_taxid": 984307, "relation_to_type": "type", "validated": true, "ani": 78.7352, "matched_fragments": 660, 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"gtdb_species": "s__Burkholderia multivorans", "ani": 79.5951, "matched_fragments": 806, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 326, "status": "-" }, { "accession": "GCF_013403875.1", "gtdb_species": "s__Burkholderia guangdongensis", "ani": 79.5916, "matched_fragments": 753, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "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_017315705.1", "gtdb_species": "s__Trinickia sp017315705", "ani": 79.5781, "matched_fragments": 676, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia", "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_003628145.1", "gtdb_species": "s__Trinickia fusca", "ani": 79.4734, "matched_fragments": 590, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia", "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_900177725.1", "gtdb_species": "s__Paraburkholderia susongensis", "ani": 79.4653, "matched_fragments": 782, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", "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_001524625.2", "gtdb_species": "s__Burkholderia sp001524625", "ani": 79.3764, "matched_fragments": 793, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.38", "min_intra_species_ani": "99.33", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_902499045.1", "gtdb_species": "s__Burkholderia latens", "ani": 79.3633, 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805, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000785435.2", "gtdb_species": "s__Paraburkholderia sacchari", "ani": 79.156, "matched_fragments": 679, "total_fragments": 2195, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.05", "min_intra_species_ani": "96.11", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002870125.1", "gtdb_species": "s__Paraburkholderia sp002870125", "ani": 79.1464, "matched_fragments": 647, 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