{ "type": "genome", "identifier": "GCA_945878445.1", "organism": "Bordetella parapertussis", "title": "Bordetella parapertussis", "description": "derived from metagenome; genome length too small", "data type": "Genome sequencing and assembly", "organization": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "publication": [ {} ], "properties": { "assembly_accession": "GCA_945878445.1", "bioproject": "PRJEB35640", "biosample": "SAMEA110380217", "wgs_master": "CAMDWD000000000.1", "refseq_category": "na", "taxid": "519", "species_taxid": "519", "organism_name": "Bordetella parapertussis", "infraspecific_name": "", "isolate": "MsH-01oct19-108", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/10", "asm_name": "MsH-01oct19-108", "submitter": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/945/878/445/GCA_945878445.1_MsH-01oct19-108", "excluded_from_refseq": "derived from metagenome; genome length too small", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-10", "dateModified": "2022-09-10", "datePublished": "2022-09-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Bordetella parapertussis" ], "sample_taxid": [ "519" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Czech Republic" ], "sample_host_location_id": [], "data_size": "0.913 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3267822", "Number of Sequences": "418", "Longest Sequences (bp)": "39362", "N50 (bp)": "9019", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.4", "Number of CDSs": "2874", "Average Protein Length": "305.5", "Coding Ratio (%)": "80.6", "Number of rRNAs": "0", "Number of tRNAs": "31", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thauera aminoaromatica", "strain": "strain=S2", "accession": "GCA_000310185.1", "taxid": 164330, "species_taxid": 164330, "relation_to_type": "type", "validated": true, "ani": 77.4908, "matched_fragments": 161, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera phenylacetica", "strain": "strain=B4P", "accession": "GCA_000310225.1", "taxid": 164400, "species_taxid": 164400, "relation_to_type": "type", "validated": true, "ani": 77.4408, "matched_fragments": 176, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera chlorobenzoica", "strain": "strain=3CB1", "accession": "GCA_001922305.1", "taxid": 96773, "species_taxid": 96773, "relation_to_type": "type", "validated": true, "ani": 77.4345, "matched_fragments": 141, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera chlorobenzoica", "strain": "strain=3CB-1", "accession": "GCA_900108255.1", "taxid": 96773, "species_taxid": 96773, "relation_to_type": "type", "validated": true, "ani": 77.3683, "matched_fragments": 142, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfuritortus calidifontis", "strain": "strain=DSM 103923", "accession": "GCA_004346085.1", "taxid": 1914471, "species_taxid": 1914471, "relation_to_type": "type", "validated": true, "ani": 77.3242, "matched_fragments": 117, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=DSM 26916", "accession": "GCA_003663955.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 77.2211, "matched_fragments": 149, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=BSN1", "accession": "GCA_003865015.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 77.2204, "matched_fragments": 149, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter algicola", "strain": "strain=CrO1", "accession": "GCA_016641735.1", "taxid": 2795217, "species_taxid": 2795217, "relation_to_type": "type", "validated": true, "ani": 77.1447, "matched_fragments": 175, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera humireducens", "strain": "strain=SgZ-1", "accession": "GCA_001051995.2", "taxid": 1134435, "species_taxid": 1134435, "relation_to_type": "type", "validated": true, "ani": 77.1295, "matched_fragments": 146, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera butanivorans", "strain": "strain=NBRC 103042", "accession": "GCA_001591165.1", "taxid": 86174, "species_taxid": 86174, "relation_to_type": "type", "validated": true, "ani": 77.1123, "matched_fragments": 161, "total_fragments": 911, "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": 76.9788, "matched_fragments": 148, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum pedocola", "strain": "strain=DKR-6", "accession": "GCA_016632335.1", "taxid": 2801341, "species_taxid": 2801341, "relation_to_type": "type", "validated": true, "ani": 76.8004, "matched_fragments": 110, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum toluvorans", "strain": "strain=Td21", "accession": "GCA_012910905.1", "taxid": 92002, "species_taxid": 92002, "relation_to_type": "type", "validated": true, "ani": 76.7926, "matched_fragments": 176, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia glaciei", "strain": "strain=B448-2", "accession": "GCA_003011895.2", "taxid": 1524097, "species_taxid": 1524097, "relation_to_type": "type", "validated": true, "ani": 76.7766, "matched_fragments": 170, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinimonas koreensis", "strain": "strain=DSM 17726", "accession": "GCA_000428465.1", "taxid": 356302, "species_taxid": 356302, "relation_to_type": "type", "validated": true, "ani": 76.7712, "matched_fragments": 184, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum anaerobium", "strain": "strain=LuFRes1", "accession": "GCA_012910705.2", "taxid": 182180, "species_taxid": 182180, "relation_to_type": "type", "validated": true, "ani": 76.7693, "matched_fragments": 149, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methyloversatilis universalis", "strain": "strain=FAM5", "accession": "GCA_000214035.3", "taxid": 378211, "species_taxid": 378211, "relation_to_type": "type", "validated": true, "ani": 76.764, "matched_fragments": 158, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=DSM 12138", "accession": "GCA_000621305.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 76.6787, "matched_fragments": 141, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=47Lol = DSM 12138", "accession": "GCA_000310205.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 76.6761, "matched_fragments": 136, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia vietnamiensis", "strain": "strain=FDAARGOS_1488", "accession": "GCA_020099355.1", "taxid": 60552, "species_taxid": 60552, "relation_to_type": "type", "validated": true, "ani": 76.6004, "matched_fragments": 157, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia vietnamiensis", "strain": "strain=LMG 10929", "accession": "GCA_000959445.1", "taxid": 60552, "species_taxid": 60552, "relation_to_type": "type", "validated": true, "ani": 76.5983, "matched_fragments": 162, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia vietnamiensis", "strain": "strain=LMG 10929", "accession": "GCA_902830295.1", "taxid": 60552, "species_taxid": 60552, "relation_to_type": "type", "validated": true, "ani": 76.5981, "matched_fragments": 162, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia perseverans", "strain": "strain=INN12", "accession": "GCA_022870505.1", "taxid": 2615214, "species_taxid": 2615214, "relation_to_type": "type", "validated": true, "ani": 76.5658, "matched_fragments": 198, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Derxia lacustris", "strain": "strain=HL-12", "accession": "GCA_002105195.1", "taxid": 764842, "species_taxid": 764842, "relation_to_type": "type", "validated": true, "ani": 76.5084, "matched_fragments": 156, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Achromobacter xylosoxidans", "strain": "strain=PartM-Axylosoxidans-RM8376", "accession": "GCA_022870085.1", "taxid": 85698, "species_taxid": 85698, "relation_to_type": "type", "validated": true, "ani": 76.4799, "matched_fragments": 170, "total_fragments": 911, "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": 76.3991, "matched_fragments": 157, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia aurea", "strain": "strain=JCM 13879", "accession": "GCA_024753205.1", "taxid": 373040, "species_taxid": 373040, "relation_to_type": "type", "validated": true, "ani": 76.3072, "matched_fragments": 107, "total_fragments": 911, "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": 76.194, "matched_fragments": 159, "total_fragments": 911, "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": 76.1276, "matched_fragments": 119, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dokdonella fugitiva", "strain": "strain=A3", "accession": "GCA_004342425.1", "taxid": 328517, "species_taxid": 328517, "relation_to_type": "type", "validated": true, "ani": 76.0319, "matched_fragments": 112, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella lactea", "strain": "strain=FT50W", "accession": "GCA_009857505.1", "taxid": 2692173, "species_taxid": 2692173, "relation_to_type": "type", "validated": true, "ani": 76.0111, "matched_fragments": 131, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas campi", "strain": "strain=S1-A32-2", "accession": "GCA_013200955.2", "taxid": 2731681, "species_taxid": 2731681, "relation_to_type": "type", "validated": true, "ani": 75.6131, "matched_fragments": 62, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018241645.1", "gtdb_species": "s__SZAS-79 sp018241645", "ani": 84.3767, "matched_fragments": 559, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__SZAS-79", "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_016713125.1", "gtdb_species": "s__SZAS-79 sp016713125", "ani": 79.883, "matched_fragments": 443, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__SZAS-79", "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_016868105.1", "gtdb_species": "s__RBG-16-66-20 sp016868105", "ani": 78.7134, "matched_fragments": 244, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__RBG-16-66-20", "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": "-" }, { 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__2-02-FULL-66-14", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.40", "min_intra_species_ani": "96.40", "mean_intra_species_af": "0.72", "min_intra_species_af": "0.72", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_903834835.1", "gtdb_species": "s__CAILKO01 sp903834835", "ani": 77.5964, "matched_fragments": 135, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__CAILKO01", "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_002451175.1", "gtdb_species": "s__2-02-FULL-66-14 sp002451175", "ani": 77.1954, "matched_fragments": 186, "total_fragments": 911, "gtdb_taxonomy": 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