{ "type": "genome", "identifier": "GCA_945905755.1", "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_945905755.1", "bioproject": "PRJEB35640", "biosample": "SAMEA110380593", "wgs_master": "CAMDQE000000000.1", "refseq_category": "na", "taxid": "519", "species_taxid": "519", "organism_name": "Bordetella parapertussis", "infraspecific_name": "", "isolate": "ZE-13nov19-270", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/10", "asm_name": "ZE-13nov19-270", "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/945/905/755/GCA_945905755.1_ZE-13nov19-270", "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": [ "Switzerland" ], "sample_host_location_id": [], "data_size": "0.573 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 72.87, "contamination": 1.04, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1996118", "Number of Sequences": "387", "Longest Sequences (bp)": "25270", "N50 (bp)": "5123", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.3", "Number of CDSs": "1584", "Average Protein Length": "284.2", "Coding Ratio (%)": "67.7", "Number of rRNAs": "0", "Number of tRNAs": "20", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oxalicibacterium solurbis", "strain": "strain=CCM 7664", "accession": "GCA_014635845.1", "taxid": 69280, "species_taxid": 69280, "relation_to_type": "type", "validated": true, "ani": 76.9722, "matched_fragments": 71, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herminiimonas fonticola", "strain": "strain=DSM 18555", "accession": "GCA_004361795.1", "taxid": 303380, "species_taxid": 303380, "relation_to_type": "type", "validated": true, "ani": 76.8398, "matched_fragments": 61, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herminiimonas fonticola", "strain": "strain=S-94", "accession": "GCA_003293745.1", "taxid": 303380, "species_taxid": 303380, "relation_to_type": "type", "validated": true, "ani": 76.8398, "matched_fragments": 61, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janthinobacterium tructae", "strain": "strain=SNU WT3", "accession": "GCA_006517255.1", "taxid": 2590869, "species_taxid": 2590869, "relation_to_type": "type", "validated": true, "ani": 76.765, "matched_fragments": 73, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas humicola", "strain": "strain=RLT1W51", "accession": "GCA_018304945.1", "taxid": 2825886, "species_taxid": 2825886, "relation_to_type": "type", "validated": true, "ani": 76.7263, "matched_fragments": 90, "total_fragments": 523, "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": 76.7148, "matched_fragments": 70, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas silvisoli", "strain": "strain=RXD178", "accession": "GCA_018305005.1", "taxid": 2825884, "species_taxid": 2825884, "relation_to_type": "type", "validated": true, "ani": 76.6501, "matched_fragments": 76, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum aridicola", "strain": "strain=NCCP-691", "accession": "GCA_019656455.1", "taxid": 2849687, "species_taxid": 2849687, "relation_to_type": "type", "validated": true, "ani": 76.6168, "matched_fragments": 78, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas antrihumi", "strain": "strain=DSM 104040", "accession": "GCA_018304965.1", "taxid": 1940615, "species_taxid": 1940615, "relation_to_type": "type", "validated": true, "ani": 76.6144, "matched_fragments": 68, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum autotrophicum", "strain": "strain=TSA66", "accession": "GCA_000818395.1", "taxid": 709839, "species_taxid": 709839, "relation_to_type": "type", "validated": true, "ani": 76.6094, "matched_fragments": 91, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia rubra", "strain": "strain=CCM 8692", "accession": "GCA_011682065.1", "taxid": 2607910, "species_taxid": 2607910, "relation_to_type": "type", "validated": true, "ani": 76.5914, "matched_fragments": 81, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum malthae", "strain": "strain=CC-AFH3", "accession": "GCA_015352985.1", "taxid": 1260987, "species_taxid": 1260987, "relation_to_type": "type", "validated": true, "ani": 76.5787, "matched_fragments": 90, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum autotrophicum", "strain": "strain=IAM 14942", "accession": "GCA_001189915.1", "taxid": 180195, "species_taxid": 180195, "relation_to_type": "type", "validated": true, "ani": 76.5657, "matched_fragments": 97, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum robiniae", "strain": "strain=HZ10", "accession": "GCA_002213415.1", "taxid": 2014887, "species_taxid": 2014887, "relation_to_type": "type", "validated": true, "ani": 76.5304, "matched_fragments": 75, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas aquatica", "strain": "strain=FT29W", "accession": "GCA_009380215.1", "taxid": 2743357, "species_taxid": 2743357, "relation_to_type": "type", "validated": true, "ani": 76.5232, "matched_fragments": 78, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum aerium", "strain": "strain=122213-3", "accession": "GCA_008929045.1", "taxid": 2588497, "species_taxid": 2588497, "relation_to_type": "type", "validated": true, "ani": 76.5027, "matched_fragments": 96, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia psychrophila", "strain": "strain=CGMCC 1.15196", "accession": "GCA_014641415.1", "taxid": 1603353, "species_taxid": 1603353, "relation_to_type": "type", "validated": true, "ani": 76.4571, "matched_fragments": 81, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rhizosphaerae", "strain": "strain=UMS-37", "accession": "GCA_001189965.1", "taxid": 346179, "species_taxid": 346179, "relation_to_type": "type", "validated": true, "ani": 76.4327, "matched_fragments": 92, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia eurypsychrophila", "strain": "strain=JCM 30074", "accession": "GCA_002760655.1", "taxid": 1485217, "species_taxid": 1485217, "relation_to_type": "type", "validated": true, "ani": 76.3508, "matched_fragments": 77, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas pratensis", "strain": "strain=Ter91", "accession": "GCA_001584185.1", "taxid": 279113, "species_taxid": 279113, "relation_to_type": "type", "validated": true, "ani": 76.1973, "matched_fragments": 87, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia alkalitolerans", "strain": "strain=DSM 17462", "accession": "GCA_000427785.1", "taxid": 286638, "species_taxid": 286638, "relation_to_type": "type", "validated": true, "ani": 75.874, "matched_fragments": 63, "total_fragments": 523, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 72.87, "contamination": 1.04, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_903904635.1", "gtdb_species": "s__SYFN01 sp903904635", "ani": 77.4293, "matched_fragments": 151, "total_fragments": 523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__SYFN01", "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_900111995.1", "gtdb_species": "s__Collimonas sp900111995", "ani": 77.0098, "matched_fragments": 68, "total_fragments": 523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Collimonas", "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_014635845.1", "gtdb_species": "s__Oxalicibacterium solurbis", "ani": 76.9722, "matched_fragments": 71, "total_fragments": 523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Oxalicibacterium", "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_003293745.1", "gtdb_species": "s__Herminiimonas fonticola", "ani": 76.8398, "matched_fragments": 61, "total_fragments": 523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herminiimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", 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