{ "type": "genome", "identifier": "GCA_012720005.1", "organism": "Pseudomonas lundensis", "title": "Pseudomonas lundensis", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Technical University of Denmark", "publication": [ {} ], "properties": { "assembly_accession": "GCA_012720005.1", "bioproject": "PRJNA602310", "biosample": "SAMN13893536", "wgs_master": "JAAXZH000000000.1", "refseq_category": "na", "taxid": "86185", "species_taxid": "86185", "organism_name": "Pseudomonas lundensis", "infraspecific_name": "", "isolate": "AS01afH2WH_27", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/23", "asm_name": "ASM1272000v1", "submitter": "Technical University of Denmark", "gbrs_paired_asm": "GCF_012720005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/012/720/005/GCA_012720005.1_ASM1272000v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-23", "dateModified": "2020-04-23", "datePublished": "2020-04-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas lundensis" ], "sample_taxid": [ "86185" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.351 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 64.58, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4762060", "Number of Sequences": "86", "Longest Sequences (bp)": "270129", "N50 (bp)": "98594", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.6", "Number of CDSs": "4367", "Average Protein Length": "321.4", "Coding Ratio (%)": "88.4", "Number of rRNAs": "0", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas deceptionensis", "strain": "strain=LMG 25555", "accession": "GCA_900106095.1", "taxid": 882211, "species_taxid": 882211, "relation_to_type": "type", "validated": true, "ani": 84.3341, "matched_fragments": 1064, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fragi", "strain": "strain=NRRL B-727", "accession": "GCA_900105835.1", "taxid": 296, "species_taxid": 296, "relation_to_type": "type", "validated": true, "ani": 84.2836, "matched_fragments": 1062, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas deceptionensis", "strain": "strain=DSM 26521", "accession": "GCA_001042895.1", "taxid": 882211, "species_taxid": 882211, "relation_to_type": "type", "validated": true, "ani": 84.2579, "matched_fragments": 1069, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fragi", "strain": "strain=NBRC 3458", "accession": "GCA_002091615.1", "taxid": 296, "species_taxid": 296, "relation_to_type": "type", "validated": true, "ani": 84.1802, "matched_fragments": 1065, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas paraversuta", "strain": "strain=V4/DAB/S4/2a", "accession": "GCA_904063065.1", "taxid": 2750624, "species_taxid": 2750624, "relation_to_type": "type", "validated": true, "ani": 83.886, "matched_fragments": 1053, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas versuta", "strain": "strain=L10.10", "accession": "GCA_001294575.1", "taxid": 1788301, "species_taxid": 1788301, "relation_to_type": "type", "validated": true, "ani": 83.824, "matched_fragments": 1034, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas helleri", "strain": "strain=DSM 29165", "accession": "GCA_001043025.1", "taxid": 1608996, "species_taxid": 1608996, "relation_to_type": "type", "validated": true, "ani": 83.7528, "matched_fragments": 1001, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas psychrophila", "strain": "strain=DSM 17535", "accession": "GCA_001043005.1", "taxid": 122355, "species_taxid": 122355, "relation_to_type": "type", "validated": true, "ani": 83.7107, "matched_fragments": 1029, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas psychrophila", "strain": "strain=CCUG 53877", "accession": "GCA_008801485.1", "taxid": 122355, "species_taxid": 122355, "relation_to_type": "type", "validated": true, "ani": 83.7094, "matched_fragments": 1027, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas taetrolens", "strain": "strain=DSM 21104", "accession": "GCA_001042915.1", "taxid": 47884, "species_taxid": 47884, "relation_to_type": "type", "validated": true, "ani": 83.3293, "matched_fragments": 1041, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas taetrolens", "strain": "strain=NCTC10697", "accession": "GCA_900475285.1", "taxid": 47884, "species_taxid": 47884, "relation_to_type": "type", "validated": true, "ani": 83.3221, "matched_fragments": 1036, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas kielensis", "strain": "strain=MBT-1", "accession": "GCA_014236655.1", "taxid": 2762577, "species_taxid": 2762577, "relation_to_type": "type", "validated": true, "ani": 81.6465, "matched_fragments": 834, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=DSM 13124", "accession": "GCA_007858155.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 81.422, "matched_fragments": 860, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pharyngis", "strain": "strain=BML-PP036", "accession": "GCA_021602345.1", "taxid": 2892333, "species_taxid": 2892333, "relation_to_type": "type", "validated": true, "ani": 81.3949, "matched_fragments": 865, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sputi", "strain": "strain=BML-PP014", "accession": "GCA_021603585.1", "taxid": 2892325, "species_taxid": 2892325, "relation_to_type": "type", "validated": true, "ani": 81.3358, "matched_fragments": 865, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lurida", "strain": "strain=LMG 21995", "accession": "GCA_002563895.1", "taxid": 244566, "species_taxid": 244566, "relation_to_type": "type", "validated": true, "ani": 81.2757, "matched_fragments": 858, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas monsensis", "strain": "strain=PGSB 8459", "accession": "GCA_014268495.2", "taxid": 2745509, "species_taxid": 2745509, "relation_to_type": "type", "validated": true, "ani": 81.1892, "matched_fragments": 883, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas karstica", "strain": "strain=CCM 7891", "accession": "GCA_009707515.1", "taxid": 1055468, "species_taxid": 1055468, "relation_to_type": "type", "validated": true, "ani": 80.9279, "matched_fragments": 758, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 64.58, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001042985.1", "gtdb_species": "s__Pseudomonas_E lundensis", "ani": 98.7234, "matched_fragments": 1393, "total_fragments": 1542, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.29", "min_intra_species_ani": "98.01", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 42, "status": "conclusive" }, { "accession": "GCF_002269125.1", "gtdb_species": "s__Pseudomonas_E lundensis_A", "ani": 91.0596, "matched_fragments": 1314, "total_fragments": 1542, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.32", 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