{ "type": "genome", "identifier": "GCA_936940825.1", "organism": "Pseudomonas helleri", "title": "Pseudomonas helleri", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "European Bioinformatics Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_936940825.1", "bioproject": "PRJEB51076", "biosample": "SAMEA13902880", "wgs_master": "CAKZJC000000000.1", "refseq_category": "na", "taxid": "1608996", "species_taxid": "1608996", "organism_name": "Pseudomonas helleri", "infraspecific_name": "", "isolate": "SRR3184099_bin.34_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/12", "asm_name": "SRR3184099_bin.34_CONCOCT_v1.1_MAG", "submitter": "European Bioinformatics Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/936/940/825/GCA_936940825.1_SRR3184099_bin.34_CONCOCT_v1.1_MAG", "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": "2023-01-12", "dateModified": "2023-01-12", "datePublished": "2023-01-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas helleri" ], "sample_taxid": [ "1608996" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.582 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 90.91, "contamination": 11.11, "strain_heterogeneity": 95.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "5567021", "Number of Sequences": "310", "Longest Sequences (bp)": "124138", "N50 (bp)": "30982", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.4", "Number of CDSs": "4866", "Average Protein Length": "325.2", "Coding Ratio (%)": "85.3", "Number of rRNAs": "1", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas helleri", "strain": "strain=DSM 29165", "accession": "GCA_001043025.1", "taxid": 1608996, "species_taxid": 1608996, "relation_to_type": "type", "validated": true, "ani": 96.7144, "matched_fragments": 1497, "total_fragments": 1692, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas endophytica", "strain": "strain=BSTT44", "accession": "GCA_001411475.1", "taxid": 1563157, "species_taxid": 1563157, "relation_to_type": "type", "validated": true, "ani": 85.4124, "matched_fragments": 1067, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas deceptionensis", "strain": "strain=LMG 25555", "accession": "GCA_900106095.1", "taxid": 882211, "species_taxid": 882211, "relation_to_type": "type", "validated": true, "ani": 84.6618, "matched_fragments": 1031, "total_fragments": 1692, "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": 84.5738, "matched_fragments": 1051, "total_fragments": 1692, "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": 84.5242, "matched_fragments": 1070, "total_fragments": 1692, "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": 84.1529, "matched_fragments": 1015, "total_fragments": 1692, "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": 83.9997, "matched_fragments": 1017, "total_fragments": 1692, "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": 83.9835, "matched_fragments": 1019, "total_fragments": 1692, "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": 83.563, "matched_fragments": 967, "total_fragments": 1692, "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": 83.5107, "matched_fragments": 972, "total_fragments": 1692, "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": 81.5996, "matched_fragments": 829, "total_fragments": 1692, "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": 81.5404, "matched_fragments": 816, "total_fragments": 1692, "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": 81.4541, "matched_fragments": 852, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas spelaei", "strain": "strain=CCM 7893", "accession": "GCA_009724245.1", "taxid": 1055469, "species_taxid": 1055469, "relation_to_type": "type", "validated": true, "ani": 81.4478, "matched_fragments": 810, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cremoris", "strain": "strain=WS 5106", "accession": "GCA_014230465.1", "taxid": 2724178, "species_taxid": 2724178, "relation_to_type": "type", "validated": true, "ani": 81.4298, "matched_fragments": 843, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas germanica", "strain": "strain=FIT28", "accession": "GCA_019614655.1", "taxid": 2815720, "species_taxid": 2815720, "relation_to_type": "type", "validated": true, "ani": 81.3834, "matched_fragments": 796, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas bharatica", "strain": "strain=CSV86", "accession": "GCA_000319305.2", "taxid": 2692112, "species_taxid": 2692112, "relation_to_type": "type", "validated": true, "ani": 79.7428, "matched_fragments": 684, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter terrestris", "strain": "strain=II4", "accession": "GCA_014489475.1", "taxid": 2865112, "species_taxid": 2865112, "relation_to_type": "type", "validated": true, "ani": 75.635, "matched_fragments": 53, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas kaohsiungensis", "strain": "strain=DSM 17583", "accession": "GCA_010211765.1", "taxid": 283923, "species_taxid": 283923, "relation_to_type": "type", "validated": true, "ani": 75.5112, "matched_fragments": 65, "total_fragments": 1692, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 90.91, "contamination": 11.11, "strain_heterogeneity": 95.0 }, "gtdb_result": [ { "accession": "GCF_001043025.1", "gtdb_species": "s__Pseudomonas_E helleri", "ani": 96.7144, "matched_fragments": 1497, "total_fragments": 1692, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.29", "min_intra_species_ani": "96.40", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.80", "num_clustered_genomes": 22, "status": "conclusive" }, { 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