{ "type": "genome", "identifier": "GCA_023253375.1", "organism": "Pseudomonas sp.", "title": "Pseudomonas sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "South China Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_023253375.1", "bioproject": "PRJNA730330", "biosample": "SAMN27163955", "wgs_master": "JALRGS000000000.1", "refseq_category": "na", "taxid": "306", "species_taxid": "306", "organism_name": "Pseudomonas sp.", "infraspecific_name": "", "isolate": "MLJ.1", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/06", "asm_name": "ASM2325337v1", "submitter": "South China Agricultural University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/023/253/375/GCA_023253375.1_ASM2325337v1", "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": "2022-05-06", "dateModified": "2022-05-06", "datePublished": "2022-05-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas sp." ], "sample_taxid": [ "306" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Esturies of South China" ], "sample_host_location_id": [], "data_size": "2.137 MB", "sample_ph_range": { "min": 791.0, "max": 791.0 }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 97.92, "contamination": 4.63, "strain_heterogeneity": 50.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "7569309", "Number of Sequences": "415", "Longest Sequences (bp)": "96741", "N50 (bp)": "28275", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.8", "Number of CDSs": "7020", "Average Protein Length": "303.6", "Coding Ratio (%)": "84.5", "Number of rRNAs": "2", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas extremaustralis", "strain": "strain=14-3 substr. 14-3b", "accession": "GCA_000242115.2", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 89.312, "matched_fragments": 1498, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "strain=DSM 17835", "accession": "GCA_007858235.1", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 89.303, "matched_fragments": 1511, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "", "accession": "GCA_900625045.1", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 89.2383, "matched_fragments": 1519, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "strain=DSM 17835", "accession": "GCA_900102035.1", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 89.2356, "matched_fragments": 1537, "total_fragments": 2318, "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": 88.7368, "matched_fragments": 1498, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=ICMP 3553", "accession": "GCA_003700725.1", "taxid": 298, "species_taxid": 298, 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"ani": 87.8802, "matched_fragments": 1421, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas salomonii", "strain": "strain=LMG 22120", "accession": "GCA_001730645.1", "taxid": 191391, "species_taxid": 191391, "relation_to_type": "type", "validated": true, "ani": 87.8136, "matched_fragments": 1427, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=NBRC 14160", "accession": "GCA_002091595.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 87.8026, "matched_fragments": 1426, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=DSM 50090", "accession": "GCA_001269845.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 87.7955, "matched_fragments": 1444, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=DSM 50090", "accession": "GCA_007858165.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 87.7885, "matched_fragments": 1440, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=ATCC 13525", "accession": "GCA_002943685.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 87.758, "matched_fragments": 1418, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=NCTC10038", "accession": "GCA_900475215.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 87.7547, "matched_fragments": 1444, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cedrina subsp. cedrina", "strain": "", "accession": "GCA_900625035.1", "taxid": 76762, "species_taxid": 651740, "relation_to_type": "type", "validated": true, "ani": 87.653, "matched_fragments": 1443, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cedrina subsp. cedrina", "strain": "strain=DSM 17516", "accession": "GCA_001983175.1", "taxid": 76762, "species_taxid": 651740, "relation_to_type": "type", "validated": true, "ani": 87.6186, "matched_fragments": 1452, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas paracarnis", "strain": "strain=V5/DAB/2/5", "accession": "GCA_904063055.1", "taxid": 2750625, "species_taxid": 2750625, "relation_to_type": "type", "validated": true, "ani": 87.519, "matched_fragments": 1381, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas edaphica", "strain": "strain=RD25", "accession": "GCA_005863185.1", "taxid": 2006980, "species_taxid": 2006980, "relation_to_type": "type", "validated": true, "ani": 87.4155, "matched_fragments": 1134, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas paralactis", "strain": "strain=DSM 29164", "accession": "GCA_001439735.1", "taxid": 1615673, "species_taxid": 1615673, "relation_to_type": "type", "validated": true, "ani": 87.3054, "matched_fragments": 1359, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brenneri", "strain": "strain=JCM 13307", "accession": "GCA_014646715.1", "taxid": 129817, "species_taxid": 129817, "relation_to_type": "type", "validated": true, "ani": 86.2751, "matched_fragments": 1305, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brenneri", "strain": "strain=DSM 15294", "accession": "GCA_007858285.1", "taxid": 129817, "species_taxid": 129817, "relation_to_type": "type", "validated": true, "ani": 86.2566, "matched_fragments": 1304, "total_fragments": 2318, "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": 86.1518, "matched_fragments": 1335, "total_fragments": 2318, "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": 85.2426, "matched_fragments": 1213, "total_fragments": 2318, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 97.92, "contamination": 4.63, "strain_heterogeneity": 50.0 }, "gtdb_result": [ { "accession": "GCF_001439695.1", "gtdb_species": "s__Pseudomonas_E veronii", "ani": 98.7051, "matched_fragments": 1853, "total_fragments": 2318, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 43, "status": "conclusive" }, { "accession": "GCF_900102035.1", "gtdb_species": "s__Pseudomonas_E extremaustralis", "ani": 89.234, "matched_fragments": 1537, "total_fragments": 2318, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.74", "min_intra_species_ani": "98.99", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.92", 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