{ "type": "genome", "identifier": "GCA_015488555.1", "organism": "Gammaproteobacteria bacterium", "title": "Gammaproteobacteria bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Portland State University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_015488555.1", "bioproject": "PRJNA546572", "biosample": "SAMN12876363", "wgs_master": "WFNO00000000.1", "refseq_category": "na", "taxid": "1913989", "species_taxid": "1913989", "organism_name": "Gammaproteobacteria bacterium", "infraspecific_name": "", "isolate": "S012_109", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/11/16", "asm_name": "ASM1548855v1", "submitter": "Portland State University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/015/488/555/GCA_015488555.1_ASM1548855v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-11-16", "dateModified": "2020-11-16", "datePublished": "2020-11-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Gammaproteobacteria bacterium" ], "sample_taxid": [ "1913989" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean" ], "sample_host_location_id": [], "data_size": "0.660 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2348743", "Number of Sequences": "132", "Longest Sequences (bp)": "123336", "N50 (bp)": "28767", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.7", "Number of CDSs": "2033", "Average Protein Length": "326.4", "Coding Ratio (%)": "84.8", "Number of rRNAs": "1", "Number of tRNAs": "39", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thioalkalivibrio sulfidiphilus", "strain": "strain=HL-EbGR7", "accession": "GCA_000021985.1", "taxid": 1033854, "species_taxid": 1033854, "relation_to_type": "type", "validated": true, "ani": 77.9226, "matched_fragments": 193, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalobacter thiocyanaticus", "strain": "strain=Hrh1", "accession": "GCA_003932505.1", "taxid": 585455, "species_taxid": 585455, "relation_to_type": "type", "validated": true, "ani": 77.8113, "matched_fragments": 161, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalbus denitrificans", "strain": "strain=DSM 26407", "accession": "GCA_003337735.1", "taxid": 547122, "species_taxid": 547122, "relation_to_type": "type", "validated": true, "ani": 77.5296, "matched_fragments": 204, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Inmirania thermothiophila", "strain": "strain=DSM 100275", "accession": "GCA_003751635.1", "taxid": 1750597, "species_taxid": 1750597, "relation_to_type": "type", "validated": true, "ani": 77.4519, "matched_fragments": 164, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio denitrificans", "strain": "strain=ALJD", "accession": "GCA_002000365.1", "taxid": 108003, "species_taxid": 108003, "relation_to_type": "type", "validated": true, "ani": 77.2153, "matched_fragments": 139, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurivermis fontis", "strain": "strain=JG42", "accession": "GCA_004001245.1", "taxid": 1972068, "species_taxid": 1972068, "relation_to_type": "type", "validated": true, "ani": 77.1827, "matched_fragments": 157, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalocapsa marina", "strain": "strain=DSM 19078", "accession": "GCA_008632335.1", "taxid": 424902, "species_taxid": 424902, "relation_to_type": "type", "validated": true, "ani": 77.1411, "matched_fragments": 130, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ectothiorhodospira magna", "strain": "strain=B7-7", "accession": "GCA_900110965.1", "taxid": 867345, "species_taxid": 867345, "relation_to_type": "type", "validated": true, "ani": 76.9487, "matched_fragments": 105, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ectothiorhodospira marina", "strain": "strain=DSM 241", "accession": "GCA_900109495.1", "taxid": 1396821, "species_taxid": 1396821, "relation_to_type": "type", "validated": true, "ani": 76.8071, "matched_fragments": 120, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas denitrificans", "strain": "strain=DSM 18045", "accession": "GCA_003056305.1", "taxid": 370769, "species_taxid": 370769, "relation_to_type": "type", "validated": true, "ani": 76.7015, "matched_fragments": 99, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas saccharevitans", "strain": "strain=CGMCC 1.6493", "accession": "GCA_900116405.1", "taxid": 416872, "species_taxid": 416872, "relation_to_type": "type", "validated": true, "ani": 76.6987, "matched_fragments": 86, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas mangiferae", "strain": "strain=DMKU BBB3-04", "accession": "GCA_007109405.1", "taxid": 2593654, "species_taxid": 2593654, "relation_to_type": "type", "validated": true, "ani": 76.6899, "matched_fragments": 104, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioflavicoccus mobilis", "strain": "strain=8321", "accession": "GCA_000327045.1", "taxid": 80679, "species_taxid": 80679, "relation_to_type": "type", "validated": true, "ani": 76.5055, "matched_fragments": 73, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas stenophila", "strain": "strain=CECT 7744", "accession": "GCA_014192275.1", "taxid": 795312, "species_taxid": 795312, "relation_to_type": "type", "validated": true, "ani": 76.4677, "matched_fragments": 103, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas smyrnensis", "strain": "strain=AAD6", "accession": "GCA_000265245.2", "taxid": 720605, "species_taxid": 720605, "relation_to_type": "type", "validated": true, "ani": 76.4525, "matched_fragments": 94, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 76.3859, "matched_fragments": 110, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azotobacter chroococcum subsp. isscasi", "strain": "strain=P205", "accession": "GCA_004327895.1", "taxid": 2528971, "species_taxid": 353, "relation_to_type": "type", "validated": true, "ani": 76.3481, "matched_fragments": 89, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aromaticivorans", "strain": "strain=MAP12", "accession": "GCA_019097855.1", "taxid": 2849492, "species_taxid": 2849492, "relation_to_type": "type", "validated": true, "ani": 76.3403, "matched_fragments": 92, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Plasticicumulans lactativorans", "strain": "strain=DSM 25287", "accession": "GCA_004341245.1", "taxid": 1133106, "species_taxid": 1133106, "relation_to_type": "type", "validated": true, "ani": 76.3296, "matched_fragments": 104, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aeruginosa", "strain": "strain=DSM 50071", "accession": "GCA_024169805.1", "taxid": 287, "species_taxid": 287, "relation_to_type": "type", "validated": true, "ani": 76.2533, "matched_fragments": 94, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sagittaria", "strain": "strain=JCM 18195", "accession": "GCA_900115715.1", "taxid": 1135990, "species_taxid": 1135990, "relation_to_type": "type", "validated": true, "ani": 76.2169, "matched_fragments": 97, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteibacter anthropi", "strain": "strain=CCUG 25036", "accession": "GCA_011759365.1", "taxid": 564369, "species_taxid": 564369, "relation_to_type": "type", "validated": true, "ani": 75.882, "matched_fragments": 58, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", "taxid": 2320867, "species_taxid": 2320867, "relation_to_type": "type", "validated": true, "ani": 75.8003, "matched_fragments": 73, "total_fragments": 712, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_015488555.1", "gtdb_species": "s__S012-109 sp015488555", "ani": 100.0, "matched_fragments": 701, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__SZUA-140;f__SZUA-140;g__S012-109", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.64", "min_intra_species_ani": "99.60", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCA_015492435.1", "gtdb_species": "s__SZUA-140 sp015492435", "ani": 79.1807, "matched_fragments": 244, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__SZUA-140;f__SZUA-140;g__SZUA-140", "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_000021985.1", "gtdb_species": "s__Thioalkalivibrio_A sulfidiphilus", "ani": 77.9222, "matched_fragments": 193, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Thioalkalivibrio_A", "ani_circumscription_radius": 95.0, 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900114895.1", "gtdb_species": "s__Ectothiorhodospira mobilis_A", "ani": 77.8099, "matched_fragments": 164, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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_011321775.1", "gtdb_species": "s__Thiogranum sp011321775", "ani": 77.5734, "matched_fragments": 138, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__DSM-19610;f__DSM-19610;g__Thiogranum", "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_016716465.1", "gtdb_species": "s__JADJWH01 sp016716465", "ani": 77.5655, "matched_fragments": 171, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__JADJWH01;f__JADJWH01;g__JADJWH01", "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_003337735.1", "gtdb_species": "s__Thioalbus denitrificans", "ani": 77.5157, "matched_fragments": 205, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__DSM-26407;f__DSM-26407;g__Thioalbus", "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_011051655.1", "gtdb_species": "s__DRKS01 sp011051655", "ani": 77.4594, "matched_fragments": 129, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Sedimenticolaceae;g__DRKS01", "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_003751635.1", "gtdb_species": "s__Inmirania thermothiophila", "ani": 77.4518, "matched_fragments": 164, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__DSM-100275;f__DSM-100275;g__Inmirania", "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_011371455.1", "gtdb_species": "s__DRQN01 sp011371455", 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Tenderiales;f__Tenderiaceae;g__Tenderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_011046015.1", "gtdb_species": "s__SpSt-1174 sp011046015", "ani": 76.9441, "matched_fragments": 88, "total_fragments": 712, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__SpSt-1174;f__SpSt-1174;g__SpSt-1174", "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_000378965.1", "gtdb_species": "s__Thioalkalivibrio_A thiocyanodenitrificans", "ani": 76.702, "matched_fragments": 130, "total_fragments": 712, "gtdb_taxonomy": 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