{ "type": "genome", "identifier": "GCA_026984835.1", "organism": "Thiohalobacter sp.", "title": "Thiohalobacter sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Portland State University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_026984835.1", "bioproject": "PRJNA821212", "biosample": "SAMN27357941", "wgs_master": "JALSRI000000000.1", "refseq_category": "na", "taxid": "2025948", "species_taxid": "2025948", "organism_name": "Thiohalobacter sp.", "infraspecific_name": "", "isolate": "356-308_metabat1_scaf2bin.060", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/12/19", "asm_name": "ASM2698483v1", "submitter": "Portland State University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/026/984/835/GCA_026984835.1_ASM2698483v1", "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": "2022-12-19", "dateModified": "2022-12-19", "datePublished": "2022-12-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Thiohalobacter sp." ], "sample_taxid": [ "2025948" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Atlantic Ocean: Mid Atlantic Ridge" ], "sample_host_location_id": [], "data_size": "0.784 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 5.15, "strain_heterogeneity": 66.67, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2865536", "Number of Sequences": "259", "Longest Sequences (bp)": "100836", "N50 (bp)": "16805", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.9", "Number of CDSs": "2508", "Average Protein Length": "314.0", "Coding Ratio (%)": "82.4", "Number of rRNAs": "1", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thiohalobacter thiocyanaticus", "strain": "strain=Hrh1", "accession": "GCA_003932505.1", "taxid": 585455, "species_taxid": 585455, "relation_to_type": "type", "validated": true, "ani": 79.3601, "matched_fragments": 345, "total_fragments": 827, "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": 78.7375, "matched_fragments": 305, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio sulfidiphilus", "strain": "strain=HL-EbGR7", "accession": "GCA_000021985.1", "taxid": 1033854, "species_taxid": 1033854, "relation_to_type": "type", "validated": true, "ani": 78.6616, "matched_fragments": 288, "total_fragments": 827, "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": 78.3985, "matched_fragments": 282, "total_fragments": 827, "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": 78.2217, "matched_fragments": 268, "total_fragments": 827, "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": 78.0707, "matched_fragments": 210, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio thiocyanodenitrificans", "strain": "strain=ARhD 1", "accession": "GCA_000378965.1", "taxid": 243063, "species_taxid": 243063, "relation_to_type": "type", "validated": true, "ani": 77.6973, "matched_fragments": 214, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campaniensis", "strain": "strain=5AG", "accession": "GCA_014193375.1", "taxid": 213554, "species_taxid": 213554, "relation_to_type": "type", "validated": true, "ani": 77.3735, "matched_fragments": 214, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiogranum longum", "strain": "strain=DSM 19610", "accession": "GCA_004339085.1", "taxid": 1537524, "species_taxid": 1537524, "relation_to_type": "type", "validated": true, "ani": 77.3345, "matched_fragments": 189, "total_fragments": 827, "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": 77.3038, "matched_fragments": 205, "total_fragments": 827, "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": 77.2986, "matched_fragments": 216, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas delhiensis", "strain": "strain=CCM 7361", "accession": "GCA_900099945.1", "taxid": 366289, "species_taxid": 366289, "relation_to_type": "type", "validated": true, "ani": 77.29, "matched_fragments": 290, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas delhiensis", "strain": "strain=RLD-1", "accession": "GCA_900187975.1", "taxid": 366289, "species_taxid": 366289, "relation_to_type": "type", "validated": true, "ani": 77.2832, "matched_fragments": 285, "total_fragments": 827, "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": 77.2078, "matched_fragments": 274, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=DSM 14263", "accession": "GCA_003148905.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 77.2032, "matched_fragments": 239, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=LMG 19981", "accession": "GCA_006352285.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 77.1852, "matched_fragments": 226, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campisalis", "strain": "strain=A4", "accession": "GCA_022341425.1", "taxid": 74661, "species_taxid": 74661, "relation_to_type": "type", "validated": true, "ani": 77.1665, "matched_fragments": 171, "total_fragments": 827, "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": 77.1386, "matched_fragments": 242, "total_fragments": 827, "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": 77.0952, "matched_fragments": 173, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas halophila", "strain": "strain=NBRC 102604", "accession": "GCA_007989465.1", "taxid": 29573, "species_taxid": 29573, "relation_to_type": "type", "validated": true, "ani": 77.0575, "matched_fragments": 214, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas citronellolis", "strain": "strain=NBRC 103043", "accession": "GCA_002091555.1", "taxid": 53408, "species_taxid": 53408, "relation_to_type": "type", "validated": true, "ani": 76.9816, "matched_fragments": 304, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas citronellolis", "strain": "strain=DSM 50332", "accession": "GCA_004745455.1", "taxid": 53408, "species_taxid": 53408, "relation_to_type": "type", "validated": true, "ani": 76.9764, "matched_fragments": 299, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas citronellolis", "strain": "strain=LMG 18378", "accession": "GCA_900112375.1", "taxid": 53408, "species_taxid": 53408, "relation_to_type": "type", "validated": true, "ani": 76.9286, "matched_fragments": 303, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas hydrolytica", "strain": "strain=DSWY01", "accession": "GCA_021495345.2", "taxid": 2493633, "species_taxid": 2493633, "relation_to_type": "type", "validated": true, "ani": 76.8685, "matched_fragments": 195, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter chinensis", "strain": "strain=TLK-CK17", "accession": "GCA_021725675.1", "taxid": 2912247, "species_taxid": 2912247, "relation_to_type": "type", "validated": true, "ani": 76.5488, "matched_fragments": 162, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas insulae", "strain": "strain=UL073", "accession": "GCA_016901015.1", "taxid": 2809017, "species_taxid": 2809017, "relation_to_type": "type", "validated": true, "ani": 76.308, "matched_fragments": 196, "total_fragments": 827, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.15, "strain_heterogeneity": 66.67 }, "gtdb_result": [ { "accession": "GCA_015494295.1", "gtdb_species": "s__Thiogranum sp015494295", "ani": 80.6246, "matched_fragments": 454, "total_fragments": 827, "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": "99.47", "min_intra_species_ani": "99.47", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_011321775.1", "gtdb_species": "s__Thiogranum sp011321775", "ani": 80.6081, "matched_fragments": 399, "total_fragments": 827, "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_002699185.1", "gtdb_species": "s__Thiohalobacter sp002699185", "ani": 79.7571, "matched_fragments": 284, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Thiohalobacterales;f__Thiohalobacteraceae;g__Thiohalobacter", "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_002356355.1", "gtdb_species": "s__Thiohalobacter thiocyanaticus_A", "ani": 79.6333, "matched_fragments": 369, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Thiohalobacterales;f__Thiohalobacteraceae;g__Thiohalobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.53", "min_intra_species_ani": "98.53", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003932505.1", "gtdb_species": "s__Thiohalobacter thiocyanaticus", "ani": 79.4024, "matched_fragments": 342, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Thiohalobacterales;f__Thiohalobacteraceae;g__Thiohalobacter", "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_003695825.1", "gtdb_species": "s__J048 sp003695825", "ani": 79.1586, "matched_fragments": 237, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__J048;f__J048;g__J048", "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_014762505.1", "gtdb_species": "s__SpSt-1174 sp014762505", "ani": 79.0175, "matched_fragments": 286, "total_fragments": 827, "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": "GCA_011374975.1", "gtdb_species": "s__Thiogranum sp011374975", "ani": 78.8965, "matched_fragments": 315, "total_fragments": 827, "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_011371455.1", "gtdb_species": "s__DRQN01 sp011371455", "ani": 78.8343, "matched_fragments": 209, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__SZUA-152;f__SZUA-152;g__DRQN01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.38", "min_intra_species_ani": "97.35", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000021985.1", "gtdb_species": "s__Thioalkalivibrio_A sulfidiphilus", "ani": 78.6747, "matched_fragments": 287, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Thioalkalivibrio_A", "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_003972985.1", "gtdb_species": "s__Thiolapillus sp003972985", "ani": 78.523, "matched_fragments": 199, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Sedimenticolaceae;g__Thiolapillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.52", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_011371465.1", "gtdb_species": "s__Thiogranum sp011371465", "ani": 78.3572, "matched_fragments": 308, "total_fragments": 827, "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_016218375.1", "gtdb_species": "s__JAHJQQ01 sp016218375", "ani": 77.7309, "matched_fragments": 207, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__JAHJQQ01;f__JAHJQQ01;g__JAHJQQ01", "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": 77.6835, "matched_fragments": 193, "total_fragments": 827, "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": "GCA_002391525.1", "gtdb_species": "s__Competibacter_A sp002391525", "ani": 77.2578, "matched_fragments": 154, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Competibacterales;f__Competibacteraceae;g__Competibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.79", "min_intra_species_ani": "99.79", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900112375.1", "gtdb_species": "s__Pseudomonas citronellolis", "ani": 76.9524, "matched_fragments": 300, "total_fragments": 827, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas", "ani_circumscription_radius": 95.078, "mean_intra_species_ani": "97.44", "min_intra_species_ani": "97.08", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.82", "num_clustered_genomes": 26, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, "cell_length": 0.096, "doubling_h": 1.187, "growth_tmp": 30.0, "optimum_tmp": 32.0, "optimum_ph": 7.4, "genome_size": 3233440.0, "gc_content": 64.3, "coding_genes": 2927.0, "rRNA16S_genes": 1.0, "tRNA_genes": 43.0, "gram_stain": 0.0, "sporulation": null, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__DSM-19610", "f__DSM-19610", "g__JALSRI01", "s__JALSRI01 sp026984835" ], "_genome_taxon": [ "Thiohalobacter", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__DSM-19610", "f__DSM-19610", "g__JALSRI01", "s__JALSRI01 sp026984835", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "DSM-19610", "DSM-19610", "JALSRI01", "JALSRI01", "sp026984835" ], "_meo": [ { "id": "MEO_0000031", "label": "hydrothermal vent" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }