{ "type": "genome", "identifier": "GCA_011041415.1", "organism": "Chromatiales bacterium", "title": "Chromatiales bacterium", "description": "derived from metagenome; fragmented assembly; genus undefined", "data type": "Genome sequencing and assembly", "organization": "The University of Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_011041415.1", "bioproject": "PRJNA480137", "biosample": "SAMN09638424", "wgs_master": "DRCG00000000.1", "refseq_category": "na", "taxid": "2026725", "species_taxid": "2026725", "organism_name": "Chromatiales bacterium", "infraspecific_name": "", "isolate": "HyVt-246", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/29", "asm_name": "ASM1104141v1", "submitter": "The University of Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/011/041/415/GCA_011041415.1_ASM1104141v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-29", "dateModified": "2020-02-29", "datePublished": "2020-02-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Chromatiales bacterium" ], "sample_taxid": [ "2026725" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean:Southern Mariana Trough" ], "sample_host_location_id": [], "data_size": "0.429 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 78.65, "contamination": 0.84, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1529212", "Number of Sequences": "370", "Longest Sequences (bp)": "16989", "N50 (bp)": "4177", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.2", "Number of CDSs": "1086", "Average Protein Length": "295.8", "Coding Ratio (%)": "63.0", "Number of rRNAs": "0", "Number of tRNAs": "22", "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": 77.7959, "matched_fragments": 80, "total_fragments": 314, "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": 77.5411, "matched_fragments": 73, "total_fragments": 314, "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": 77.4022, "matched_fragments": 86, "total_fragments": 314, "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": 77.1882, "matched_fragments": 80, "total_fragments": 314, "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": 77.1749, "matched_fragments": 84, "total_fragments": 314, "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": 76.8415, "matched_fragments": 60, "total_fragments": 314, "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": 76.7727, "matched_fragments": 65, "total_fragments": 314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium gracile", "strain": "strain=DSM 203", "accession": "GCA_004343155.1", "taxid": 1048, "species_taxid": 1048, "relation_to_type": "type", "validated": true, "ani": 76.7424, "matched_fragments": 79, "total_fragments": 314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium gracile", "strain": "strain=DSM 203", "accession": "GCA_016583515.1", "taxid": 1048, "species_taxid": 1048, "relation_to_type": "type", "validated": true, "ani": 76.7008, "matched_fragments": 77, "total_fragments": 314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas heilongjiangensis", "strain": "strain=9-2", "accession": "GCA_003202165.1", "taxid": 1387883, "species_taxid": 1387883, "relation_to_type": "type", "validated": true, "ani": 76.6372, "matched_fragments": 55, "total_fragments": 314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas heilongjiangensis", "strain": "strain=DSM 26881", "accession": "GCA_002879645.1", "taxid": 1387883, "species_taxid": 1387883, "relation_to_type": "type", "validated": true, "ani": 76.6244, "matched_fragments": 55, "total_fragments": 314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas weifangensis", "strain": "strain=WF-2", "accession": "GCA_003416885.1", "taxid": 2303539, "species_taxid": 2303539, "relation_to_type": "type", "validated": true, "ani": 76.4067, "matched_fragments": 64, "total_fragments": 314, "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": 76.4014, "matched_fragments": 52, "total_fragments": 314, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 78.65, "contamination": 0.84, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_002897735.1", "gtdb_species": "s__BMS3Abin12 sp002897735", "ani": 99.6389, "matched_fragments": 299, "total_fragments": 314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__21-64-14;f__21-64-14;g__BMS3Abin12", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.84", "min_intra_species_ani": "99.73", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCA_002255365.1", "gtdb_species": "s__21-64-14 sp002255365", "ani": 78.0754, "matched_fragments": 130, "total_fragments": 314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__21-64-14;f__21-64-14;g__21-64-14", "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_003932505.1", "gtdb_species": "s__Thiohalobacter thiocyanaticus", "ani": 77.7959, "matched_fragments": 80, "total_fragments": 314, "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": 77.7319, "matched_fragments": 86, "total_fragments": 314, "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_004341245.1", "gtdb_species": "s__Plasticicumulans_A lactativorans", "ani": 77.5411, "matched_fragments": 73, "total_fragments": 314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Competibacterales;f__Competibacteraceae;g__Plasticicumulans_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_014762505.1", "gtdb_species": "s__SpSt-1174 sp014762505", "ani": 77.486, "matched_fragments": 78, "total_fragments": 314, "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_015494165.1", "gtdb_species": "s__S144-34 sp015494165", "ani": 77.4431, "matched_fragments": 96, "total_fragments": 314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__S144-34;f__S144-34;g__S144-34", "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", 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"s__Immundisolibacter sp014359565", "ani": 76.9235, "matched_fragments": 53, "total_fragments": 314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Immundisolibacterales;f__Immundisolibacteraceae;g__Immundisolibacter", "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_018240295.1", "gtdb_species": "s__Plasticicumulans sp003962905", "ani": 76.706, "matched_fragments": 63, "total_fragments": 314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Competibacterales;f__Competibacteraceae;g__Plasticicumulans", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "98.50", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.026, "cell_length": 0.302, "doubling_h": 0.554, "growth_tmp": 29.669, "optimum_tmp": 31.142, "optimum_ph": 7.837, "genome_size": 3928996.406, "gc_content": 61.268, "coding_genes": 3479.287, "rRNA16S_genes": 1.722, "tRNA_genes": 46.523, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.872, "range_salinity": 1.0, "facultative_respiration": 0.109, "anaerobic_respiration": 0.465, "aerobic_respiration": 0.424, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.714, "coccus_cell_shape": 0.244, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.04, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__21-64-14", "f__21-64-14", "g__BMS3Abin12", "s__BMS3Abin12 sp002897735" ], "_genome_taxon": [ "Chromatiales", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__21-64-14", "f__21-64-14", "g__BMS3Abin12", "s__BMS3Abin12 sp002897735", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "21-64-14", "21-64-14", "BMS3Abin12", "BMS3Abin12", "sp002897735" ], "_meo": [ { "id": "MEO_0000686", "label": "hydrothermal sediment" }, { "id": "MEO_0000031", "label": "hydrothermal vent" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }