{ "type": "genome", "identifier": "GCA_028871705.1", "organism": "Gammaproteobacteria bacterium", "title": "Gammaproteobacteria bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Sun Yat-sen University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_028871705.1", "bioproject": "PRJNA675967", "biosample": "SAMN16745112", "wgs_master": "JAGWMP000000000.1", "refseq_category": "na", "taxid": "1913989", "species_taxid": "1913989", "organism_name": "Gammaproteobacteria bacterium", "infraspecific_name": "", "isolate": "REEB210", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/02/27", "asm_name": "ASM2887170v1", "submitter": "Sun Yat-sen University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/028/871/705/GCA_028871705.1_ASM2887170v1", "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": "2023-02-27", "dateModified": "2023-02-27", "datePublished": "2023-02-27", "_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": [ "China:Jiangxi" ], "sample_host_location_id": [], "data_size": "0.854 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 55.3, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3144156", "Number of Sequences": "369", "Longest Sequences (bp)": "58109", "N50 (bp)": "11829", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.0", "Number of CDSs": "2562", "Average Protein Length": "324.9", "Coding Ratio (%)": "79.4", "Number of rRNAs": "1", "Number of tRNAs": "38", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Steroidobacter agariperforans", "strain": "strain=KA5-B", "accession": "GCA_004138335.1", "taxid": 268404, "species_taxid": 268404, "relation_to_type": "type", "validated": true, "ani": 76.8106, "matched_fragments": 151, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Povalibacter uvarum", "strain": "strain=DSM 26723", "accession": "GCA_014202975.1", "taxid": 732238, "species_taxid": 732238, "relation_to_type": "type", "validated": true, "ani": 76.7254, "matched_fragments": 140, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Steroidobacter gossypii", "strain": "strain=S1-65", "accession": "GCA_016801985.1", "taxid": 2805490, "species_taxid": 2805490, "relation_to_type": "type", "validated": true, "ani": 76.7048, "matched_fragments": 152, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Steroidobacter agaridevorans", "strain": "strain=SA29-B", "accession": "GCA_009932555.1", "taxid": 2695856, "species_taxid": 2695856, "relation_to_type": "type", "validated": true, "ani": 76.6002, "matched_fragments": 166, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas lumbrici", "strain": "strain=1.1416", "accession": "GCA_006476065.1", "taxid": 2559601, "species_taxid": 2559601, "relation_to_type": "type", "validated": true, "ani": 76.5881, "matched_fragments": 140, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Steroidobacter cummioxidans", "strain": "strain=35Y", "accession": "GCA_003104955.1", "taxid": 1803913, "species_taxid": 1803913, "relation_to_type": "type", "validated": true, "ani": 76.4873, "matched_fragments": 139, "total_fragments": 848, "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": 76.244, "matched_fragments": 223, "total_fragments": 848, "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": 76.235, "matched_fragments": 206, "total_fragments": 848, "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": 76.2291, "matched_fragments": 95, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lactosivorans", "strain": "strain=KCTC 52281", "accession": "GCA_003254665.1", "taxid": 2185141, "species_taxid": 2185141, "relation_to_type": "type", "validated": true, "ani": 76.2255, "matched_fragments": 94, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dokdonella koreensis", "strain": "strain=DS-123", "accession": "GCA_001632775.1", "taxid": 323415, "species_taxid": 323415, "relation_to_type": "type", "validated": true, "ani": 76.1289, "matched_fragments": 174, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azotobacter beijerinckii", "strain": "strain=DSM 378", "accession": "GCA_900110885.1", "taxid": 170623, "species_taxid": 170623, "relation_to_type": "type", "validated": true, "ani": 76.0829, "matched_fragments": 105, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas aquatica", "strain": "strain=RIB1-20", "accession": "GCA_022662575.1", "taxid": 450364, "species_taxid": 450364, "relation_to_type": "type", "validated": true, "ani": 76.0128, "matched_fragments": 180, "total_fragments": 848, "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": 75.9454, "matched_fragments": 113, "total_fragments": 848, "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": 75.9361, "matched_fragments": 121, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodocyclus purpureus", "strain": "strain=DSM 168", "accession": "GCA_016653115.1", "taxid": 1067, "species_taxid": 1067, "relation_to_type": "type", "validated": true, "ani": 75.8787, "matched_fragments": 99, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vulcaniibacterium tengchongense", "strain": "strain=DSM 25623", "accession": "GCA_003814555.1", "taxid": 1273429, "species_taxid": 1273429, "relation_to_type": "type", "validated": true, "ani": 75.8521, "matched_fragments": 198, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vulcaniibacterium tengchongense", "strain": "strain=YIM 77520", "accession": "GCA_008033455.1", "taxid": 1273429, "species_taxid": 1273429, "relation_to_type": "type", "validated": true, "ani": 75.8515, "matched_fragments": 192, "total_fragments": 848, "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": 75.8486, "matched_fragments": 130, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halochromatium glycolicum", "strain": "strain=DSM 11080", "accession": "GCA_016584085.1", "taxid": 85075, "species_taxid": 85075, "relation_to_type": "type", "validated": true, "ani": 75.8448, "matched_fragments": 98, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas azotifigens", "strain": "strain=DSM 17556", "accession": "GCA_000425625.1", "taxid": 291995, "species_taxid": 291995, "relation_to_type": "type", "validated": true, "ani": 75.8, "matched_fragments": 120, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tahibacter caeni", "strain": "strain=BUT-6", "accession": "GCA_024609805.1", "taxid": 1453545, "species_taxid": 1453545, "relation_to_type": "type", "validated": true, "ani": 75.7964, "matched_fragments": 191, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteibacter yeojuensis", "strain": "strain=DSM 17673", "accession": "GCA_011742875.1", "taxid": 345309, "species_taxid": 345309, "relation_to_type": "type", "validated": true, "ani": 75.7609, "matched_fragments": 106, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteibacter jiangsuensis", "strain": "strain=CGMCC 1.10133", "accession": "GCA_011742555.1", "taxid": 637577, "species_taxid": 637577, "relation_to_type": "type", "validated": true, "ani": 75.7159, "matched_fragments": 99, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinisphaera halophila", "strain": "strain=YIM 95161", "accession": "GCA_003732545.1", "taxid": 1304158, "species_taxid": 1304158, "relation_to_type": "type", "validated": true, "ani": 75.6669, "matched_fragments": 106, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermithiobacillus tepidarius", "strain": "strain=DSM 3134", "accession": "GCA_000423825.1", "taxid": 929, "species_taxid": 929, "relation_to_type": "type", "validated": true, "ani": 75.6388, "matched_fragments": 70, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sihuiensis", "strain": "strain=KCTC 32246", "accession": "GCA_900106015.1", "taxid": 1274359, "species_taxid": 1274359, "relation_to_type": "type", "validated": true, "ani": 75.6371, "matched_fragments": 67, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_002890935.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 75.5018, "matched_fragments": 74, "total_fragments": 848, "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": 75.4912, "matched_fragments": 99, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_024448335.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 75.4879, "matched_fragments": 75, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=FDAARGOS_877", "accession": "GCA_016028515.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 75.4879, "matched_fragments": 75, "total_fragments": 848, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 55.3, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_001914695.1", "gtdb_species": "s__13-2-20CM-66-19 sp001914695", "ani": 80.9902, "matched_fragments": 431, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "96.94", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.73", "num_clustered_genomes": 19, "status": "-" }, { "accession": "GCA_005878835.1", "gtdb_species": "s__13-2-20CM-66-19 sp005878835", "ani": 80.952, "matched_fragments": 488, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.03", "min_intra_species_ani": "96.96", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_005878095.1", "gtdb_species": "s__13-2-20CM-66-19 sp005878095", "ani": 80.9063, "matched_fragments": 449, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.52", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018241425.1", "gtdb_species": "s__13-2-20CM-66-19 sp018241425", "ani": 80.7545, "matched_fragments": 498, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "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_005877965.1", "gtdb_species": "s__13-2-20CM-66-19 sp005877965", "ani": 80.7484, "matched_fragments": 366, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "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_018240525.1", "gtdb_species": "s__13-2-20CM-66-19 sp018240525", "ani": 80.4222, "matched_fragments": 486, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "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_019235245.1", "gtdb_species": "s__13-2-20CM-66-19 sp019235245", "ani": 80.2844, "matched_fragments": 414, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "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_019242385.1", "gtdb_species": "s__13-2-20CM-66-19 sp019242385", "ani": 80.1033, "matched_fragments": 291, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "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_019247195.1", "gtdb_species": "s__13-2-20CM-66-19 sp019247195", "ani": 79.7515, "matched_fragments": 399, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.26", "min_intra_species_ani": "99.26", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018241445.1", "gtdb_species": "s__13-2-20CM-66-19 sp018241445", "ani": 79.5407, "matched_fragments": 379, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__13-2-20CM-66-19", "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_003242685.1", "gtdb_species": "s__ZC4RG24 sp003242685", "ani": 79.0328, "matched_fragments": 299, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__ZC4RG24", "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_019187185.1", "gtdb_species": "s__CADEFQ01 sp019187185", "ani": 78.3435, "matched_fragments": 255, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__CADEFQ01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019187495.1", "gtdb_species": "s__CADEFQ01 sp019187495", "ani": 77.9658, "matched_fragments": 266, "total_fragments": 848, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__CADEFQ01", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Steroidobacterales", "f__Steroidobacteraceae", "g__13-2-20CM-66-19", "s__13-2-20CM-66-19 sp028871705" ], "_genome_taxon": [ "Gammaproteobacteria", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Steroidobacterales", "f__Steroidobacteraceae", "g__13-2-20CM-66-19", "s__13-2-20CM-66-19 sp028871705", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Steroidobacterales", "Steroidobacteraceae", "13-2-20CM-66-19", "13-2-20CM-66-19", "sp028871705" ], "_meo": [ { "id": "MEO_0000034", "label": "acid mine drainage" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }