{ "type": "genome", "identifier": "GCA_020446225.1", "organism": "Rhodoferax sp.", "title": "Rhodoferax sp.", "description": "derived from metagenome; fragmented assembly", "data type": "Genome sequencing and assembly", "organization": "The University Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020446225.1", "bioproject": "PRJNA432264", "biosample": "SAMN14564209", "wgs_master": "JAGRFC000000000.1", "refseq_category": "na", "taxid": "50421", "species_taxid": "50421", "organism_name": "Rhodoferax sp.", "infraspecific_name": "", "isolate": "HKST-UBA142", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/10/13", "asm_name": "ASM2044622v1", "submitter": "The University Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/446/225/GCA_020446225.1_ASM2044622v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-10-13", "dateModified": "2021-10-13", "datePublished": "2021-10-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodoferax sp." ], "sample_taxid": [ "50421" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Hong Kong SAR, Shatin waste water treatment plant" ], "sample_host_location_id": [], "data_size": "1.134 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 66.55, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4215214", "Number of Sequences": "1050", "Longest Sequences (bp)": "49978", "N50 (bp)": "4771", "Gap Ratio (%)": "3.048220", "GCcontent (%)": "67.7", "Number of CDSs": "2818", "Average Protein Length": "275.9", "Coding Ratio (%)": "55.3", "Number of rRNAs": "0", "Number of tRNAs": "30", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ramlibacter tataouinensis", "strain": "strain=TTB310", "accession": "GCA_000215705.1", "taxid": 94132, "species_taxid": 94132, "relation_to_type": "type", "validated": true, "ani": 78.8719, "matched_fragments": 315, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter aquaticus", "strain": "strain=LMG 30558", "accession": "GCA_015159745.1", "taxid": 2780094, "species_taxid": 2780094, "relation_to_type": "type", "validated": true, "ani": 78.7259, "matched_fragments": 301, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter pinisoli", "strain": "strain=MAH-25", "accession": "GCA_009758015.1", "taxid": 2682844, "species_taxid": 2682844, "relation_to_type": "type", "validated": true, "ani": 78.5942, "matched_fragments": 352, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter henchirensis", "strain": "strain=DSM 14656", "accession": "GCA_004682015.1", "taxid": 204072, "species_taxid": 204072, "relation_to_type": "type", "validated": true, "ani": 78.5836, "matched_fragments": 290, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variovorax paradoxus", "strain": "strain=NBRC 15149", "accession": "GCA_001591365.1", "taxid": 34073, "species_taxid": 34073, "relation_to_type": "suspected-type", "validated": true, "ani": 78.573, "matched_fragments": 350, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga palleronii", "strain": "strain=NBRC 102513", "accession": "GCA_001571225.1", "taxid": 65655, "species_taxid": 65655, "relation_to_type": "type", "validated": true, "ani": 78.4866, "matched_fragments": 298, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudorhodoferax aquiterrae", "strain": "strain=KCTC 23314", "accession": "GCA_014652235.1", "taxid": 747304, "species_taxid": 747304, "relation_to_type": "type", "validated": true, "ani": 78.4812, "matched_fragments": 375, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga crocea", "strain": "strain=BA0156", "accession": "GCA_011388215.1", "taxid": 2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 78.4738, "matched_fragments": 309, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter humi", "strain": "strain=18x22-1", "accession": "GCA_004681975.1", "taxid": 2530451, "species_taxid": 2530451, "relation_to_type": "type", "validated": true, "ani": 78.4193, "matched_fragments": 311, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Curvibacter gracilis", "strain": "strain=ATCC BAA-807", "accession": "GCA_000518645.1", "taxid": 230310, "species_taxid": 230310, "relation_to_type": "type", "validated": true, "ani": 78.3389, "matched_fragments": 285, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax wautersii", "strain": "strain=DSM 27981", "accession": "GCA_900113035.1", "taxid": 1177982, "species_taxid": 1177982, "relation_to_type": "type", "validated": true, "ani": 78.3241, "matched_fragments": 287, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter algicola", "strain": "strain=CrO1", "accession": "GCA_016641735.1", "taxid": 2795217, "species_taxid": 2795217, "relation_to_type": "type", "validated": true, "ani": 78.2923, "matched_fragments": 294, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudorhodoferax soli", "strain": "strain=DSM 21634", "accession": "GCA_003337555.1", "taxid": 545864, "species_taxid": 545864, "relation_to_type": "type", "validated": true, "ani": 78.2343, "matched_fragments": 391, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga aromaticivorans", "strain": "strain=D2P1", "accession": "GCA_013387465.1", "taxid": 2610898, "species_taxid": 2610898, "relation_to_type": "type", "validated": true, "ani": 78.1935, "matched_fragments": 290, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter agri", "strain": "strain=G-1-2-2", "accession": "GCA_012927085.1", "taxid": 2728837, "species_taxid": 2728837, "relation_to_type": "type", "validated": true, "ani": 78.1459, "matched_fragments": 352, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ottowia beijingensis", "strain": "strain=GCS-AN-3", "accession": "GCA_013423955.1", "taxid": 1207057, "species_taxid": 1207057, "relation_to_type": "type", "validated": true, "ani": 78.0611, "matched_fragments": 274, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Curvibacter lanceolatus", "strain": "strain=ATCC 14669", "accession": "GCA_000381265.1", "taxid": 86182, "species_taxid": 86182, "relation_to_type": "type", "validated": true, "ani": 78.0497, "matched_fragments": 275, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_015476235.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 77.9532, "matched_fragments": 283, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_003349825.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 77.941, "matched_fragments": 278, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_002933415.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 77.9025, "matched_fragments": 278, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Simplicispira hankyongi", "strain": "strain=NY-02", "accession": "GCA_003570885.1", "taxid": 2315688, "species_taxid": 2315688, "relation_to_type": "type", "validated": true, "ani": 77.9021, "matched_fragments": 183, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodoferax lacus", "strain": "strain=IMCC26218", "accession": "GCA_003415675.1", "taxid": 2184758, "species_taxid": 2184758, "relation_to_type": "type", "validated": true, "ani": 77.8194, "matched_fragments": 213, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ottowia testudinis", "strain": "strain=27C", "accession": "GCA_017498525.1", "taxid": 2816950, "species_taxid": 2816950, "relation_to_type": "type", "validated": true, "ani": 77.6454, "matched_fragments": 225, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mitsuaria chitinivorans", "strain": "strain=HWN-4", "accession": "GCA_002761755.1", "taxid": 2917965, "species_taxid": 2917965, "relation_to_type": "type", "validated": true, "ani": 77.2912, "matched_fragments": 235, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Diaphorobacter aerolatus", "strain": "strain=KACC 16536", "accession": "GCA_014489535.1", "taxid": 1288495, "species_taxid": 1288495, "relation_to_type": "type", "validated": true, "ani": 77.2564, "matched_fragments": 169, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelomonas saccharophila", "strain": "strain=DSM 654", "accession": "GCA_004342485.1", "taxid": 304, "species_taxid": 304, "relation_to_type": "type", "validated": true, "ani": 77.0184, "matched_fragments": 282, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rhizosphaerae", "strain": "strain=UMS-37", "accession": "GCA_001189965.1", "taxid": 346179, "species_taxid": 346179, "relation_to_type": "type", "validated": true, "ani": 75.7817, "matched_fragments": 134, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=ATCC BAA-247", "accession": "GCA_000959525.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 75.4682, "matched_fragments": 142, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solimonas variicoloris", "strain": "strain=DSM 15731", "accession": "GCA_000382285.1", "taxid": 254408, "species_taxid": 254408, "relation_to_type": "type", "validated": true, "ani": 75.1846, "matched_fragments": 103, "total_fragments": 829, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 66.55, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018063505.1", "gtdb_species": "s__CAISIP01 sp018063505", "ani": 81.0134, "matched_fragments": 445, "total_fragments": 829, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__CAISIP01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.51", "min_intra_species_ani": "99.51", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016790475.1", "gtdb_species": "s__CAISIP01 sp016790475", "ani": 79.7857, "matched_fragments": 385, "total_fragments": 829, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__CAISIP01", "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_005503335.1", "gtdb_species": "s__SCMQ01 sp005503335", "ani": 79.501, "matched_fragments": 332, "total_fragments": 829, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__SCMQ01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_001797315.1", "gtdb_species": "s__Hylemonella sp001797315", "ani": 79.014, "matched_fragments": 273, "total_fragments": 829, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Hylemonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000215705.1", "gtdb_species": "s__Ramlibacter tataouinensis", "ani": 78.8804, "matched_fragments": 314, "total_fragments": 829, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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": 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