{ "type": "genome", "identifier": "GCA_020442635.1", "organism": "Xanthomonadales bacterium", "title": "Xanthomonadales bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "The University Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020442635.1", "bioproject": "PRJNA432264", "biosample": "SAMN14564328", "wgs_master": "JAGRJR000000000.1", "refseq_category": "na", "taxid": "2006849", "species_taxid": "2006849", "organism_name": "Xanthomonadales bacterium", "infraspecific_name": "", "isolate": "HKST-UBA250", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/10/12", "asm_name": "ASM2044263v1", "submitter": "The University Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/442/635/GCA_020442635.1_ASM2044263v1", "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": "2021-10-12", "dateModified": "2021-10-12", "datePublished": "2021-10-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Xanthomonadales bacterium" ], "sample_taxid": [ "2006849" ], "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": "1.015 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.61, "contamination": 0.46, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3543010", "Number of Sequences": "262", "Longest Sequences (bp)": "90212", "N50 (bp)": "35561", "Gap Ratio (%)": "0.048772", "GCcontent (%)": "41.0", "Number of CDSs": "2890", "Average Protein Length": "338.1", "Coding Ratio (%)": "82.7", "Number of rRNAs": "0", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Marinicella litoralis", "strain": "strain=DSM 25488", "accession": "GCA_004363335.1", "taxid": 644220, "species_taxid": 644220, "relation_to_type": "type", "validated": true, "ani": 77.694, "matched_fragments": 268, "total_fragments": 1048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinicella litoralis", "strain": "strain=KMM 3900", "accession": "GCA_002591915.1", "taxid": 644220, "species_taxid": 644220, "relation_to_type": "type", "validated": true, "ani": 77.6576, "matched_fragments": 275, "total_fragments": 1048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinicella sediminis", "strain": "strain=F2", "accession": "GCA_002000055.1", "taxid": 1792834, "species_taxid": 1792834, "relation_to_type": "type", "validated": true, "ani": 77.3572, "matched_fragments": 218, "total_fragments": 1048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinicella rhabdoformis", "strain": "strain=3539", "accession": "GCA_009671245.1", "taxid": 2580566, "species_taxid": 2580566, "relation_to_type": "type", "validated": true, "ani": 77.1651, "matched_fragments": 147, "total_fragments": 1048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinicella pacifica", "strain": "strain=CGMCC 1.12181", "accession": "GCA_014636635.1", "taxid": 1171543, "species_taxid": 1171543, "relation_to_type": "type", "validated": true, "ani": 77.1352, "matched_fragments": 62, "total_fragments": 1048, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.61, "contamination": 0.46, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002591915.1", "gtdb_species": "s__Marinicella litoralis", "ani": 77.6576, "matched_fragments": 275, "total_fragments": 1048, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Marinicellaceae;g__Marinicella", "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": 2, "status": "-" }, { "accession": "GCF_002000055.1", "gtdb_species": "s__Marinicella sediminis", "ani": 77.3708, "matched_fragments": 217, "total_fragments": 1048, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Marinicellaceae;g__Marinicella", "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_009671245.1", "gtdb_species": "s__Marinicella rhabdoformis", "ani": 77.1651, "matched_fragments": 147, "total_fragments": 1048, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Marinicellaceae;g__Marinicella", "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_014636635.1", "gtdb_species": "s__Marinicella pacifica", "ani": 77.1352, "matched_fragments": 62, "total_fragments": 1048, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Marinicellaceae;g__Marinicella", "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": -0.355, "cell_length": 0.227, "doubling_h": 0.355, "growth_tmp": 29.562, "optimum_tmp": 29.59, "optimum_ph": 7.131, "genome_size": 4164088.144, "gc_content": 65.291, "coding_genes": 3964.768, "rRNA16S_genes": 2.188, "tRNA_genes": 55.224, "gram_stain": 0.007, "sporulation": 0.0, "motility": 0.612, "range_salinity": 0.25, "facultative_respiration": 0.044, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.955, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.98, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.009, "vibrio_cell_shape": 0.009, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Xanthomonadales", "f__Marinicellaceae", "g__Marinicella", "s__Marinicella sp020442635" ], "_genome_taxon": [ "Xanthomonadales", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Xanthomonadales", "f__Marinicellaceae", "g__Marinicella", "s__Marinicella sp020442635", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Xanthomonadales", "Marinicellaceae", "Marinicella", "Marinicella", "sp020442635" ], "_meo": [ { "id": "MEO_0000014", "label": "activated sludge" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }