{ "type": "genome", "identifier": "GCA_900762155.1", "organism": "uncultured Stenotrophomonas sp.", "title": "uncultured Stenotrophomonas sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "DOE JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCA_900762155.1", "bioproject": "PRJEB31003", "biosample": "SAMEA5279694", "wgs_master": "CAAFFJ000000000.1", "refseq_category": "na", "taxid": "165438", "species_taxid": "165438", "organism_name": "uncultured Stenotrophomonas sp.", "infraspecific_name": "", "isolate": "HGM22911", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/25", "asm_name": "SRS1170746_25", "submitter": "DOE JGI", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/900/762/155/GCA_900762155.1_SRS1170746_25", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-25", "dateModified": "2020-06-25", "datePublished": "2020-06-25", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Stenotrophomonas sp." ], "sample_taxid": [ "165438" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "El Salvador" ], "sample_host_location_id": [], "data_size": "0.487 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.29, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1766327", "Number of Sequences": "392", "Longest Sequences (bp)": "15285", "N50 (bp)": "4717", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.8", "Number of CDSs": "1338", "Average Protein Length": "300.3", "Coding Ratio (%)": "68.2", "Number of rRNAs": "0", "Number of tRNAs": "30", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Stenotrophomonas ginsengisoli", "strain": "strain=DSM 24757", "accession": "GCA_001431485.1", "taxid": 336566, "species_taxid": 336566, "relation_to_type": "type", "validated": true, "ani": 86.678, "matched_fragments": 349, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas koreensis", "strain": "strain=DSM 17805", "accession": "GCA_001431525.1", "taxid": 266128, "species_taxid": 266128, "relation_to_type": "type", "validated": true, "ani": 85.6309, "matched_fragments": 323, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas nitritireducens", "strain": "strain=DSM 12575", "accession": "GCA_001431425.1", "taxid": 83617, "species_taxid": 83617, "relation_to_type": "type", "validated": true, "ani": 82.2614, "matched_fragments": 264, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas acidaminiphila", "strain": "strain=DSM 13117", "accession": "GCA_024221815.1", "taxid": 128780, "species_taxid": 128780, "relation_to_type": "type", "validated": true, "ani": 82.1676, "matched_fragments": 283, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pictorum", "strain": "strain=JCM 9942", "accession": "GCA_001431585.1", "taxid": 86184, "species_taxid": 86184, "relation_to_type": "type", "validated": true, "ani": 82.1228, "matched_fragments": 265, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas acidaminiphila", "strain": "strain=JCM 13310", "accession": "GCA_001431595.1", "taxid": 128780, "species_taxid": 128780, "relation_to_type": "type", "validated": true, "ani": 82.1147, "matched_fragments": 274, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pictorum", "strain": "strain=JCM 9942", "accession": "GCA_001310775.1", "taxid": 86184, "species_taxid": 86184, "relation_to_type": "type", "validated": true, "ani": 82.0665, "matched_fragments": 215, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pavanii", "strain": "strain=DSM 25135", "accession": "GCA_001431565.1", "taxid": 487698, "species_taxid": 487698, "relation_to_type": "type", "validated": true, "ani": 81.9573, "matched_fragments": 258, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pavanii", "strain": "strain=LMG 25348", "accession": "GCA_900101175.1", "taxid": 487698, "species_taxid": 487698, "relation_to_type": "type", "validated": true, "ani": 81.8502, "matched_fragments": 271, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas maltophilia", "strain": "strain=NBRC 14161", "accession": "GCA_001591205.1", "taxid": 40324, "species_taxid": 40324, "relation_to_type": "type", "validated": true, "ani": 81.7811, "matched_fragments": 263, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas terrae", "strain": "strain=DSM 18941", "accession": "GCA_001431465.1", "taxid": 405446, "species_taxid": 405446, "relation_to_type": "type", "validated": true, "ani": 81.7413, "matched_fragments": 266, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas indicatrix", "strain": "strain=WS40", "accession": "GCA_002750975.1", "taxid": 2045451, "species_taxid": 2045451, "relation_to_type": "type", "validated": true, "ani": 81.67, "matched_fragments": 266, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas nematodicola", "strain": "strain=CPCC 101271", "accession": "GCA_009467805.1", "taxid": 2656746, "species_taxid": 2656746, "relation_to_type": "type", "validated": true, "ani": 81.397, "matched_fragments": 269, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas lactitubi", "strain": "strain=M15", "accession": "GCA_002803515.1", "taxid": 2045214, "species_taxid": 2045214, "relation_to_type": "type", "validated": true, "ani": 81.3737, "matched_fragments": 272, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pennii", "strain": "strain=Sa5BUN4", "accession": "GCA_014836545.1", "taxid": 2762239, "species_taxid": 2762239, "relation_to_type": "type", "validated": true, "ani": 81.1904, "matched_fragments": 258, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas taiwanensis", "strain": "strain=DSM 22914", "accession": "GCA_010093135.1", "taxid": 176598, "species_taxid": 176598, "relation_to_type": "type", "validated": true, "ani": 80.9125, "matched_fragments": 235, "total_fragments": 386, "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": 79.5689, "matched_fragments": 165, "total_fragments": 386, "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": 79.5144, "matched_fragments": 192, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.29, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001431485.1", "gtdb_species": "s__Stenotrophomonas ginsengisoli", "ani": 86.678, "matched_fragments": 349, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_001431525.1", "gtdb_species": "s__Stenotrophomonas koreensis", "ani": 85.6309, "matched_fragments": 323, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.87", "min_intra_species_ani": "97.87", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002951995.1", "gtdb_species": "s__Stenotrophomonas acidaminiphila_A", "ani": 82.2958, "matched_fragments": 280, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "98.36", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCA_002329155.1", "gtdb_species": "s__Stenotrophomonas sp002329155", "ani": 82.2659, "matched_fragments": 268, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_004348115.1", "gtdb_species": "s__Stenotrophomonas sp004348115", "ani": 82.2483, "matched_fragments": 287, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001431425.1", "gtdb_species": "s__Stenotrophomonas nitritireducens", "ani": 82.2121, "matched_fragments": 266, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.94", "min_intra_species_ani": "98.42", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001431595.1", "gtdb_species": "s__Stenotrophomonas acidaminiphila", "ani": 82.1067, "matched_fragments": 275, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.49", "min_intra_species_ani": "97.05", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_003086695.1", "gtdb_species": "s__Stenotrophomonas sp003086695", "ani": 82.0137, "matched_fragments": 278, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.24", "min_intra_species_ani": "96.14", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_003086775.1", "gtdb_species": "s__Stenotrophomonas sp003086775", "ani": 81.9644, "matched_fragments": 275, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.05", "min_intra_species_ani": "97.07", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.87", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_006970445.1", "gtdb_species": "s__Stenotrophomonas maltophilia_AU", "ani": 81.8995, "matched_fragments": 262, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_001431665.1", "gtdb_species": "s__Stenotrophomonas maltophilia_K", "ani": 81.8933, "matched_fragments": 257, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_001274595.1", "gtdb_species": "s__Stenotrophomonas maltophilia_AJ", "ani": 81.8764, "matched_fragments": 277, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "96.26", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCA_009912235.1", "gtdb_species": "s__Stenotrophomonas maltophilia_AV", "ani": 81.8473, "matched_fragments": 247, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_000020665.1", "gtdb_species": "s__Stenotrophomonas maltophilia_L", "ani": 81.8441, "matched_fragments": 269, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "98.00", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_013464915.1", "gtdb_species": "s__Stenotrophomonas maltophilia_AT", "ani": 81.8046, "matched_fragments": 270, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "98.65", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002799245.1", "gtdb_species": "s__Stenotrophomonas maltophilia_S", "ani": 81.7729, "matched_fragments": 276, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_013464485.1", "gtdb_species": "s__Stenotrophomonas maltophilia_AW", "ani": 81.7717, "matched_fragments": 267, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "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_002799165.1", "gtdb_species": "s__Stenotrophomonas maltophilia_Q", "ani": 81.7232, "matched_fragments": 274, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.69", "min_intra_species_ani": "95.30", 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