{ "type": "genome", "identifier": "GCA_022402485.1", "organism": "Phenylobacterium sp.", "title": "Phenylobacterium sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Southern California", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022402485.1", "bioproject": "PRJNA757720", "biosample": "SAMN22081051", "wgs_master": "JAKRSA000000000.1", "refseq_category": "na", "taxid": "1871053", "species_taxid": "1871053", "organism_name": "Phenylobacterium sp.", "infraspecific_name": "", "isolate": "MS003", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/02/27", "asm_name": "ASM2240248v1", "submitter": "University of Southern California", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/402/485/GCA_022402485.1_ASM2240248v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-02-27", "dateModified": "2022-02-27", "datePublished": "2022-02-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Phenylobacterium sp." ], "sample_taxid": [ "1871053" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: California, Castaic Lake" ], "sample_host_location_id": [], "data_size": "0.854 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3076580", "Number of Sequences": "33", "Longest Sequences (bp)": "249752", "N50 (bp)": "186357", "Gap Ratio (%)": "0.032829", "GCcontent (%)": "65.9", "Number of CDSs": "2937", "Average Protein Length": "314.2", "Coding Ratio (%)": "90.0", "Number of rRNAs": "0", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Phenylobacterium aquaticum", "strain": "strain=KACC 18306", "accession": "GCA_022695515.1", "taxid": 1763816, "species_taxid": 1763816, "relation_to_type": "type", "validated": true, "ani": 79.3658, "matched_fragments": 532, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium hankyongense", "strain": "strain=HKS-05", "accession": "GCA_003254505.1", "taxid": 1813876, "species_taxid": 1813876, "relation_to_type": "type", "validated": true, "ani": 79.2424, "matched_fragments": 433, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium glaciei", "strain": "strain=20VBR1", "accession": "GCA_016772415.2", "taxid": 2803784, "species_taxid": 2803784, "relation_to_type": "type", "validated": true, "ani": 79.1922, "matched_fragments": 537, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium haematophilum", "strain": "strain=DSM 21793", "accession": "GCA_014196295.1", "taxid": 98513, "species_taxid": 98513, "relation_to_type": "type", "validated": true, "ani": 78.9214, "matched_fragments": 442, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium zucineum", "strain": "strain=HLK1", "accession": "GCA_000017265.1", "taxid": 284016, "species_taxid": 284016, "relation_to_type": "type", "validated": true, "ani": 78.8914, "matched_fragments": 411, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium soli", "strain": "strain=LX32", "accession": "GCA_003254475.1", "taxid": 2170551, "species_taxid": 2170551, "relation_to_type": "type", "validated": true, "ani": 78.8787, "matched_fragments": 418, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium deserti", "strain": "strain=YIM 73061", "accession": "GCA_003254705.1", "taxid": 1914756, "species_taxid": 1914756, "relation_to_type": "type", "validated": true, "ani": 78.6495, "matched_fragments": 338, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium parvum", "strain": "strain=HYN0004", "accession": "GCA_003150835.1", "taxid": 2201350, "species_taxid": 2201350, "relation_to_type": "type", "validated": true, "ani": 78.6149, "matched_fragments": 384, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium kunshanense", "strain": "strain=BUT-10", "accession": "GCA_003254525.1", "taxid": 1445034, "species_taxid": 1445034, "relation_to_type": "type", "validated": true, "ani": 78.414, "matched_fragments": 388, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter vibrioides", "strain": "strain=DSM 9893", "accession": "GCA_002858865.1", "taxid": 155892, "species_taxid": 155892, "relation_to_type": "type", "validated": true, "ani": 78.0948, "matched_fragments": 334, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter rhizosphaerae", "strain": "strain=CGMCC 1.15915", "accession": "GCA_014645055.1", "taxid": 2010972, "species_taxid": 2010972, "relation_to_type": "type", "validated": true, "ani": 78.0508, "matched_fragments": 368, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas vitisensis", "strain": "strain=GR-TSA-9", "accession": "GCA_016656965.1", "taxid": 2800818, "species_taxid": 2800818, "relation_to_type": "type", "validated": true, "ani": 77.4661, "matched_fragments": 196, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas pondensis", "strain": "strain=LVF1", "accession": "GCA_017487345.1", "taxid": 2774189, "species_taxid": 2774189, "relation_to_type": "type", "validated": true, "ani": 77.454, "matched_fragments": 219, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas subvibrioides", "strain": "strain=ATCC 15264", "accession": "GCA_000144605.1", "taxid": 74313, "species_taxid": 74313, "relation_to_type": "type", "validated": true, "ani": 77.1536, "matched_fragments": 226, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus aestuarii", "strain": "strain=DSM 19484", "accession": "GCA_003594815.1", "taxid": 453842, "species_taxid": 453842, "relation_to_type": "type", "validated": true, "ani": 76.2025, "matched_fragments": 81, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovastum atsumiense", "strain": "strain=G2-11", "accession": "GCA_937425535.1", "taxid": 504468, "species_taxid": 504468, "relation_to_type": "type", "validated": true, "ani": 75.8448, "matched_fragments": 114, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wenxinia saemankumensis", "strain": "strain=DSM 100565", "accession": "GCA_900141735.1", "taxid": 1447782, "species_taxid": 1447782, "relation_to_type": "type", "validated": true, "ani": 75.8262, "matched_fragments": 85, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodoligotrophos defluvii", "strain": "strain=lm1", "accession": "GCA_005281615.1", "taxid": 2561934, "species_taxid": 2561934, "relation_to_type": "type", "validated": true, "ani": 75.6284, "matched_fragments": 81, "total_fragments": 1009, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_002363865.1", "gtdb_species": "s__Phenylobacterium sp002363865", "ani": 85.3181, "matched_fragments": 835, "total_fragments": 1009, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Phenylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002441055.1", "gtdb_species": "s__Phenylobacterium sp002441055", "ani": 84.3757, "matched_fragments": 633, "total_fragments": 1009, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Phenylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }