{ "type": "genome", "identifier": "GCA_002416505.1", "organism": "Gammaproteobacteria bacterium UBA5078", "title": "Gammaproteobacteria bacterium UBA5078", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Queensland", "publication": [ {} ], "properties": { "assembly_accession": "GCA_002416505.1", "bioproject": "PRJNA348753", "biosample": "SAMN06454966", "wgs_master": "DIAM00000000.1", "refseq_category": "na", "taxid": "1948627", "species_taxid": "1948627", "organism_name": "Gammaproteobacteria bacterium UBA5078", "infraspecific_name": "", "isolate": "UBA5078", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/03", "asm_name": "ASM241650v1", "submitter": "University of Queensland", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/416/505/GCA_002416505.1_ASM241650v1", "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": "2017-10-03", "dateModified": "2017-10-03", "datePublished": "2017-10-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Gammaproteobacteria bacterium UBA5078" ], "sample_taxid": [ "1948627" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.049 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)": "3667015", "Number of Sequences": "24", "Longest Sequences (bp)": "690273", "N50 (bp)": "262387", "Gap Ratio (%)": "0.189173", "GCcontent (%)": "55.6", "Number of CDSs": "3211", "Average Protein Length": "339.8", "Coding Ratio (%)": "89.3", "Number of rRNAs": "0", "Number of tRNAs": "35", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas cuatrocienegasensis", "strain": "strain=CIP 109853", "accession": "GCA_900110925.1", "taxid": 543360, "species_taxid": 543360, "relation_to_type": "type", "validated": true, "ani": 77.8587, "matched_fragments": 62, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas alcaliphila", "strain": "strain=NBRC 102411", "accession": "GCA_002091495.1", "taxid": 101564, "species_taxid": 101564, "relation_to_type": "type", "validated": true, "ani": 77.6151, "matched_fragments": 70, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas alcaliphila", "strain": "strain=JCM 10630", "accession": "GCA_900101755.1", "taxid": 101564, "species_taxid": 101564, "relation_to_type": "type", "validated": true, "ani": 77.5848, "matched_fragments": 71, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas yangonensis", "strain": "strain=MY50", "accession": "GCA_009932725.1", "taxid": 2579922, "species_taxid": 2579922, "relation_to_type": "type", "validated": true, "ani": 77.4422, "matched_fragments": 64, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sediminis", "strain": "strain=PI11", "accession": "GCA_002741105.1", "taxid": 1691904, "species_taxid": 1691904, "relation_to_type": "type", "validated": true, "ani": 77.4121, "matched_fragments": 64, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Pseudomonas] nosocomialis", "strain": "strain=A31/70", "accession": "GCA_005876855.1", "taxid": 1056496, "species_taxid": 1056496, "relation_to_type": "type", "validated": true, "ani": 77.0893, "matched_fragments": 58, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas panipatensis", "strain": "strain=CCM 7469", "accession": "GCA_900099785.1", "taxid": 428992, "species_taxid": 428992, "relation_to_type": "type", "validated": true, "ani": 77.0584, "matched_fragments": 63, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas songnenensis", "strain": "strain=DSM 27560T", "accession": "GCA_024448495.1", "taxid": 1176259, "species_taxid": 1176259, "relation_to_type": "type", "validated": true, "ani": 76.8424, "matched_fragments": 57, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas songnenensis", "strain": "strain=NEAU-ST5-5", "accession": "GCA_003696315.1", "taxid": 1176259, "species_taxid": 1176259, "relation_to_type": "type", "validated": true, "ani": 76.7695, "matched_fragments": 57, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas kunmingensis", "strain": "strain=DSM 25974", "accession": "GCA_024397575.1", "taxid": 1211807, "species_taxid": 1211807, "relation_to_type": "type", "validated": true, "ani": 76.6232, "matched_fragments": 57, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas chloritidismutans", "strain": "strain=AW-1", "accession": "GCA_000495915.1", "taxid": 203192, "species_taxid": 203192, "relation_to_type": "type", "validated": true, "ani": 76.3625, "matched_fragments": 59, "total_fragments": 1213, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 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76.3256, "matched_fragments": 50, "total_fragments": 1213, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudohongiellaceae;g__PWQG01", "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_002706685.1", "gtdb_species": "s__Pseudohongiella sp002706685", "ani": 75.9067, "matched_fragments": 59, "total_fragments": 1213, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudohongiellaceae;g__Pseudohongiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_002354805.1", "gtdb_species": "s__Pseudohongiella sp002354805", "ani": 75.8265, 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