{ "type": "genome", "identifier": "GCF_003590945.1", "organism": "Oleomonas cavernae", "title": "Oleomonas cavernae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003590945.1", "bioproject": "PRJNA224116", "biosample": "SAMN10055686", "wgs_master": "QYUK00000000.1", "refseq_category": "reference genome", "taxid": "2320859", "species_taxid": "2320859", "organism_name": "Oleomonas cavernae", "infraspecific_name": "strain=K1W22B-8", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/24", "asm_name": "ASM359094v1", "asm_submitter": "Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_003590945.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/590/945/GCF_003590945.1_ASM359094v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5643452", "genome_size_ungapped": "5643452", "gc_percent": "66.500000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003590945.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "5795", "protein_coding_gene_count": "5443", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-24", "dateModified": "2018-09-24", "datePublished": "2018-09-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Oleomonas cavernae" ], "sample_taxid": [ "2320859" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Guizhou" ], "sample_host_location_id": [], "data_size": "1.537 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 93.92, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5643452", "Number of Sequences": "29", "Longest Sequences (bp)": "4374006", "N50 (bp)": "4374006", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.7", "Number of CDSs": "5771", "Average Protein Length": "292.0", "Coding Ratio (%)": "89.6", "Number of rRNAs": "6", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Zavarzinia compransoris", "strain": "strain=DSM 1231", "accession": "GCA_004362995.1", "taxid": 1264899, "species_taxid": 1264899, "relation_to_type": "type", "validated": true, "ani": 81.5861, "matched_fragments": 937, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zavarzinia compransoris", "strain": "strain=DSM 1231", "accession": "GCA_003173055.1", "taxid": 1264899, "species_taxid": 1264899, "relation_to_type": "type", "validated": true, "ani": 81.508, "matched_fragments": 956, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zavarzinia aquatilis", "strain": "strain=HR-AS", "accession": "GCA_003173035.1", "taxid": 2211142, "species_taxid": 2211142, "relation_to_type": "type", "validated": true, "ani": 81.2411, "matched_fragments": 920, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum moscoviense", "strain": "strain=BB-1", "accession": "GCA_001650635.1", "taxid": 1437059, "species_taxid": 1437059, "relation_to_type": "type", "validated": true, "ani": 77.199, "matched_fragments": 315, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum ramasamyi", "strain": "strain=M2T2B2", "accession": "GCA_003233655.1", "taxid": 682998, "species_taxid": 682998, "relation_to_type": "type", "validated": true, "ani": 77.1927, "matched_fragments": 418, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum thiophilum", "strain": "strain=DSM 21654", "accession": "GCA_000960825.1", "taxid": 528244, "species_taxid": 528244, "relation_to_type": "type", "validated": true, "ani": 77.1635, "matched_fragments": 453, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanibaculum pacificum", "strain": "strain=MCCC 1A02656", "accession": "GCA_001618175.1", "taxid": 580166, "species_taxid": 580166, "relation_to_type": "type", "validated": true, "ani": 77.1372, "matched_fragments": 280, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum argentinense", "strain": "strain=Az39", "accession": "GCA_000632475.2", "taxid": 2970906, "species_taxid": 2970906, "relation_to_type": "type", "validated": true, "ani": 76.9892, "matched_fragments": 404, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Reyranella aquatilis", "strain": "strain=KCTC 52223", "accession": "GCA_020880995.1", "taxid": 2035356, "species_taxid": 2035356, "relation_to_type": "type", "validated": true, "ani": 76.9786, "matched_fragments": 296, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthobacter oligotrophicus", "strain": "strain=29k", "accession": "GCA_008364685.1", "taxid": 2607286, "species_taxid": 2607286, "relation_to_type": "type", "validated": true, "ani": 76.9208, "matched_fragments": 288, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthobacter aminoxidans", "strain": "strain=ATCC BAA-299", "accession": "GCA_023571765.1", "taxid": 186280, "species_taxid": 186280, "relation_to_type": "type", "validated": true, "ani": 76.9056, "matched_fragments": 296, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pyruvatibacter mobilis", "strain": "strain=GYP-11", "accession": "GCA_009910475.1", "taxid": 1712261, "species_taxid": 1712261, "relation_to_type": "type", "validated": true, "ani": 76.8999, "matched_fragments": 166, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastochloris viridis", "strain": "strain=DSM 133", "accession": "GCA_001548155.2", "taxid": 1079, "species_taxid": 1079, "relation_to_type": "type", "validated": true, "ani": 76.832, "matched_fragments": 258, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum rugosum", "strain": "strain=IMMIB AFH-6", "accession": "GCA_017876155.1", "taxid": 416170, "species_taxid": 416170, "relation_to_type": "type", 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369, "total_fragments": 1866, "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": 76.602, "matched_fragments": 348, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Reyranella soli", "strain": "strain=NBRC 108950", "accession": "GCA_007992495.1", "taxid": 1230389, "species_taxid": 1230389, "relation_to_type": "type", "validated": true, "ani": 76.5435, "matched_fragments": 380, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parvibaculum sedimenti", "strain": "strain=HXT-9", "accession": "GCA_009184905.1", "taxid": 2608632, "species_taxid": 2608632, "relation_to_type": "type", "validated": true, "ani": 76.5331, "matched_fragments": 158, "total_fragments": 1866, "ani_threshold": 95, "status": 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"Sphingomonas profundi", "strain": "strain=LMO-1", "accession": "GCA_009739515.1", "taxid": 2681549, "species_taxid": 2681549, "relation_to_type": "type", "validated": true, "ani": 76.2854, "matched_fragments": 251, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parvibaculum lavamentivorans", "strain": "strain=DS-1", "accession": "GCA_000017565.1", "taxid": 256618, "species_taxid": 256618, "relation_to_type": "type", "validated": true, "ani": 76.27, "matched_fragments": 157, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phyllobacterium calauticae", "strain": "strain=R2-JL", "accession": "GCA_019991125.1", "taxid": 2817027, "species_taxid": 2817027, "relation_to_type": "type", "validated": true, "ani": 76.2429, "matched_fragments": 143, "total_fragments": 1866, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 93.92, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003590945.1", "gtdb_species": "s__Zavarzinia sp003590945", "ani": 100.0, "matched_fragments": 1863, "total_fragments": 1866, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Zavarziniales;f__Zavarziniaceae;g__Zavarzinia", "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": "conclusive" }, { "accession": "GCF_003173055.1", "gtdb_species": "s__Zavarzinia compransoris", "ani": 81.4736, "matched_fragments": 962, "total_fragments": 1866, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Zavarziniales;f__Zavarziniaceae;g__Zavarzinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 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