{ "type": "genome", "identifier": "GCF_003143515.1", "organism": "Massilia oculi", "title": "Massilia oculi", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shanghai Jiao Tong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003143515.1", "bioproject": "PRJNA224116", "biosample": "SAMN09104968", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "945844", "species_taxid": "945844", "organism_name": "Massilia oculi", "infraspecific_name": "strain=CCUG 43427", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/05/19", "asm_name": "ASM314351v1", "asm_submitter": "Shanghai Jiao Tong University", "gbrs_paired_asm": "GCA_003143515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/143/515/GCF_003143515.1_ASM314351v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5844653", "genome_size_ungapped": "5844653", "gc_percent": "65.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003143515.1-RS_2024_08_18", "annotation_date": "2024-08-18", "total_gene_count": "5354", "protein_coding_gene_count": "5118", "non_coding_gene_count": "108", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-05-19", "dateModified": "2018-05-19", "datePublished": "2018-05-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Massilia oculi" ], "sample_taxid": [ "945844" ], "sample_host_organism": [ "none" ], "sample_host_organism_id": [], "sample_host_disease": [ "none" ], "sample_host_disease_id": [], "sample_host_location": [ "none" ], "sample_host_location_id": [], "data_size": "1.593 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": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5844653", "Number of Sequences": "1", "Longest Sequences (bp)": "5844653", "N50 (bp)": "5844653", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.6", "Number of CDSs": "5254", "Average Protein Length": "332.6", "Coding Ratio (%)": "89.7", "Number of rRNAs": "21", "Number of tRNAs": "88", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Massilia oculi", "strain": "strain=CCUG 43427", "accession": "GCA_003143515.1", "taxid": 945844, "species_taxid": 945844, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1947, "total_fragments": 1948, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Massilia timonae", "strain": "strain=CCUG 45783", "accession": "GCA_000315425.1", "taxid": 47229, "species_taxid": 47229, "relation_to_type": "type", "validated": true, "ani": 93.4065, "matched_fragments": 1595, "total_fragments": 1948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia arenae", "strain": "strain=GEM5", "accession": "GCA_008014745.1", "taxid": 2603288, "species_taxid": 2603288, "relation_to_type": "type", "validated": true, "ani": 93.283, "matched_fragments": 1623, "total_fragments": 1948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia niastensis", "strain": "strain=DSM 21313", "accession": "GCA_000382345.1", "taxid": 544911, "species_taxid": 544911, "relation_to_type": "type", "validated": true, "ani": 85.3736, "matched_fragments": 1259, "total_fragments": 1948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia aurea", "strain": 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1442366, "species_taxid": 1442366, "relation_to_type": "type", "validated": true, "ani": 83.1292, "matched_fragments": 1100, "total_fragments": 1948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia forsythiae", "strain": "strain=GN2-R2", "accession": "GCA_012849555.1", "taxid": 2728020, "species_taxid": 2728020, "relation_to_type": "type", "validated": true, "ani": 82.8747, "matched_fragments": 1186, "total_fragments": 1948, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017582745.1", "gtdb_species": "s__Massilia oculi", "ani": 95.0832, "matched_fragments": 1665, "total_fragments": 1948, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Massilia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.07", "min_intra_species_ani": "95.07", 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_018119405.1", "gtdb_species": "s__Massilia sp018119405", "ani": 85.3488, "matched_fragments": 1200, "total_fragments": 1948, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Massilia", "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": 0.0, "cell_length": 0.301, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 28.026, "optimum_ph": 7.138, "genome_size": 5844650.0, "gc_content": 65.6, "coding_genes": 4878.0, "rRNA16S_genes": 7.0, "tRNA_genes": 82.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.882, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 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