{ "type": "genome", "identifier": "GCF_900113215.1", "organism": "Roseobacter denitrificans OCh 114", "title": "Roseobacter denitrificans OCh 114", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900113215.1", "bioproject": "PRJNA224116", "biosample": "SAMN05443635", "wgs_master": "FOOO00000000.1", "refseq_category": "na", "taxid": "375451", "species_taxid": "2434", "organism_name": "Roseobacter denitrificans OCh 114", "infraspecific_name": "strain=DSM 7001", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/02", "asm_name": "IMG-taxon 2693429868 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900113215.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/113/215/GCF_900113215.1_IMG-taxon_2693429868_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4317609", "genome_size_ungapped": "4317609", "gc_percent": "59.000000", "replicon_count": "0", "scaffold_count": "39", "contig_count": "39", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900113215.1-RS_2024_07_09", "annotation_date": "2024-07-09", "total_gene_count": "4089", "protein_coding_gene_count": "4008", "non_coding_gene_count": "44", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-02", "dateModified": "2016-11-02", "datePublished": "2016-11-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Roseobacter denitrificans OCh 114" ], "sample_taxid": [ "375451" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Aburatsubo Inlet Kanagawa, Japan" ], "sample_host_location_id": [], "data_size": "1.218 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)": "4317609", "Number of Sequences": "39", "Longest Sequences (bp)": "603899", "N50 (bp)": "250922", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.9", "Number of CDSs": "4067", "Average Protein Length": "316.9", "Coding Ratio (%)": "89.5", "Number of rRNAs": "3", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Roseobacter denitrificans", "strain": "strain=DSM 7001", 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"matched_fragments": 292, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter noctilucae", "strain": "strain=NB-68", "accession": "GCA_000622365.1", "taxid": 1342302, "species_taxid": 1342302, "relation_to_type": "type", "validated": true, "ani": 77.415, "matched_fragments": 273, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter sediminilitoris", "strain": "strain=JBTF-M27", "accession": "GCA_010667575.1", "taxid": 2698830, "species_taxid": 2698830, "relation_to_type": "type", "validated": true, "ani": 77.4074, "matched_fragments": 291, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter brevis", "strain": "strain=DSM 11443", "accession": "GCA_900112755.1", "taxid": 74348, "species_taxid": 74348, "relation_to_type": "type", "validated": true, "ani": 77.3237, "matched_fragments": 254, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter fulva", "strain": "strain=con5", "accession": "GCA_018798885.1", "taxid": 2840474, "species_taxid": 2840474, "relation_to_type": "type", "validated": true, "ani": 76.9746, "matched_fragments": 213, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mameliella alba", "strain": "strain=DSM 26384", "accession": "GCA_003051025.1", "taxid": 561184, "species_taxid": 561184, "relation_to_type": "suspected-type", "validated": true, "ani": 76.943, "matched_fragments": 278, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 76.8227, "matched_fragments": 195, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zongyanglinia huanghaiensis", "strain": "strain=CY05", "accession": "GCA_009753675.1", "taxid": 2682100, "species_taxid": 2682100, "relation_to_type": "type", "validated": true, "ani": 76.6126, "matched_fragments": 130, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marivivens niveibacter", "strain": "strain=MCCC 1A06712", "accession": "GCA_002150005.2", "taxid": 1930667, "species_taxid": 1930667, "relation_to_type": "type", "validated": true, "ani": 76.2669, "matched_fragments": 104, "total_fragments": 1418, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000014045.1", "gtdb_species": "s__Roseobacter denitrificans", "ani": 99.9965, "matched_fragments": 1416, "total_fragments": 1418, "gtdb_taxonomy": 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