{ "type": "genome", "identifier": "GCF_000812685.1", "organism": "Halocynthiibacter namhaensis", "title": "Halocynthiibacter namhaensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea Polar Research Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000812685.1", "bioproject": "PRJNA224116", "biosample": "SAMN03254441", "wgs_master": "JWIF00000000.1", "refseq_category": "reference genome", "taxid": "1290553", "species_taxid": "1290553", "organism_name": "Halocynthiibacter namhaensis", "infraspecific_name": "strain=RA2-3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/12/31", "asm_name": "S20958", "asm_submitter": "Korea Polar Research Institute", "gbrs_paired_asm": "GCA_000812685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/812/685/GCF_000812685.1_S20958", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3535512", "genome_size_ungapped": "3535512", "gc_percent": "53.000000", "replicon_count": "0", "scaffold_count": "74", "contig_count": "74", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000812685.1-RS_2024_03_21", "annotation_date": "2024-03-21", "total_gene_count": "3578", "protein_coding_gene_count": "3424", "non_coding_gene_count": "47", "pubmed_id": "24573327" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-12-31", "dateModified": "2014-12-31", "datePublished": "2014-12-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Halocynthiibacter namhaensis" ], "sample_taxid": [ "1290553" ], "sample_host_organism": [ "Halocynthia roretzi (sea squirt)" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Namhae" ], "sample_host_location_id": [], "data_size": "1.002 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)": "3535512", "Number of Sequences": "74", "Longest Sequences (bp)": "595919", "N50 (bp)": "110746", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.8", "Number of CDSs": "3515", "Average Protein Length": "295.4", "Coding Ratio (%)": "88.1", "Number of rRNAs": "3", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cochlodiniinecator piscidefendens", "strain": "strain=M26A2M", "accession": "GCA_011326755.1", "taxid": 2715756, "species_taxid": 2715756, "relation_to_type": "type", "validated": true, 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"Aliiroseovarius crassostreae", "strain": "strain=CV919-312", "accession": "GCA_001307765.1", "taxid": 154981, "species_taxid": 154981, "relation_to_type": "type", "validated": true, "ani": 76.7261, "matched_fragments": 118, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Litoreibacter ascidiaceicola", "strain": "strain=DSM 100566", "accession": "GCA_900129235.1", "taxid": 1486859, "species_taxid": 1486859, "relation_to_type": "type", "validated": true, "ani": 76.7198, "matched_fragments": 78, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliiroseovarius crassostreae", "strain": "strain=DSM 16950", "accession": "GCA_900116725.1", "taxid": 154981, "species_taxid": 154981, "relation_to_type": "type", "validated": true, "ani": 76.707, "matched_fragments": 119, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter delicatus", "strain": "strain=DSM 16477", "accession": "GCA_900102535.1", "taxid": 218672, "species_taxid": 218672, "relation_to_type": "type", "validated": true, "ani": 76.6689, "matched_fragments": 90, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter mediterraneus", "strain": "strain=DSM 12244", "accession": "GCA_003054325.1", "taxid": 83219, "species_taxid": 83219, "relation_to_type": "type", "validated": true, "ani": 76.5942, "matched_fragments": 112, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria halocynthiae", "strain": "strain=DSM 27839", "accession": "GCA_900106805.1", "taxid": 985054, "species_taxid": 985054, "relation_to_type": "type", "validated": true, "ani": 76.5631, "matched_fragments": 84, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Profundibacter amoris", "strain": "strain=BAR1", "accession": "GCA_003544895.1", "taxid": 2171755, "species_taxid": 2171755, "relation_to_type": "type", "validated": true, "ani": 76.4453, "matched_fragments": 112, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria faecimaris", "strain": "strain=DSM 28009", "accession": "GCA_900182615.1", "taxid": 686389, "species_taxid": 686389, "relation_to_type": "type", "validated": true, "ani": 76.4388, "matched_fragments": 87, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseobacter cerasinus", "strain": "strain=AI77", "accession": "GCA_009811755.1", "taxid": 2602289, "species_taxid": 2602289, "relation_to_type": "type", "validated": true, "ani": 76.4185, "matched_fragments": 62, "total_fragments": 1142, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius aestuarii", "strain": "strain=KCTC 22174", "accession": "GCA_019966515.1", "taxid": 475083, "species_taxid": 475083, "relation_to_type": "type", 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"cell_length": null, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 21.0, "optimum_ph": null, "genome_size": 3535512.0, "gc_content": 53.152, "coding_genes": 3934.0, "rRNA16S_genes": 3.0, "tRNA_genes": 45.0, "gram_stain": 0.0, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Halocynthiibacter", "namhaensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }