{ "type": "genome", "identifier": "GCF_031935715.1", "organism": "Halomonas garicola", "title": "Halomonas garicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea Research Institute of Bioscience and Biotechnology (KRIBB)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_031935715.1", "bioproject": "PRJNA224116", "biosample": "SAMN35616883", "wgs_master": "JASSZF000000000.1", "refseq_category": "reference genome", "taxid": "1690008", "species_taxid": "1690008", "organism_name": "Halomonas garicola", "infraspecific_name": "strain=KACC 18117", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/09/25", "asm_name": "ASM3193571v1", "asm_submitter": "Korea Research Institute of Bioscience and Biotechnology (KRIBB)", "gbrs_paired_asm": "GCA_031935715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/031/935/715/GCF_031935715.1_ASM3193571v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2843569", "genome_size_ungapped": "2843369", "gc_percent": "63.500000", "replicon_count": "0", "scaffold_count": "73", "contig_count": "73", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_031935715.1-RS_2024_09_27", "annotation_date": "2024-09-27", "total_gene_count": "2701", "protein_coding_gene_count": "2580", "non_coding_gene_count": "67", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-09-25", "dateModified": "2023-09-25", "datePublished": "2023-09-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Halomonas garicola" ], "sample_taxid": [ "1690008" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "0.794 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)": "2843569", "Number of Sequences": "73", "Longest Sequences (bp)": "200377", "N50 (bp)": "70100", "Gap Ratio (%)": "0.007033", "GCcontent (%)": "63.7", "Number of CDSs": "2610", "Average Protein Length": "323.3", "Coding Ratio (%)": "89.0", "Number of rRNAs": "2", "Number of tRNAs": "57", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halomonas jeotgali", "strain": "strain=Hwa", "accession": "GCA_000334215.1", "taxid": 553386, "species_taxid": 553386, "relation_to_type": "type", "validated": true, "ani": 83.492, "matched_fragments": 639, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas subglaciescola", "strain": "strain=ACAM 12", "accession": "GCA_900142895.1", "taxid": 29571, "species_taxid": 29571, "relation_to_type": "type", "validated": true, "ani": 83.0052, "matched_fragments": 664, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas denitrificans", "strain": "strain=DSM 18045", "accession": "GCA_003056305.1", "taxid": 370769, "species_taxid": 370769, "relation_to_type": "type", "validated": true, "ani": 80.3981, "matched_fragments": 525, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas shengliensis", "strain": "strain=CGMCC 1.6444", "accession": "GCA_900104135.1", "taxid": 419597, "species_taxid": 419597, "relation_to_type": "type", "validated": true, "ani": 80.2182, "matched_fragments": 490, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas halophila", "strain": "strain=NBRC 102604", "accession": "GCA_007989465.1", "taxid": 29573, "species_taxid": 29573, "relation_to_type": "type", "validated": true, "ani": 80.108, "matched_fragments": 455, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas smyrnensis", "strain": "strain=AAD6", "accession": "GCA_000265245.2", "taxid": 720605, "species_taxid": 720605, "relation_to_type": "type", "validated": true, "ani": 80.1002, "matched_fragments": 479, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas urmiana", "strain": "strain=TBZ3", "accession": "GCA_005780185.1", "taxid": 490901, "species_taxid": 490901, "relation_to_type": "type", "validated": true, "ani": 80.0456, "matched_fragments": 486, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas saccharevitans", "strain": "strain=CGMCC 1.6493", "accession": "GCA_900116405.1", "taxid": 416872, "species_taxid": 416872, "relation_to_type": "type", "validated": true, "ani": 80.0374, "matched_fragments": 485, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campisalis", "strain": "strain=A4", "accession": "GCA_022341425.1", "taxid": 74661, "species_taxid": 74661, "relation_to_type": "type", "validated": true, "ani": 80.02, "matched_fragments": 454, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas ventosae", "strain": "strain=CECT 5797", "accession": "GCA_004363555.1", "taxid": 229007, "species_taxid": 229007, "relation_to_type": "type", "validated": true, "ani": 79.8676, "matched_fragments": 473, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas stenophila", "strain": "strain=CECT 7744", "accession": "GCA_014192275.1", "taxid": 795312, "species_taxid": 795312, "relation_to_type": "type", "validated": true, "ani": 79.8331, "matched_fragments": 484, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidoxydans", "strain": "strain=MCCC 1A11059", "accession": "GCA_017868775.1", "taxid": 2733484, "species_taxid": 2733484, "relation_to_type": "type", "validated": true, "ani": 79.8233, "matched_fragments": 425, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas aestuarii", "strain": "strain=Hb3", "accession": "GCA_001886615.1", "taxid": 1897729, "species_taxid": 1897729, "relation_to_type": "type", "validated": true, "ani": 79.8219, "matched_fragments": 467, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas heilongjiangensis", "strain": "strain=DSM 26881", "accession": "GCA_002879645.1", "taxid": 1387883, "species_taxid": 1387883, "relation_to_type": "type", "validated": true, "ani": 79.7704, "matched_fragments": 445, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas heilongjiangensis", "strain": "strain=9-2", "accession": "GCA_003202165.1", "taxid": 1387883, "species_taxid": 1387883, "relation_to_type": "type", "validated": true, "ani": 79.75, "matched_fragments": 460, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas ethanolica", "strain": "strain=MCCC 1A11081", "accession": "GCA_021404305.1", "taxid": 2733486, "species_taxid": 2733486, "relation_to_type": "type", "validated": true, "ani": 79.7364, "matched_fragments": 398, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas nitroreducens", "strain": "strain=11S", "accession": "GCA_003966155.1", "taxid": 447425, "species_taxid": 447425, "relation_to_type": "type", "validated": true, "ani": 79.6273, "matched_fragments": 463, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas cerina", "strain": "strain=CECT 7282", "accession": "GCA_014192215.1", "taxid": 447424, "species_taxid": 447424, "relation_to_type": "type", "validated": true, "ani": 79.237, "matched_fragments": 414, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lysinitropha", "strain": "strain=3(2)", "accession": "GCA_902500215.1", "taxid": 2607506, "species_taxid": 2607506, "relation_to_type": "type", "validated": true, "ani": 79.2086, "matched_fragments": 391, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas tianxiuensis", "strain": "strain=BC-M4-5", "accession": "GCA_009834345.1", "taxid": 2497861, "species_taxid": 2497861, "relation_to_type": "type", "validated": true, "ani": 79.0271, "matched_fragments": 398, "total_fragments": 909, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000334215.1", "gtdb_species": "s__Halomonas jeotgali", "ani": 83.498, "matched_fragments": 638, "total_fragments": 909, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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": "GCF_900142895.1", "gtdb_species": "s__Halomonas subglaciescola", "ani": 82.9858, "matched_fragments": 665, "total_fragments": 909, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", 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0.276, "doubling_h": 0.239, "growth_tmp": 30.353, "optimum_tmp": 31.375, "optimum_ph": 7.642, "genome_size": 3925920.429, "gc_content": 60.3, "coding_genes": 3582.761, "rRNA16S_genes": 3.8, "tRNA_genes": 63.428, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.808, "range_salinity": 1.0, "facultative_respiration": 0.164, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.835, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.961, "coccus_cell_shape": 0.019, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.019, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Halomonas", "garicola" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }