{ "type": "genome", "identifier": "GCF_000470745.1", "organism": "Halomonas huangheensis", "title": "Halomonas huangheensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Academy of Agricultural Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000470745.1", "bioproject": "PRJNA224116", "biosample": "SAMN02469496", "wgs_master": "AVBC00000000.1", "refseq_category": "na", "taxid": "1178482", "species_taxid": "1178482", "organism_name": "Halomonas huangheensis", "infraspecific_name": "strain=BJGMM-B45", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/09/23", "asm_name": "version 1 of the Halomonas huanghegensis", "asm_submitter": "Chinese Academy of Agricultural Sciences", "gbrs_paired_asm": "GCA_000470745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/470/745/GCF_000470745.1_version_1_of_the_Halomonas_huanghegensis", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4758798", "genome_size_ungapped": "4758798", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "68", "contig_count": "68", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000470745.1-RS_2024_03_21", "annotation_date": "2024-03-21", "total_gene_count": "4207", "protein_coding_gene_count": "4092", "non_coding_gene_count": "83", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-09-23", "dateModified": "2013-09-23", "datePublished": "2013-09-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Halomonas huangheensis" ], "sample_taxid": [ "1178482" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Shandong Province" ], "sample_host_location_id": [], "data_size": "1.340 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)": "4758798", "Number of Sequences": "68", "Longest Sequences (bp)": "1346496", "N50 (bp)": "408687", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.5", "Number of CDSs": "4169", "Average Protein Length": "327.1", "Coding Ratio (%)": "86.0", "Number of rRNAs": "13", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halomonas huangheensis", "strain": "strain=BJGMM-B45", "accession": "GCA_000470745.1", "taxid": 1178482, "species_taxid": 1178482, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1560, "total_fragments": 1562, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halomonas huangheensis", "strain": "strain=BJGMM-B45", "accession": "GCA_001431725.1", "taxid": 1178482, "species_taxid": 1178482, "relation_to_type": "type", "validated": true, "ani": 99.9944, "matched_fragments": 1559, "total_fragments": 1562, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halomonas cupida", "strain": "strain=NBRC 102219", "accession": "GCA_007991155.1", "taxid": 44933, "species_taxid": 44933, "relation_to_type": "type", "validated": true, "ani": 82.055, "matched_fragments": 1021, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas cupida", "strain": "strain=DSM 4740", "accession": "GCA_900142755.1", "taxid": 44933, "species_taxid": 44933, "relation_to_type": "type", "validated": true, "ani": 82.0107, "matched_fragments": 1091, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas litopenaei", "strain": "strain=SYSU ZJ2214", "accession": "GCA_003045775.1", "taxid": 2109328, "species_taxid": 2109328, "relation_to_type": "type", "validated": true, "ani": 79.3263, "matched_fragments": 648, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas organivorans", "strain": "strain=CECT 5995", "accession": "GCA_014192055.1", "taxid": 257772, "species_taxid": 257772, "relation_to_type": "type", "validated": true, "ani": 78.8202, "matched_fragments": 527, "total_fragments": 1562, "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": 78.7316, "matched_fragments": 415, "total_fragments": 1562, "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": 78.6015, "matched_fragments": 406, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidivorans", "strain": "strain=MCCC 1A13718", "accession": "GCA_017868935.1", "taxid": 2733488, "species_taxid": 2733488, "relation_to_type": "type", "validated": true, "ani": 78.5972, "matched_fragments": 398, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas antri", "strain": "strain=Y3S6", "accession": "GCA_019430905.1", "taxid": 2846777, "species_taxid": 2846777, "relation_to_type": "type", "validated": true, "ani": 78.494, "matched_fragments": 394, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas urumqiensis", "strain": "strain=BZ-SZ-XJ27", "accession": "GCA_002879635.1", "taxid": 1684789, "species_taxid": 1684789, "relation_to_type": "type", "validated": true, "ani": 78.4805, "matched_fragments": 395, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas niordiana", "strain": "strain=ATF 5.4", "accession": "GCA_004798965.1", "taxid": 2508711, "species_taxid": 2508711, "relation_to_type": "type", "validated": true, "ani": 78.4209, "matched_fragments": 324, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas aerodenitrificans", "strain": "strain=MCCC 1A11058", "accession": "GCA_021404405.1", "taxid": 2733483, "species_taxid": 2733483, "relation_to_type": "type", "validated": true, "ani": 78.3757, "matched_fragments": 424, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas bachuensis", "strain": "strain=DX6", "accession": "GCA_011742165.1", "taxid": 2717286, "species_taxid": 2717286, "relation_to_type": "type", "validated": true, "ani": 78.3634, "matched_fragments": 409, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yangia pacifica", "strain": "strain=DSM 26894", "accession": "GCA_900116195.1", "taxid": 311180, "species_taxid": 311180, "relation_to_type": "suspected-type", "validated": true, "ani": 75.6332, "matched_fragments": 50, "total_fragments": 1562, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001431725.1", "gtdb_species": "s__Halomonas huangheensis", "ani": 99.9944, "matched_fragments": 1559, "total_fragments": 1562, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_900142755.1", "gtdb_species": "s__Halomonas cupida", "ani": 82.0044, "matched_fragments": 1090, "total_fragments": 1562, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003045775.1", "gtdb_species": "s__Halomonas litopenaei", "ani": 79.3116, "matched_fragments": 650, "total_fragments": 1562, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Halomonas", "huangheensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }