{ "type": "genome", "identifier": "GCF_013415115.1", "organism": "Vreelandella zhaodongensis", "title": "Vreelandella zhaodongensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Third Institute of Oceanography,Ministey of Natura", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013415115.1", "bioproject": "PRJNA224116", "biosample": "SAMN15473294", "wgs_master": "JACCDD000000000.1", "refseq_category": "reference genome", "taxid": "1176240", "species_taxid": "1176240", "organism_name": "Vreelandella zhaodongensis", "infraspecific_name": "strain=NEAU-ST10-25", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/14", "asm_name": "ASM1341511v1", "asm_submitter": "Third Institute of Oceanography,Ministey of Natura", "gbrs_paired_asm": "GCA_013415115.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/415/115/GCF_013415115.1_ASM1341511v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3724647", "genome_size_ungapped": "3724647", "gc_percent": "53.000000", "replicon_count": "0", "scaffold_count": "25", "contig_count": "25", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013415115.1-RS_2024_08_25", "annotation_date": "2024-08-25", "total_gene_count": "3359", "protein_coding_gene_count": "3291", "non_coding_gene_count": "63", "pubmed_id": "23877893" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-14", "dateModified": "2020-07-14", "datePublished": "2020-07-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Vreelandella zhuhanensis" ], "sample_taxid": [ "2684210" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Zhaodong City, Heilongjiang Province" ], "sample_host_location_id": [], "data_size": "1.061 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)": "3724647", "Number of Sequences": "25", "Longest Sequences (bp)": "781665", "N50 (bp)": "352306", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "53.0", "Number of CDSs": "3283", "Average Protein Length": "335.7", "Coding Ratio (%)": "88.8", "Number of rRNAs": "3", "Number of tRNAs": "56", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halomonas zhaodongensis", "strain": "strain=NEAU-ST10-25", "accession": "GCA_013415115.1", "taxid": 1176240, "species_taxid": 1176240, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1228, "total_fragments": 1229, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halomonas humidisoli", "strain": "strain=WN018", "accession": "GCA_002286955.1", "taxid": 2032624, "species_taxid": 2032624, "relation_to_type": "type", "validated": true, "ani": 85.2735, "matched_fragments": 924, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas alkaliphila", "strain": "strain=DSM 16354", "accession": "GCA_016107625.1", "taxid": 272774, "species_taxid": 272774, "relation_to_type": "type", "validated": true, "ani": 85.1492, "matched_fragments": 911, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas venusta", "strain": "strain=DSM 4743", "accession": "GCA_016107635.1", "taxid": 44935, "species_taxid": 44935, "relation_to_type": "type", "validated": true, "ani": 84.1564, "matched_fragments": 866, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas hydrothermalis", "strain": "strain=Slthf2", "accession": "GCA_011399095.1", "taxid": 115561, "species_taxid": 115561, "relation_to_type": "type", "validated": true, "ani": 84.0744, "matched_fragments": 833, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas venusta", "strain": "strain=NBRC 102221", "accession": "GCA_007989605.1", "taxid": 44935, "species_taxid": 44935, "relation_to_type": "type", "validated": true, "ani": 84.0405, "matched_fragments": 856, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas andesensis", "strain": "strain=DSM 19434", "accession": "GCA_003989795.1", "taxid": 447567, "species_taxid": 447567, "relation_to_type": "type", "validated": true, "ani": 83.1908, "matched_fragments": 797, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lutescens", "strain": "strain=CGMCC 1.15122", "accession": "GCA_014640815.1", "taxid": 1602943, "species_taxid": 1602943, "relation_to_type": "type", "validated": true, "ani": 80.3332, "matched_fragments": 609, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas meridiana", "strain": "strain=NBRC 15608", "accession": "GCA_006540125.1", "taxid": 29570, "species_taxid": 29570, "relation_to_type": "type", "validated": true, "ani": 80.084, "matched_fragments": 526, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas profundi", "strain": "strain=MT13", "accession": "GCA_019504685.1", "taxid": 2852117, "species_taxid": 2852117, "relation_to_type": "type", "validated": true, "ani": 78.9169, "matched_fragments": 396, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas profundi", "strain": "strain=MT13", "accession": "GCA_019722725.1", "taxid": 2852117, "species_taxid": 2852117, "relation_to_type": "type", "validated": true, "ani": 78.8629, "matched_fragments": 404, "total_fragments": 1229, "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": 77.7097, "matched_fragments": 133, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas kenyensis", "strain": "strain=DSM 17331", "accession": "GCA_022341445.1", "taxid": 321266, "species_taxid": 321266, "relation_to_type": "type", "validated": true, "ani": 77.6529, "matched_fragments": 129, "total_fragments": 1229, "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": 77.2445, "matched_fragments": 152, "total_fragments": 1229, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013415115.1", "gtdb_species": "s__Halomonas zhaodongensis", "ani": 100.0, "matched_fragments": 1228, "total_fragments": 1229, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.15", "min_intra_species_ani": "99.15", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_007116835.1", "gtdb_species": "s__Halomonas sp007116835", "ani": 87.4046, "matched_fragments": 470, "total_fragments": 1229, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "98.44", "mean_intra_species_af": "0.71", "min_intra_species_af": "0.71", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000219565.1", "gtdb_species": "s__Halomonas sp000219565", "ani": 86.7097, "matched_fragments": 989, "total_fragments": 1229, "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_002082565.1", "gtdb_species": "s__Halomonas sp002082565", "ani": 85.1551, "matched_fragments": 933, "total_fragments": 1229, "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_016107625.1", "gtdb_species": "s__Halomonas alkaliphila", "ani": 85.1492, "matched_fragments": 911, "total_fragments": 1229, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.32", "min_intra_species_ani": "95.46", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.80", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCF_000712975.1", "gtdb_species": "s__Halomonas alkaliantarctica_A", "ani": 84.2653, "matched_fragments": 829, "total_fragments": 1229, "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_007989605.1", "gtdb_species": "s__Halomonas venusta", "ani": 84.0292, "matched_fragments": 857, "total_fragments": 1229, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "96.64", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.83", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_003989795.1", "gtdb_species": "s__Halomonas andesensis", "ani": 83.1908, "matched_fragments": 797, "total_fragments": 1229, "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_003031405.1", "gtdb_species": "s__Halomonas sp003031405", "ani": 80.8607, "matched_fragments": 715, "total_fragments": 1229, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014640815.1", "gtdb_species": "s__Halomonas lutescens", "ani": 80.3462, "matched_fragments": 607, "total_fragments": 1229, "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": "GCA_002366715.1", "gtdb_species": "s__Halomonas sp002366715", "ani": 79.0917, "matched_fragments": 423, "total_fragments": 1229, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Vreelandella", "zhaodongensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }