{ "type": "genome", "identifier": "GCF_029094545.1", "organism": "Alkalihalophilus pseudofirmus", "title": "Alkalihalophilus pseudofirmus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Fujian Academy of Agricultural Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_029094545.1", "bioproject": "PRJNA224116", "biosample": "SAMN33041271", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "79885", "species_taxid": "79885", "organism_name": "Alkalihalophilus pseudofirmus", "infraspecific_name": "strain=DSM 8715", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/03/09", "asm_name": "ASM2909454v1", "asm_submitter": "Fujian Academy of Agricultural Sciences", "gbrs_paired_asm": "GCA_029094545.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/029/094/545/GCF_029094545.1_ASM2909454v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4239319", "genome_size_ungapped": "4239319", "gc_percent": "40.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_029094545.1-RS_2024_07_08", "annotation_date": "2024-07-08", "total_gene_count": "4391", "protein_coding_gene_count": "4226", "non_coding_gene_count": "121", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-03-09", "dateModified": "2023-03-09", "datePublished": "2023-03-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Alkalihalophilus pseudofirmus" ], "sample_taxid": [ "79885" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.200 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)": "4239319", "Number of Sequences": "2", "Longest Sequences (bp)": "4081481", "N50 (bp)": "4081481", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "39.8", "Number of CDSs": "4368", "Average Protein Length": "276.4", "Coding Ratio (%)": "85.4", "Number of rRNAs": "28", "Number of tRNAs": "88", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alkalihalophilus marmarensis", "strain": "strain=DSM 21297", "accession": "GCA_000474275.2", "taxid": 521377, "species_taxid": 521377, "relation_to_type": "type", "validated": true, "ani": 95.7969, "matched_fragments": 1155, "total_fragments": 1412, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Neobacillus drentensis", "strain": "strain=FJAT-10044", "accession": "GCA_001636415.1", "taxid": 220684, "species_taxid": 220684, "relation_to_type": "type", "validated": true, "ani": 80.2416, "matched_fragments": 58, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Peribacillus frigoritolerans", "strain": "strain=FJAT-2396", "accession": "GCA_001636405.1", "taxid": 450367, "species_taxid": 450367, "relation_to_type": "type", "validated": true, "ani": 80.184, "matched_fragments": 55, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Peribacillus frigoritolerans", "strain": "strain=DSM 8801", "accession": "GCA_024169475.1", "taxid": 450367, "species_taxid": 450367, "relation_to_type": "type", "validated": true, "ani": 80.1365, "matched_fragments": 66, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus nanhaiisediminis", "strain": "strain=CGMCC 1.10116", "accession": "GCA_007830185.1", "taxid": 688079, "species_taxid": 688079, "relation_to_type": "type", "validated": true, "ani": 78.1749, "matched_fragments": 186, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus akibai", "strain": "strain=JCM 9157", "accession": "GCA_000513135.1", "taxid": 1411, "species_taxid": 1411, "relation_to_type": "type", "validated": true, "ani": 77.9574, "matched_fragments": 181, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus akibai", "strain": "strain=JCM 9157", "accession": "GCA_001315085.1", "taxid": 1411, "species_taxid": 1411, "relation_to_type": "type", "validated": true, "ani": 77.935, "matched_fragments": 181, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus wakoensis", "strain": "strain=JCM 9140", "accession": "GCA_001315045.1", "taxid": 127891, "species_taxid": 127891, "relation_to_type": "type", "validated": true, "ani": 77.7666, "matched_fragments": 186, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus suaedae", "strain": "strain=YZJH907-2", "accession": "GCA_017939705.1", "taxid": 2822140, "species_taxid": 2822140, "relation_to_type": "type", "validated": true, "ani": 77.7553, "matched_fragments": 167, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus wakoensis", "strain": "strain=JCM 9140", "accession": "GCA_000513095.1", "taxid": 127891, "species_taxid": 127891, "relation_to_type": "type", "validated": true, "ani": 77.7146, "matched_fragments": 187, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus okhensis", "strain": "strain=Kh10-101", "accession": "GCA_000787375.1", "taxid": 333138, "species_taxid": 333138, "relation_to_type": "type", "validated": true, "ani": 77.6251, "matched_fragments": 205, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halalkalibacterium ligniniphilum", "strain": "strain=L1", "accession": "GCA_000334155.1", "taxid": 1134413, "species_taxid": 1134413, "relation_to_type": "type", "validated": true, "ani": 77.4504, "matched_fragments": 129, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoneobacillus rhizosphaerae", "strain": "strain=CIP 111885", "accession": "GCA_917563885.1", "taxid": 2880968, "species_taxid": 2880968, "relation_to_type": "type", "validated": true, "ani": 77.2546, "matched_fragments": 52, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desertibacillus haloalkaliphilus", "strain": "strain=KJ1-10-99", "accession": "GCA_019039105.1", "taxid": 1328930, "species_taxid": 1328930, "relation_to_type": "type", "validated": true, "ani": 77.1037, "matched_fragments": 106, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacterium elongatum", "strain": "strain=MEB199", "accession": "GCA_019024285.1", "taxid": 2675466, "species_taxid": 2675466, "relation_to_type": "type", "validated": true, "ani": 77.0333, "matched_fragments": 127, "total_fragments": 1412, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000005825.2", "gtdb_species": "s__Bacillus_S pseudofirmus", "ani": 97.0606, "matched_fragments": 1195, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S", "ani_circumscription_radius": 95.9507, "mean_intra_species_ani": "97.22", "min_intra_species_ani": "97.22", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000474275.2", "gtdb_species": "s__Bacillus_S marmarensis", "ani": 95.7969, "matched_fragments": 1155, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S", "ani_circumscription_radius": 95.9507, "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_002797325.1", "gtdb_species": "s__Bacillus_S sp002797325", "ani": 80.0231, "matched_fragments": 437, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S", "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_002797395.1", "gtdb_species": "s__45385 sp002797395", "ani": 78.9199, "matched_fragments": 169, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__45385", "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_002156385.1", "gtdb_species": "s__45385 sp002156385", "ani": 78.7909, "matched_fragments": 171, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__45385", "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_002335805.1", "gtdb_species": "s__FJAT-45350 sp002335805", "ani": 78.7861, "matched_fragments": 139, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_F;g__FJAT-45350", "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_007830185.1", "gtdb_species": "s__Bacillus_L nanhaiisediminis", "ani": 78.1638, "matched_fragments": 188, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "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_000513135.1", "gtdb_species": "s__Bacillus_L akibai", "ani": 77.9935, "matched_fragments": 178, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "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_017939705.1", "gtdb_species": "s__Bacillus_L sp017939705", "ani": 77.8083, "matched_fragments": 165, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "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_000513095.1", "gtdb_species": "s__Bacillus_L wakoensis", "ani": 77.7715, "matched_fragments": 183, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000787375.1", "gtdb_species": "s__Bacillus_L okhensis", "ani": 77.6566, "matched_fragments": 201, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "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_019024285.1", "gtdb_species": "s__Bacillus_BH sp019024285", "ani": 77.0078, "matched_fragments": 125, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_F;g__Bacillus_BH", "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_013314535.1", "gtdb_species": "s__Bacillus_A sp013314535", "ani": 76.5329, "matched_fragments": 73, "total_fragments": 1412, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "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": [ "Alkalihalophilus", "pseudofirmus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }