{ "type": "genome", "identifier": "GCF_027924565.1", "organism": "Lysobacter auxotrophicus", "title": "Lysobacter auxotrophicus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shizuoka Institute of Science and Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_027924565.1", "bioproject": "PRJNA224116", "biosample": "SAMD00554065", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2992573", "species_taxid": "2992573", "organism_name": "Lysobacter auxotrophicus", "infraspecific_name": "strain=5-21a", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/11/21", "asm_name": "ASM2792456v1", "asm_submitter": "Shizuoka Institute of Science and Technology", "gbrs_paired_asm": "GCA_027924565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/027/924/565/GCF_027924565.1_ASM2792456v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4155451", "genome_size_ungapped": "4155451", "gc_percent": "68.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_027924565.1-RS_2024_05_06", "annotation_date": "2024-05-06", "total_gene_count": "3787", "protein_coding_gene_count": "3684", "non_coding_gene_count": "60", "pubmed_id": "37204832" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-11-21", "dateModified": "2022-11-21", "datePublished": "2022-11-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Lysobacter auxotrophicus" ], "sample_taxid": [ "2992573" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Shizuoka, Fujieda" ], "sample_host_location_id": [], "data_size": "1.118 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)": "4155451", "Number of Sequences": "1", "Longest Sequences (bp)": "4155451", "N50 (bp)": "4155451", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.9", "Number of CDSs": "3804", "Average Protein Length": "323.5", "Coding Ratio (%)": "88.8", "Number of rRNAs": "6", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lysobacter soli", "strain": "strain=KCTC 22011", "accession": "GCA_003382285.1", "taxid": 453783, "species_taxid": 453783, "relation_to_type": "type", "validated": true, "ani": 90.3067, "matched_fragments": 1143, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter panacisoli", "strain": "strain=JCM 19212", "accession": "GCA_009765165.1", "taxid": 1255263, "species_taxid": 1255263, "relation_to_type": "type", "validated": true, "ani": 85.9755, "matched_fragments": 1033, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter arenosi", "strain": "strain=R7", "accession": "GCA_016613475.2", "taxid": 2795387, "species_taxid": 2795387, "relation_to_type": "type", "validated": true, "ani": 84.0561, "matched_fragments": 912, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter niastensis", "strain": "strain=DSM 18481", "accession": "GCA_015453285.1", "taxid": 380629, "species_taxid": 380629, "relation_to_type": "type", "validated": true, "ani": 83.6042, "matched_fragments": 855, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter prati", "strain": "strain=SYSU H10001", "accession": "GCA_009765215.1", "taxid": 2596704, "species_taxid": 2596704, "relation_to_type": "type", "validated": true, "ani": 83.5695, "matched_fragments": 929, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vulcaniibacterium tengchongense", "strain": "strain=DSM 25623", "accession": "GCA_003814555.1", "taxid": 1273429, "species_taxid": 1273429, "relation_to_type": "type", "validated": true, "ani": 83.4018, "matched_fragments": 827, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vulcaniibacterium tengchongense", "strain": "strain=YIM 77520", "accession": "GCA_008033455.1", "taxid": 1273429, "species_taxid": 1273429, "relation_to_type": "type", "validated": true, "ani": 83.3557, "matched_fragments": 801, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter terrestris", "strain": "strain=II4", "accession": "GCA_014489475.1", "taxid": 2865112, "species_taxid": 2865112, "relation_to_type": "type", "validated": true, "ani": 82.6634, "matched_fragments": 750, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter silvisoli", "strain": "strain=zong2l5", "accession": "GCA_003382365.1", "taxid": 2293254, "species_taxid": 2293254, "relation_to_type": "type", "validated": true, "ani": 82.2674, "matched_fragments": 827, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter enzymogenes", "strain": "strain=ATCC 29487", "accession": "GCA_900106525.1", "taxid": 69, "species_taxid": 69, "relation_to_type": "suspected-type", "validated": true, "ani": 81.977, "matched_fragments": 831, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter arseniciresistens", "strain": "strain=ZS79", "accession": "GCA_000768335.1", "taxid": 1385522, "species_taxid": 1385522, "relation_to_type": "type", "validated": true, "ani": 81.9121, "matched_fragments": 632, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter capsici", "strain": "strain=VKM B-2533", "accession": "GCA_014779555.2", "taxid": 435897, "species_taxid": 435897, "relation_to_type": "type", "validated": true, "ani": 81.6696, "matched_fragments": 817, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter chinensis", "strain": "strain=TLK-CK17", "accession": "GCA_021725675.1", "taxid": 2912247, "species_taxid": 2912247, "relation_to_type": "type", "validated": true, "ani": 80.9512, "matched_fragments": 738, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermomonas aquatica", "strain": "strain=SY21", "accession": "GCA_006337105.1", "taxid": 2202149, "species_taxid": 2202149, "relation_to_type": "type", "validated": true, "ani": 80.843, "matched_fragments": 626, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003382285.1", "gtdb_species": "s__Lysobacter soli", "ani": 90.2853, "matched_fragments": 1145, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Lysobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.84", "min_intra_species_ani": "96.81", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_017308985.1", "gtdb_species": "s__Lysobacter sp017308985", "ani": 89.8512, "matched_fragments": 1132, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Lysobacter", "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_016735495.2", "gtdb_species": "s__Lysobacter sp016735495", "ani": 87.2485, "matched_fragments": 1088, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Lysobacter", "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_005503055.1", "gtdb_species": "s__Lysobacter sp005503055", "ani": 86.3879, "matched_fragments": 1067, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Lysobacter", "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_009765165.1", "gtdb_species": "s__Lysobacter panacisoli", "ani": 85.981, "matched_fragments": 1030, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Lysobacter", "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_903884235.1", "gtdb_species": "s__CAIYLH01 sp903884235", "ani": 76.1231, "matched_fragments": 199, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Steroidobacterales;f__Steroidobacteraceae;g__CAIYLH01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "99.08", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.88", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCA_003140315.1", "gtdb_species": "s__PALSA-894 sp003140315", "ani": 74.9895, "matched_fragments": 130, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Xanthobacteraceae;g__PALSA-894", "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": -0.352, "cell_length": 0.341, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 28.882, "optimum_ph": 7.253, "genome_size": 4192346.458, "gc_content": 68.113, "coding_genes": 4691.193, "rRNA16S_genes": 2.166, "tRNA_genes": 53.666, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.411, "range_salinity": null, "facultative_respiration": 0.117, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.882, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.882, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.058, "vibrio_cell_shape": 0.058, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Lysobacter", "auxotrophicus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }