{ "type": "genome", "identifier": "GCA_002376495.1", "organism": "Lysinibacillus sp. UBA3551", "title": "Lysinibacillus sp. UBA3551", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Queensland", "publication": [ {} ], "properties": { "assembly_accession": "GCA_002376495.1", "bioproject": "PRJNA348753", "biosample": "SAMN06456093", "wgs_master": "DFOC00000000.1", "refseq_category": "na", "taxid": "1946772", "species_taxid": "1946772", "organism_name": "Lysinibacillus sp. UBA3551", "infraspecific_name": "", "isolate": "UBA3551", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/09/27", "asm_name": "ASM237649v1", "submitter": "University of Queensland", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/376/495/GCA_002376495.1_ASM237649v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-09-27", "dateModified": "2017-09-27", "datePublished": "2017-09-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Lysinibacillus sp. UBA3551" ], "sample_taxid": [ "1946772" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:New York City" ], "sample_host_location_id": [], "data_size": "1.343 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 90.74, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4726120", "Number of Sequences": "246", "Longest Sequences (bp)": "101751", "N50 (bp)": "25004", "Gap Ratio (%)": "0.664033", "GCcontent (%)": "36.4", "Number of CDSs": "4845", "Average Protein Length": "251.9", "Coding Ratio (%)": "77.5", "Number of rRNAs": "1", "Number of tRNAs": "17", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lysinibacillus xylanilyticus", "strain": "strain=DSM 23493", "accession": "GCA_001183605.1", "taxid": 582475, "species_taxid": 582475, "relation_to_type": "type", "validated": true, "ani": 95.9722, "matched_fragments": 1295, "total_fragments": 1449, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lysinibacillus agricola", "strain": "strain=FJAT-51161", "accession": "GCA_016638705.1", "taxid": 2590012, "species_taxid": 2590012, "relation_to_type": "type", "validated": true, "ani": 89.6073, "matched_fragments": 1092, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus cavernae", "strain": "strain=SYSU K30005", "accession": "GCA_009724685.1", "taxid": 2666135, "species_taxid": 2666135, "relation_to_type": "type", "validated": true, "ani": 82.1964, "matched_fragments": 827, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus parviboronicapiens", "strain": "strain=BAM-582", "accession": "GCA_003049575.1", "taxid": 436516, "species_taxid": 436516, "relation_to_type": "type", "validated": true, "ani": 81.9128, "matched_fragments": 837, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus capsici", "strain": "strain=PB300", "accession": "GCA_003367505.1", "taxid": 2115968, "species_taxid": 2115968, "relation_to_type": "type", "validated": true, "ani": 81.8631, "matched_fragments": 788, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus fusiformis", "strain": "strain=ATCC 7055", "accession": "GCA_003049525.1", "taxid": 28031, "species_taxid": 28031, "relation_to_type": "type", "validated": true, "ani": 81.7751, "matched_fragments": 807, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus mangiferihumi", "strain": "strain=CCTCC AB 2010389", "accession": "GCA_005217845.1", "taxid": 1130819, "species_taxid": 1130819, "relation_to_type": "type", "validated": true, "ani": 81.7543, "matched_fragments": 729, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus mangiferihumi", "strain": "strain=M-GX18", "accession": "GCA_003049665.1", "taxid": 1130819, "species_taxid": 1130819, "relation_to_type": "type", "validated": true, "ani": 81.7141, "matched_fragments": 737, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus fusiformis", "strain": "strain=NBRC 15717", "accession": "GCA_006540205.1", "taxid": 28031, "species_taxid": 28031, "relation_to_type": "type", "validated": true, "ani": 81.6808, "matched_fragments": 797, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus tabacifolii", "strain": "strain=KCTC 33042", "accession": "GCA_005217585.1", "taxid": 1173107, "species_taxid": 1173107, "relation_to_type": "suspected-type", "validated": true, "ani": 81.5752, "matched_fragments": 727, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus sphaericus", "strain": "strain=NBRC 15095", "accession": "GCA_006539805.1", "taxid": 1421, "species_taxid": 1421, "relation_to_type": "suspected-type", "validated": true, "ani": 81.5658, "matched_fragments": 739, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus varians", "strain": "strain=NBRC 109424", "accession": "GCA_005217815.1", "taxid": 1145276, "species_taxid": 1145276, "relation_to_type": "suspected-type", "validated": true, "ani": 81.5584, "matched_fragments": 722, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus varians", "strain": "strain=GY32", "accession": "GCA_000600105.1", "taxid": 1145276, "species_taxid": 1145276, "relation_to_type": "suspected-type", "validated": true, "ani": 81.51, "matched_fragments": 730, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus contaminans", "strain": "strain=DSM 25560", "accession": "GCA_001278945.1", "taxid": 1293441, "species_taxid": 1293441, "relation_to_type": "type", "validated": true, "ani": 80.1554, "matched_fragments": 521, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solibacillus faecavium", "strain": "strain=A46", "accession": "GCA_014836905.1", "taxid": 2762221, "species_taxid": 2762221, "relation_to_type": "type", "validated": true, "ani": 77.7475, "matched_fragments": 193, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solibacillus merdavium", "strain": "strain=Sa1YVA6", "accession": "GCA_014836935.1", "taxid": 2762218, "species_taxid": 2762218, "relation_to_type": "type", "validated": true, "ani": 77.6061, "matched_fragments": 198, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus gaemokensis", "strain": "strain=JCM 15801", "accession": "GCA_000712615.1", "taxid": 574375, "species_taxid": 574375, "relation_to_type": "type", "validated": true, "ani": 76.7915, "matched_fragments": 92, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus gaemokensis", "strain": "strain=KCTC 13318", "accession": "GCA_001590835.1", "taxid": 574375, "species_taxid": 574375, "relation_to_type": "type", "validated": true, "ani": 76.6954, "matched_fragments": 98, "total_fragments": 1449, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 90.74, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001183605.1", "gtdb_species": "s__Lysinibacillus xylanilyticus", "ani": 95.9722, "matched_fragments": 1295, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.05", "min_intra_species_ani": "95.97", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_006864135.1", "gtdb_species": "s__Lysinibacillus sp006864135", "ani": 91.2365, "matched_fragments": 1183, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.97", "min_intra_species_ani": "95.97", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001275675.1", "gtdb_species": "s__Lysinibacillus sp001275675", "ani": 91.2261, "matched_fragments": 1179, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "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_002237755.1", "gtdb_species": "s__Lysinibacillus sp002237755", "ani": 89.6044, "matched_fragments": 1200, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.32", "min_intra_species_ani": "95.08", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_016638705.1", "gtdb_species": "s__Lysinibacillus sp001278875", "ani": 89.5834, "matched_fragments": 1094, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001708185.1", "gtdb_species": "s__Lysinibacillus xylanilyticus_A", "ani": 88.0746, "matched_fragments": 1109, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "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_002973635.1", "gtdb_species": "s__Lysinibacillus sp002973635", "ani": 83.2328, "matched_fragments": 940, "total_fragments": 1449, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "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": -0.083, "cell_length": 0.466, "doubling_h": null, "growth_tmp": 30.812, "optimum_tmp": 31.818, "optimum_ph": 7.361, "genome_size": 4462064.672, "gc_content": 38.136, "coding_genes": 4438.19, "rRNA16S_genes": 11.166, "tRNA_genes": 100.944, "gram_stain": 0.875, "sporulation": 1.0, "motility": 0.916, "range_salinity": 0.5, "facultative_respiration": 0.083, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.916, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Bacillales_A", "f__Planococcaceae", "g__Lysinibacillus", "s__Lysinibacillus xylanilyticus" ], "_genome_taxon": [ "Lysinibacillus", "sp.", "UBA3551", "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Bacillales_A", "f__Planococcaceae", "g__Lysinibacillus", "s__Lysinibacillus xylanilyticus", "Bacteria", "Bacillota", "Bacilli", "Bacillales", "A", "Planococcaceae", "Lysinibacillus", "Lysinibacillus", "xylanilyticus" ], "_meo": [ { "id": "MEO_0000419", "label": "plant body associated" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }