{ "type": "genome", "identifier": "GCF_015472005.1", "organism": "Insulibacter thermoxylanivorax", "title": "Insulibacter thermoxylanivorax", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Japan International Research Center for Agricultural Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_015472005.1", "bioproject": "PRJNA224116", "biosample": "SAMD00235398", "wgs_master": "BMAQ00000000.1", "refseq_category": "reference genome", "taxid": "2749268", "species_taxid": "2749268", "organism_name": "Insulibacter thermoxylanivorax", "infraspecific_name": "strain=DA-C8", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/29", "asm_name": "ASM1547200v1", "asm_submitter": "Japan International Research Center for Agricultural Sciences", "gbrs_paired_asm": "GCA_015472005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/015/472/005/GCF_015472005.1_ASM1547200v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3110565", "genome_size_ungapped": "3110565", "gc_percent": "52.500000", "replicon_count": "0", "scaffold_count": "69", "contig_count": "69", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_015472005.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "2902", "protein_coding_gene_count": "2775", "non_coding_gene_count": "64", "pubmed_id": "33553530" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-29", "dateModified": "2020-10-29", "datePublished": "2020-10-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Insulibacter thermoxylanivorax" ], "sample_taxid": [ "2749268" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Okinawa, Ishigaki Island" ], "sample_host_location_id": [], "data_size": "0.887 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)": "3110565", "Number of Sequences": "69", "Longest Sequences (bp)": "280059", "N50 (bp)": "108510", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.3", "Number of CDSs": "2876", "Average Protein Length": "304.2", "Coding Ratio (%)": "84.4", "Number of rRNAs": "2", "Number of tRNAs": "55", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Xylanibacillus composti", "strain": "strain=K13", "accession": "GCA_018403685.1", "taxid": 1572762, "species_taxid": 1572762, "relation_to_type": "type", "validated": true, "ani": 76.8822, "matched_fragments": 55, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus ginsengihumi", "strain": "strain=DSM 21568", "accession": "GCA_000380965.1", "taxid": 431596, "species_taxid": 431596, "relation_to_type": "type", "validated": true, "ani": 76.7934, "matched_fragments": 84, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cohnella lubricantis", "strain": "strain=DSM 103658", "accession": "GCA_017874835.1", "taxid": 2163172, "species_taxid": 2163172, "relation_to_type": "type", "validated": true, "ani": 76.3891, "matched_fragments": 84, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cohnella lubricantis", "strain": "strain=DSM 103658", "accession": "GCA_014212015.1", "taxid": 2163172, "species_taxid": 2163172, "relation_to_type": "type", "validated": true, "ani": 76.362, "matched_fragments": 84, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus tepidiphilus", "strain": "strain=SYSU G01001", "accession": "GCA_008635795.1", "taxid": 2608683, "species_taxid": 2608683, "relation_to_type": "type", "validated": true, "ani": 76.2824, "matched_fragments": 55, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus doosanensis", "strain": "strain=CAU 1055", "accession": "GCA_025060755.1", "taxid": 1229154, "species_taxid": 1229154, "relation_to_type": "type", "validated": true, "ani": 76.1435, "matched_fragments": 62, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus artemisiicola", "strain": "strain=MWE-103", "accession": "GCA_017652985.1", "taxid": 1172618, "species_taxid": 1172618, "relation_to_type": "type", "validated": true, "ani": 76.1171, "matched_fragments": 86, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cohnella panacarvi", "strain": "strain=Gsoil 349", "accession": "GCA_000515335.1", "taxid": 400776, "species_taxid": 400776, "relation_to_type": "type", "validated": true, "ani": 76.066, "matched_fragments": 52, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus tyrfis", "strain": "strain=MSt1", "accession": "GCA_000722545.1", "taxid": 1501230, "species_taxid": 1501230, "relation_to_type": "type", "validated": true, "ani": 76.0585, "matched_fragments": 61, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus macerans", "strain": "strain=ATCC 8244", "accession": "GCA_000746875.1", "taxid": 44252, "species_taxid": 44252, "relation_to_type": "type", "validated": true, "ani": 76.0522, "matched_fragments": 64, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus popilliae", "strain": "strain=ATCC 14706", "accession": "GCA_000315235.1", "taxid": 78057, "species_taxid": 78057, "relation_to_type": "type", "validated": true, "ani": 76.0283, "matched_fragments": 52, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus lycopersici", "strain": "strain=12200R-189", "accession": "GCA_010119935.1", "taxid": 2704462, "species_taxid": 2704462, "relation_to_type": "type", "validated": true, "ani": 76.0096, "matched_fragments": 80, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cohnella xylanilytica", "strain": "strain=DSM 25239", "accession": "GCA_014212175.1", "taxid": 557555, "species_taxid": 557555, "relation_to_type": "type", "validated": true, "ani": 75.9736, "matched_fragments": 85, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus phocaensis", "strain": "strain=mt24", "accession": "GCA_900021165.1", "taxid": 1776378, "species_taxid": 1776378, "relation_to_type": "type", "validated": true, "ani": 75.9597, "matched_fragments": 67, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus thermoaerophilus", "strain": "strain=DSM 26310", "accession": "GCA_005938195.1", "taxid": 1215385, "species_taxid": 1215385, "relation_to_type": "type", "validated": true, "ani": 75.9518, "matched_fragments": 69, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus daejeonensis", "strain": "strain=DSM 15491", "accession": "GCA_000378385.1", "taxid": 135193, "species_taxid": 135193, "relation_to_type": "type", "validated": true, "ani": 75.7544, "matched_fragments": 50, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus piscarius", "strain": "strain=P121", "accession": "GCA_022234545.1", "taxid": 1089681, "species_taxid": 1089681, "relation_to_type": "type", "validated": true, "ani": 75.6867, "matched_fragments": 67, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus glycinis", "strain": "strain=T1", "accession": "GCA_009909185.1", "taxid": 2697035, "species_taxid": 2697035, "relation_to_type": "type", "validated": true, "ani": 75.6788, "matched_fragments": 82, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus phyllosphaerae", "strain": "strain=CECT 5862", "accession": "GCA_014192105.1", "taxid": 274593, "species_taxid": 274593, "relation_to_type": "type", "validated": true, "ani": 75.3762, "matched_fragments": 83, "total_fragments": 1008, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015472005.1", "gtdb_species": "s__DA-C8 sp015472005", "ani": 100.0, "matched_fragments": 1006, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__DA-C8;g__DA-C8", "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": "conclusive" }, { "accession": "GCF_018403685.1", "gtdb_species": "s__Xylanibacillus composti", "ani": 76.8822, "matched_fragments": 55, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__K13;g__Xylanibacillus", "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_000380965.1", "gtdb_species": "s__Paenibacillus_M ginsengihumi", "ani": 76.7934, "matched_fragments": 84, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__Paenibacillus_M", "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_008710135.1", "gtdb_species": "s__Paenibacillus spiritus", "ani": 76.3676, "matched_fragments": 69, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus", "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_014212015.1", "gtdb_species": "s__Cohnella lubricantis", "ani": 76.362, "matched_fragments": 84, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Cohnella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_008635795.1", "gtdb_species": "s__Paenibacillus tepidiphilus", "ani": 76.3418, "matched_fragments": 56, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus", "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_900113915.1", "gtdb_species": "s__Paenibacillus_Z sp900113915", "ani": 76.1516, "matched_fragments": 82, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_Z", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.39", "min_intra_species_ani": "96.39", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018403265.1", "gtdb_species": "s__J31TS4 sp018403265", "ani": 76.1334, "matched_fragments": 66, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__J31TS4", "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_000250655.1", "gtdb_species": "s__Paenibacillus_G mucilaginosus", "ani": 76.0642, "matched_fragments": 83, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__Paenibacillus_G", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000722545.1", "gtdb_species": "s__Paenibacillus_G tyrfis", "ani": 76.0585, "matched_fragments": 61, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__Paenibacillus_G", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.07", "min_intra_species_ani": "98.07", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000515335.1", "gtdb_species": "s__Cohnella panacarvi", "ani": 76.0478, "matched_fragments": 51, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Cohnella", "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_000315235.1", "gtdb_species": "s__Paenibacillus_B popilliae", "ani": 76.0283, "matched_fragments": 52, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_B", "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_005938195.1", "gtdb_species": "s__Paenibacillus_W thermoaerophilus", "ani": 75.9733, "matched_fragments": 68, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Reconcilibacillaceae;g__Paenibacillus_W", "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_910593845.1", "gtdb_species": "s__Paenibacillus_G solanacearum", "ani": 75.9366, "matched_fragments": 50, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__Paenibacillus_G", "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_014212135.1", "gtdb_species": "s__Cohnella thailandensis", "ani": 75.815, "matched_fragments": 75, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Cohnella", "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": "-" }, { "accession": "GCA_900766135.1", "gtdb_species": "s__Paenibacillus_A sp900766135", "ani": 75.7978, "matched_fragments": 53, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_A", "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_001685395.1", "gtdb_species": "s__Paenibacillus_A yonginensis", "ani": 75.7806, "matched_fragments": 50, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_A", "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_009909185.1", "gtdb_species": "s__Paenibacillus_Z glycinis", "ani": 75.6788, "matched_fragments": 82, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_Z", "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_014192105.1", "gtdb_species": "s__Paenibacillus_Z phyllosphaerae", "ani": 75.3565, "matched_fragments": 82, "total_fragments": 1008, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_Z", "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": [ "Insulibacter", "thermoxylanivorax" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }