{ "type": "genome", "identifier": "GCF_013359935.1", "organism": "Paenibacillus xylanilyticus", "title": "Paenibacillus xylanilyticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Indigo Agriculture", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013359935.1", "bioproject": "PRJNA224116", "biosample": "SAMN14931883", "wgs_master": "JABMCB000000000.1", "refseq_category": "reference genome", "taxid": "248903", "species_taxid": "248903", "organism_name": "Paenibacillus xylanilyticus", "infraspecific_name": "strain=LMG 21957", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/18", "asm_name": "ASM1335993v1", "asm_submitter": "Indigo Agriculture", "gbrs_paired_asm": "GCA_013359935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/359/935/GCF_013359935.1_ASM1335993v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7424532", "genome_size_ungapped": "7424532", "gc_percent": "46.500000", "replicon_count": "0", "scaffold_count": "206", "contig_count": "206", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013359935.1-RS_2024_09_29", "annotation_date": "2024-09-29", "total_gene_count": "6972", "protein_coding_gene_count": "6665", "non_coding_gene_count": "189", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-18", "dateModified": "2020-06-18", "datePublished": "2020-06-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Paenibacillus xylanilyticus" ], "sample_taxid": [ "248903" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain:Salamanca" ], "sample_host_location_id": [], "data_size": "2.126 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)": "7424532", "Number of Sequences": "206", "Longest Sequences (bp)": "923084", "N50 (bp)": "266074", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "46.3", "Number of CDSs": "6807", "Average Protein Length": "307.1", "Coding Ratio (%)": "84.5", "Number of rRNAs": "8", "Number of tRNAs": "108", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paenibacillus xylanilyticus", "strain": "strain=LMG 21957", "accession": "GCA_013359935.1", "taxid": 248903, "species_taxid": 248903, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2413, "total_fragments": 2416, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Paenibacillus illinoisensis", "strain": "strain=NBRC 15959", "accession": "GCA_004000925.1", "taxid": 59845, "species_taxid": 59845, "relation_to_type": "type", "validated": true, "ani": 87.3422, "matched_fragments": 1826, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus pabuli", "strain": "strain=NBRC 13638", "accession": "GCA_001514495.1", "taxid": 1472, "species_taxid": 1472, "relation_to_type": "suspected-type", "validated": true, "ani": 83.2657, "matched_fragments": 1460, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus xylanivorans", "strain": "strain=A59", "accession": "GCA_001280595.1", "taxid": 1705561, "species_taxid": 1705561, "relation_to_type": "type", "validated": true, "ani": 83.0176, "matched_fragments": 1394, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus taichungensis", "strain": "strain=DSM 19942", "accession": "GCA_013359905.1", "taxid": 484184, "species_taxid": 484184, "relation_to_type": "type", "validated": true, "ani": 82.9287, "matched_fragments": 1421, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus amylolyticus", "strain": "strain=NBRC 15957", "accession": "GCA_004001025.1", "taxid": 1451, "species_taxid": 1451, "relation_to_type": "suspected-type", "validated": true, "ani": 82.5253, "matched_fragments": 1303, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus xylanexedens", "strain": "strain=DSM 21292", "accession": "GCA_017874615.1", "taxid": 528191, "species_taxid": 528191, "relation_to_type": "suspected-type", "validated": true, "ani": 82.4546, "matched_fragments": 1305, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus barcinonensis", "strain": "strain=CECT 7022", "accession": "GCA_003217495.1", "taxid": 198119, "species_taxid": 198119, "relation_to_type": "type", "validated": true, "ani": 80.9989, "matched_fragments": 897, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus polysaccharolyticus", "strain": "strain=BL9", "accession": "GCA_900102085.1", "taxid": 582692, "species_taxid": 582692, "relation_to_type": "type", "validated": true, "ani": 80.9549, "matched_fragments": 942, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus segetis", "strain": "strain=CGMCC 1.12769", "accession": "GCA_014639155.1", "taxid": 1325360, "species_taxid": 1325360, "relation_to_type": "type", "validated": true, "ani": 77.9238, "matched_fragments": 119, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus faecalis", "strain": "strain=Marseille-P3787", "accession": "GCA_900289175.1", "taxid": 2079532, "species_taxid": 2079532, "relation_to_type": "type", "validated": true, "ani": 77.7346, "matched_fragments": 137, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus agri", "strain": "strain=JW14", "accession": "GCA_013359945.1", "taxid": 2744309, "species_taxid": 2744309, "relation_to_type": "type", "validated": true, "ani": 77.6619, "matched_fragments": 173, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus selenitireducens", "strain": "strain=ES3-24", "accession": "GCA_002021565.1", "taxid": 1324314, "species_taxid": 1324314, "relation_to_type": "type", "validated": true, "ani": 77.5533, "matched_fragments": 118, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus plantarum", "strain": "strain=LMG 31461", "accession": "GCA_013141695.1", "taxid": 2654975, "species_taxid": 2654975, "relation_to_type": "type", "validated": true, "ani": 77.1827, "matched_fragments": 75, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus swuensis", "strain": "strain=DY6", "accession": "GCA_001644605.1", "taxid": 1178515, "species_taxid": 1178515, "relation_to_type": "type", "validated": true, "ani": 76.6252, "matched_fragments": 63, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus lignilyticus", "strain": "strain=DLE-14", "accession": "GCA_017942085.1", "taxid": 1172615, "species_taxid": 1172615, "relation_to_type": "type", "validated": true, "ani": 76.601, "matched_fragments": 88, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus foliorum", "strain": "strain=LMG 31456", "accession": "GCA_013141765.1", "taxid": 2654974, "species_taxid": 2654974, "relation_to_type": "type", "validated": true, "ani": 76.4893, "matched_fragments": 69, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus curdlanolyticus", "strain": "strain=YK9", "accession": "GCA_000179615.1", "taxid": 59840, "species_taxid": 59840, "relation_to_type": "type", "validated": true, "ani": 76.3348, "matched_fragments": 73, "total_fragments": 2416, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013359935.1", "gtdb_species": "s__Paenibacillus xylanilyticus", "ani": 100.0, "matched_fragments": 2413, "total_fragments": 2416, "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": "conclusive" }, { "accession": "GCF_004000925.1", "gtdb_species": "s__Paenibacillus illinoisensis", "ani": 87.3326, "matched_fragments": 1828, "total_fragments": 2416, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.55", "min_intra_species_ani": "95.10", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.77", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_000499205.1", "gtdb_species": "s__Paenibacillus sp000499205", "ani": 83.7949, "matched_fragments": 1488, "total_fragments": 2416, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.89", "min_intra_species_ani": "98.31", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_014844075.1", "gtdb_species": "s__Paenibacillus sp014844075", "ani": 83.3466, "matched_fragments": 1452, "total_fragments": 2416, "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_001514495.1", "gtdb_species": "s__Paenibacillus pabuli", "ani": 83.2584, "matched_fragments": 1462, "total_fragments": 2416, "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, 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"coding_genes": 5381.029, "rRNA16S_genes": 10.237, "tRNA_genes": 93.313, "gram_stain": 1.0, "sporulation": 1.0, "motility": 1.0, "range_salinity": 0.0, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.9, "thermophilic_range_tmp": 0.033, "psychrophilic_range_tmp": 0.066, "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 }, "_genome_taxon": [ "Paenibacillus", "xylanilyticus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }