{ "type": "genome", "identifier": "GCF_017873765.1", "organism": "Paenibacillus sediminis", "title": "Paenibacillus sediminis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017873765.1", "bioproject": "PRJNA224116", "biosample": "SAMN18250257", "wgs_master": "JAGGKP000000000.1", "refseq_category": "reference genome", "taxid": "664909", "species_taxid": "664909", "organism_name": "Paenibacillus sediminis", "infraspecific_name": "strain=DSM 23491", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/08", "asm_name": "ASM1787376v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_017873765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/873/765/GCF_017873765.1_ASM1787376v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3608107", "genome_size_ungapped": "3608107", "gc_percent": "43.000000", "replicon_count": "0", "scaffold_count": "32", "contig_count": "32", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017873765.1-RS_2024_04_29", "annotation_date": "2024-04-29", "total_gene_count": "3592", "protein_coding_gene_count": "3443", "non_coding_gene_count": "86", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-08", "dateModified": "2021-04-08", "datePublished": "2021-04-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Paenibacillus sediminis" ], "sample_taxid": [ "664909" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.032 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)": "3608107", "Number of Sequences": "32", "Longest Sequences (bp)": "1458905", "N50 (bp)": "243405", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "43.1", "Number of CDSs": "3560", "Average Protein Length": "295.7", "Coding Ratio (%)": "87.5", "Number of rRNAs": "1", "Number of tRNAs": "71", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paenibacillus sediminis", "strain": "strain=DSM 23491", "accession": "GCA_017873765.1", "taxid": 664909, "species_taxid": 664909, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1190, "total_fragments": 1190, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Paenibacillus tuaregi", "strain": "strain=Marseille-P2472", "accession": "GCA_900086655.1", "taxid": 1816681, "species_taxid": 1816681, "relation_to_type": "type", "validated": true, "ani": 77.7182, "matched_fragments": 104, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fontibacillus panacisegetis", "strain": "strain=DSM 28129", "accession": "GCA_900102215.1", "taxid": 670482, "species_taxid": 670482, "relation_to_type": "type", "validated": true, "ani": 77.7115, "matched_fragments": 123, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus turicensis", "strain": "strain=DSM 14349", "accession": "GCA_017873435.1", "taxid": 160487, "species_taxid": 160487, "relation_to_type": "type", "validated": true, "ani": 77.6869, "matched_fragments": 90, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus zeisoli", "strain": "strain=3-5-3", "accession": "GCA_003994465.1", "taxid": 2496267, "species_taxid": 2496267, "relation_to_type": "type", "validated": true, "ani": 77.6178, "matched_fragments": 117, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus dakarensis", "strain": "strain=FF9", "accession": "GCA_001373415.1", "taxid": 1527293, "species_taxid": 1527293, "relation_to_type": "type", "validated": true, "ani": 77.5964, "matched_fragments": 132, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus xylanilyticus", "strain": "strain=LMG 21957", "accession": "GCA_013359935.1", "taxid": 248903, "species_taxid": 248903, "relation_to_type": "type", "validated": true, "ani": 77.3461, "matched_fragments": 124, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus chibensis", "strain": "strain=NBRC 15958", "accession": "GCA_004001045.1", "taxid": 59846, "species_taxid": 59846, "relation_to_type": "type", "validated": true, "ani": 77.3273, "matched_fragments": 126, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus glucanolyticus", "strain": "strain=NBRC 15330", "accession": "GCA_004000885.1", "taxid": 59843, "species_taxid": 59843, "relation_to_type": "type", "validated": true, "ani": 77.3135, "matched_fragments": 111, "total_fragments": 1190, "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": 77.2861, "matched_fragments": 101, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus fonticola", "strain": "strain=DSM 21315", "accession": "GCA_000381905.1", "taxid": 379896, "species_taxid": 379896, "relation_to_type": "type", "validated": true, "ani": 77.2399, "matched_fragments": 119, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus borealis", "strain": "strain=DSM 13188", "accession": "GCA_000758665.1", "taxid": 160799, "species_taxid": 160799, "relation_to_type": "type", "validated": true, "ani": 77.1928, "matched_fragments": 89, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus pini", "strain": "strain=JCM 16418", "accession": "GCA_000576305.1", "taxid": 669461, "species_taxid": 669461, "relation_to_type": "type", "validated": true, "ani": 77.1647, "matched_fragments": 147, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus terrigena", "strain": "strain=DSM 21567", "accession": "GCA_000374845.1", "taxid": 369333, "species_taxid": 369333, "relation_to_type": "type", "validated": true, "ani": 77.1454, "matched_fragments": 111, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus lactis", "strain": "strain=DSM 15596", "accession": "GCA_017873605.1", "taxid": 228574, "species_taxid": 228574, "relation_to_type": "type", "validated": true, "ani": 77.1432, "matched_fragments": 118, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus antarcticus", "strain": "strain=CECT 5836", "accession": "GCA_001637225.1", "taxid": 253703, "species_taxid": 253703, "relation_to_type": "type", "validated": true, "ani": 77.1229, "matched_fragments": 117, "total_fragments": 1190, "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": 77.106, "matched_fragments": 109, "total_fragments": 1190, "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": 77.0799, "matched_fragments": 112, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus donghaensis", "strain": "strain=KCTC 13049", "accession": "GCA_002192415.1", "taxid": 414771, "species_taxid": 414771, "relation_to_type": "type", "validated": true, "ani": 77.0695, "matched_fragments": 74, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus glycanilyticus subsp. hiroshimensis", "strain": "strain=CCI5", "accession": "GCA_015473105.1", "taxid": 2805378, "species_taxid": 126569, "relation_to_type": "type", "validated": true, "ani": 76.9555, "matched_fragments": 63, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus phytohabitans", "strain": "strain=LMG 31459", "accession": "GCA_013141775.1", "taxid": 2654978, "species_taxid": 2654978, "relation_to_type": "type", "validated": true, "ani": 76.6297, "matched_fragments": 86, "total_fragments": 1190, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017873765.1", "gtdb_species": "s__Paenibacillus_AG sediminis", "ani": 100.0, "matched_fragments": 1190, "total_fragments": 1190, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_AG", "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_018918005.1", "gtdb_species": "s__MSJ-34 sp018918005", "ani": 79.1267, "matched_fragments": 96, "total_fragments": 1190, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__MSJ-34", "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_900086655.1", "gtdb_species": "s__Paenibacillus_A tuaregi", "ani": 77.7162, "matched_fragments": 102, "total_fragments": 1190, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.53", "min_intra_species_ani": "97.06", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { 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"gtdb_species": "s__Paenibacillus_A zeisoli", "ani": 77.6178, "matched_fragments": 117, "total_fragments": 1190, "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_018403225.1", "gtdb_species": "s__Paenibacillus sp018403225", "ani": 77.4455, "matched_fragments": 147, "total_fragments": 1190, "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_000758545.1", "gtdb_species": "s__Paenibacillus sp000758545", "ani": 77.3573, "matched_fragments": 95, "total_fragments": 1190, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.87", "min_intra_species_ani": "97.65", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_004000885.1", "gtdb_species": "s__Paenibacillus glucanolyticus", "ani": 77.338, "matched_fragments": 110, "total_fragments": 1190, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.37", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_004001045.1", "gtdb_species": "s__Paenibacillus chibensis", "ani": 77.3273, "matched_fragments": 126, "total_fragments": 1190, "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_009807035.1", "gtdb_species": "s__Paenibacillus sp009807035", "ani": 77.3019, "matched_fragments": 153, "total_fragments": 1190, "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_002573715.1", "gtdb_species": "s__Paenibacillus sp002573715", "ani": 77.2938, "matched_fragments": 125, "total_fragments": 1190, "gtdb_taxonomy": 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