{ "type": "genome", "identifier": "GCF_001306115.1", "organism": "Ornatilinea apprima", "title": "Ornatilinea apprima", "description": "na", "data type": "Genome sequencing and assembly", "organization": "California Institute of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001306115.1", "bioproject": "PRJNA224116", "biosample": "SAMN03856825", "wgs_master": "LGCL00000000.1", "refseq_category": "reference genome", "taxid": "1134406", "species_taxid": "1134406", "organism_name": "Ornatilinea apprima", "infraspecific_name": "strain=P3M-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/10/02", "asm_name": "ASM130611v1", "asm_submitter": "California Institute of Technology", "gbrs_paired_asm": "GCA_001306115.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/306/115/GCF_001306115.1_ASM130611v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4338330", "genome_size_ungapped": "4338330", "gc_percent": "55.000000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001306115.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "3879", "protein_coding_gene_count": "3788", "non_coding_gene_count": "61", "pubmed_id": "26586890" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-10-02", "dateModified": "2015-10-02", "datePublished": "2015-10-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Ornatilinea apprima" ], "sample_taxid": [ "1134406" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: Tomsk region of western Siberia" ], "sample_host_location_id": [], "data_size": "1.224 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)": "4338330", "Number of Sequences": "45", "Longest Sequences (bp)": "427120", "N50 (bp)": "219703", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.0", "Number of CDSs": "3803", "Average Protein Length": "338.4", "Coding Ratio (%)": "89.0", "Number of rRNAs": "6", "Number of tRNAs": "51", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ornatilinea apprima", "strain": "strain=P3M-1", "accession": "GCA_001306115.1", "taxid": 1134406, "species_taxid": 1134406, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1423, "total_fragments": 1424, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Longilinea arvoryzae", "strain": "strain=KOME-1", "accession": "GCA_001050235.2", "taxid": 360412, "species_taxid": 360412, "relation_to_type": "type", "validated": true, "ani": 77.9025, "matched_fragments": 94, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Levilinea saccharolytica", "strain": "strain=KIBI-1", "accession": "GCA_001306035.1", "taxid": 229921, "species_taxid": 229921, "relation_to_type": "type", "validated": true, "ani": 77.1167, "matched_fragments": 143, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Levilinea saccharolytica", "strain": "strain=KIBI-1", "accession": "GCA_001050255.2", "taxid": 229921, "species_taxid": 229921, "relation_to_type": "type", "validated": true, "ani": 77.0809, "matched_fragments": 145, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelolinea submarina", "strain": "strain=DSM 23923", "accession": "GCA_003385075.1", "taxid": 913107, "species_taxid": 913107, "relation_to_type": "type", "validated": true, "ani": 75.7688, "matched_fragments": 62, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelolinea submarina", "strain": "strain=MO-CFX1", "accession": "GCA_003966975.1", "taxid": 913107, "species_taxid": 913107, "relation_to_type": "type", "validated": true, "ani": 75.7687, "matched_fragments": 62, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001306115.1", "gtdb_species": "s__Ornatilinea apprima", "ani": 100.0, "matched_fragments": 1423, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__Ornatilinea", "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": "GCA_004347695.1", "gtdb_species": "s__Bellilinea sp004347695", "ani": 78.1788, "matched_fragments": 59, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__Bellilinea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.75", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001306035.1", "gtdb_species": "s__Levilinea saccharolytica", "ani": 77.1167, "matched_fragments": 143, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__Levilinea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018433975.1", "gtdb_species": "s__SM3-B121 sp018433975", "ani": 77.0256, "matched_fragments": 62, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__SM3-B121", "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_001796355.1", "gtdb_species": "s__Bellilinea sp001796355", "ani": 76.3069, "matched_fragments": 58, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__Bellilinea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.55", "min_intra_species_ani": "99.40", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002385985.1", "gtdb_species": "s__UBA3924 sp002385985", "ani": 76.1052, "matched_fragments": 85, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__UBA3924", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002428565.1", "gtdb_species": "s__UBA6092 sp002428565", "ani": 76.0788, "matched_fragments": 73, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__UBA4823;g__UBA6092", "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_016927865.1", "gtdb_species": "s__Anaerolinea sp016927865", "ani": 75.9759, "matched_fragments": 78, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__Anaerolinea", "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_012798515.1", "gtdb_species": "s__JAAZNB01 sp012798515", "ani": 75.9473, "matched_fragments": 95, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__JAAZNB01", "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_011367365.1", "gtdb_species": "s__DSYU01 sp011367365", "ani": 75.6731, "matched_fragments": 92, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Anaerolineae;o__Anaerolineales;f__Anaerolineaceae;g__DSYU01", "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": -0.302, "cell_length": null, "doubling_h": null, "growth_tmp": 42.0, "optimum_tmp": 43.5, "optimum_ph": 7.75, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "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": [ "Ornatilinea", "apprima" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }