{ "type": "genome", "identifier": "GCF_016785085.1", "organism": "Paractinoplanes lichenicola", "title": "Paractinoplanes lichenicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chulalongkorn University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016785085.1", "bioproject": "PRJNA224116", "biosample": "SAMN17207862", "wgs_master": "JAENHO000000000.1", "refseq_category": "reference genome", "taxid": "2802976", "species_taxid": "2802976", "organism_name": "Paractinoplanes lichenicola", "infraspecific_name": "strain=LDG1-01", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/01", "asm_name": "ASM1678508v1", "asm_submitter": "Chulalongkorn University", "gbrs_paired_asm": "GCA_016785085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/785/085/GCF_016785085.1_ASM1678508v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "10674089", "genome_size_ungapped": "10674089", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "36", "contig_count": "36", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016785085.1-RS_2024_08_04", "annotation_date": "2024-08-04", "total_gene_count": "9919", "protein_coding_gene_count": "9723", "non_coding_gene_count": "86", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-01", "dateModified": "2021-02-01", "datePublished": "2021-02-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Paractinoplanes lichenicola" ], "sample_taxid": [ "2802976" ], "sample_host_organism": [ "Parmotrema sp." ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Thailand" ], "sample_host_location_id": [], "data_size": "2.864 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "10674089", "Number of Sequences": "36", "Longest Sequences (bp)": "1030630", "N50 (bp)": "615128", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.9", "Number of CDSs": "9980", "Average Protein Length": "326.4", "Coding Ratio (%)": "91.5", "Number of rRNAs": "3", "Number of tRNAs": "88", "Number of CRISPRs": "6" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinoplanes lichenicola", "strain": "strain=LDG1-01", "accession": "GCA_016785085.1", "taxid": 2802976, "species_taxid": 2802976, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3538, "total_fragments": 3541, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinoplanes abujensis", "strain": "strain=DSM 45518", "accession": "GCA_014204895.1", "taxid": 882441, "species_taxid": 882441, "relation_to_type": "type", "validated": true, "ani": 90.6009, "matched_fragments": 2706, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes brasiliensis", "strain": "strain=NBRC 13938", "accession": "GCA_016862015.1", "taxid": 52695, "species_taxid": 52695, "relation_to_type": "type", "validated": true, "ani": 88.1531, "matched_fragments": 2309, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes brasiliensis", "strain": "strain=DSM 43805", "accession": "GCA_004362215.1", "taxid": 52695, "species_taxid": 52695, "relation_to_type": "type", "validated": true, "ani": 88.053, "matched_fragments": 2368, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes ovalisporus", "strain": "strain=LDG1-06", "accession": "GCA_016834655.1", "taxid": 2810368, "species_taxid": 2810368, "relation_to_type": "type", "validated": true, "ani": 87.4901, "matched_fragments": 2686, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes bogorensis", "strain": "strain=NBRC 110975", "accession": "GCA_018829635.1", "taxid": 1610840, "species_taxid": 1610840, "relation_to_type": "type", "validated": true, "ani": 86.4744, "matched_fragments": 2506, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes deccanensis", "strain": "strain=NBRC 13994", "accession": "GCA_016862115.1", "taxid": 113561, "species_taxid": 113561, "relation_to_type": "type", "validated": true, "ani": 83.1634, "matched_fragments": 2053, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes flavus", "strain": "strain=NEAU-H7", "accession": "GCA_017592555.1", "taxid": 2820290, "species_taxid": 2820290, "relation_to_type": "type", "validated": true, "ani": 80.3268, "matched_fragments": 1594, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora acroterricola", "strain": "strain=5R2A7", "accession": "GCA_003172955.1", "taxid": 2202421, "species_taxid": 2202421, "relation_to_type": "type", "validated": true, "ani": 78.4695, "matched_fragments": 1024, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium matsuzakiense", "strain": "strain=NRRL B-16293", "accession": "GCA_025264725.1", "taxid": 53360, "species_taxid": 53360, "relation_to_type": "type", "validated": true, "ani": 77.4932, "matched_fragments": 1343, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium roseum", "strain": "strain=NRRL B-16295", "accession": "GCA_025264685.1", "taxid": 47989, "species_taxid": 47989, "relation_to_type": "type", "validated": true, "ani": 77.418, "matched_fragments": 1000, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentzea tibetensis", "strain": "strain=FXJ1.1311", "accession": "GCA_007845675.1", "taxid": 2591470, "species_taxid": 2591470, "relation_to_type": "type", "validated": true, "ani": 76.1386, "matched_fragments": 740, "total_fragments": 3541, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016785085.1", "gtdb_species": "s__Actinoplanes sp016785085", "ani": 100.0, "matched_fragments": 3538, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_014204895.1", "gtdb_species": "s__Actinoplanes abujensis", "ani": 90.6175, "matched_fragments": 2703, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004362215.1", "gtdb_species": "s__Actinoplanes brasiliensis", "ani": 88.0431, "matched_fragments": 2369, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016834655.1", "gtdb_species": "s__Actinoplanes sp016834655", "ani": 87.5183, "matched_fragments": 2680, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_018829635.1", "gtdb_species": "s__Actinoplanes bogorensis", "ani": 86.5037, "matched_fragments": 2500, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_003999975.1", "gtdb_species": "s__Actinoplanes sp003999975", "ani": 84.6607, "matched_fragments": 2101, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_016862115.1", "gtdb_species": "s__Actinoplanes deccanensis", "ani": 83.156, "matched_fragments": 2056, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_000494755.1", "gtdb_species": "s__Actinoplanes friuliensis", "ani": 80.4603, "matched_fragments": 1712, "total_fragments": 3541, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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": [ "Paractinoplanes", "lichenicola" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }