{ "type": "genome", "identifier": "GCF_017573545.1", "organism": "Actinomadura nitritigenes", "title": "Actinomadura nitritigenes", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chulalongkorn University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017573545.1", "bioproject": "PRJNA224116", "biosample": "SAMN18346761", "wgs_master": "JAGEOK000000000.1", "refseq_category": "reference genome", "taxid": "134602", "species_taxid": "134602", "organism_name": "Actinomadura nitritigenes", "infraspecific_name": "strain=L46", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/23", "asm_name": "ASM1757354v1", "asm_submitter": "Chulalongkorn University", "gbrs_paired_asm": "GCA_017573545.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/573/545/GCF_017573545.1_ASM1757354v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "10586883", "genome_size_ungapped": "10586883", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "105", "contig_count": "105", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017573545.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "9888", "protein_coding_gene_count": "9643", "non_coding_gene_count": "94", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-23", "dateModified": "2021-03-23", "datePublished": "2021-03-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomadura nitritigenes" ], "sample_taxid": [ "134602" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "2.810 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "10586883", "Number of Sequences": "105", "Longest Sequences (bp)": "562249", "N50 (bp)": "268103", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.1", "Number of CDSs": "9896", "Average Protein Length": "316.3", "Coding Ratio (%)": "88.7", "Number of rRNAs": "3", "Number of tRNAs": "109", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomadura nitritigenes", "strain": "strain=L46", "accession": "GCA_017573545.1", "taxid": 134602, "species_taxid": 134602, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3472, "total_fragments": 3478, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinomadura montaniterrae", "strain": "strain=CYP1-1B", "accession": "GCA_008923365.1", "taxid": 1803903, "species_taxid": 1803903, "relation_to_type": "type", "validated": true, "ani": 92.8735, "matched_fragments": 2508, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura physcomitrii", "strain": "strain=LD22", "accession": "GCA_008923205.2", "taxid": 2650748, "species_taxid": 2650748, "relation_to_type": "type", "validated": true, "ani": 92.201, "matched_fragments": 2354, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura violacea", "strain": "strain=LCR2-06", "accession": "GCA_017573465.1", "taxid": 2819934, "species_taxid": 2819934, "relation_to_type": "type", "validated": true, "ani": 91.8472, "matched_fragments": 2676, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura latina", "strain": "strain=NBRC 106108", "accession": "GCA_001552195.1", "taxid": 163603, "species_taxid": 163603, "relation_to_type": "type", "validated": true, "ani": 85.0652, "matched_fragments": 1883, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura latina", "strain": "strain=ATCC BAA-277", "accession": "GCA_012396395.1", "taxid": 163603, "species_taxid": 163603, "relation_to_type": "type", "validated": true, "ani": 85.0055, "matched_fragments": 1856, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura meyerae", "strain": "strain=DSM 44715", "accession": "GCA_900188445.1", "taxid": 240840, "species_taxid": 240840, "relation_to_type": "type", "validated": true, "ani": 84.9477, "matched_fragments": 2022, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura 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"GCA_019175365.1", "taxid": 2750812, "species_taxid": 2750812, "relation_to_type": "type", "validated": true, "ani": 83.6079, "matched_fragments": 1781, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura roseirufa", "strain": "", "accession": "GCA_900659635.1", "taxid": 2094049, "species_taxid": 2094049, "relation_to_type": "type", "validated": true, "ani": 83.4914, "matched_fragments": 1634, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura spongiicola", "strain": "strain=LHW52907", "accession": "GCA_003432485.1", "taxid": 2303421, "species_taxid": 2303421, "relation_to_type": "type", "validated": true, "ani": 83.02, "matched_fragments": 1586, "total_fragments": 3478, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura parmotrematis", "strain": "strain=PM05-2", "accession": "GCA_019458805.1", "taxid": 2864039, "species_taxid": 2864039, 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.301, "cell_length": null, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 32.909, "optimum_ph": 7.142, "genome_size": 8227448.539, "gc_content": 72.459, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.833, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.666, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.333, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinomadura", "nitritigenes" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }