{ "type": "genome", "identifier": "GCF_014805525.1", "organism": "Rhabdothermincola sediminis", "title": "Rhabdothermincola sediminis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Sun Yat-sen University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014805525.1", "bioproject": "PRJNA224116", "biosample": "SAMN15456233", "wgs_master": "JACFSZ000000000.1", "refseq_category": "reference genome", "taxid": "2751370", "species_taxid": "2751370", "organism_name": "Rhabdothermincola sediminis", "infraspecific_name": "strain=SYSU G02662", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/30", "asm_name": "ASM1480552v1", "asm_submitter": "Sun Yat-sen University", "gbrs_paired_asm": "GCA_014805525.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/805/525/GCF_014805525.1_ASM1480552v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3293621", "genome_size_ungapped": "3293621", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "49", "contig_count": "49", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014805525.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "3245", "protein_coding_gene_count": "3130", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-30", "dateModified": "2020-09-30", "datePublished": "2020-09-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhabdothermincola sediminis" ], "sample_taxid": [ "2751370" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Tibet" ], "sample_host_location_id": [], "data_size": "0.885 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)": "3293621", "Number of Sequences": "49", "Longest Sequences (bp)": "301555", "N50 (bp)": "155423", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.5", "Number of CDSs": "3167", "Average Protein Length": "319.0", "Coding Ratio (%)": "92.0", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhabdothermincola sediminis", "strain": "strain=SYSU G02662", "accession": "GCA_014805525.1", "taxid": 2751370, "species_taxid": 2751370, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1064, "total_fragments": 1073, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rhabdothermincola salaria", "strain": "strain=EGI L10124", "accession": "GCA_021246445.1", "taxid": 2903142, "species_taxid": 2903142, "relation_to_type": "type", "validated": true, "ani": 78.214, "matched_fragments": 378, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomarinicola tropica", "strain": "strain=SCSIO 58843", "accession": "GCA_009650215.1", "taxid": 2789776, "species_taxid": 2789776, "relation_to_type": "type", "validated": true, "ani": 77.6398, "matched_fragments": 315, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ilumatobacter fluminis", "strain": "strain=DSM 18936", "accession": "GCA_004364865.1", "taxid": 467091, "species_taxid": 467091, "relation_to_type": "type", "validated": true, "ani": 76.338, "matched_fragments": 174, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desertimonas flava", "strain": "strain=SYSU D60003", "accession": "GCA_003426815.1", "taxid": 2064846, "species_taxid": 2064846, "relation_to_type": "type", "validated": true, "ani": 76.0765, "matched_fragments": 234, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter weissii", "strain": "strain=S27", "accession": "GCA_017565745.1", "taxid": 1983706, "species_taxid": 1983706, "relation_to_type": "type", "validated": true, "ani": 75.4445, "matched_fragments": 79, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces reniochalinae", "strain": "strain=LHW50302", "accession": "GCA_003323735.1", "taxid": 2250578, "species_taxid": 2250578, "relation_to_type": "type", "validated": true, "ani": 75.4055, "matched_fragments": 138, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microlunatus kandeliicorticis", "strain": "strain=DSM 100723", "accession": "GCA_014137855.1", "taxid": 1759536, "species_taxid": 1759536, "relation_to_type": "type", "validated": true, "ani": 75.3961, "matched_fragments": 129, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces diacarni", "strain": "strain=LHW51701", "accession": "GCA_003323715.1", "taxid": 2800381, "species_taxid": 2800381, "relation_to_type": "type", "validated": true, "ani": 75.3753, "matched_fragments": 145, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis composta", "strain": "strain=DSM 44551", "accession": "GCA_014200805.1", "taxid": 157465, "species_taxid": 157465, "relation_to_type": "type", "validated": true, "ani": 75.3163, "matched_fragments": 204, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus siccus", "strain": "strain=R8", "accession": "GCA_009906795.1", "taxid": 2696567, "species_taxid": 2696567, "relation_to_type": "type", "validated": true, "ani": 75.2755, "matched_fragments": 127, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campisalis", "strain": "strain=A4", "accession": "GCA_022341425.1", "taxid": 74661, "species_taxid": 74661, "relation_to_type": "type", "validated": true, "ani": 75.1841, "matched_fragments": 54, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas fulva", "strain": "strain=DKR-3", "accession": "GCA_018531375.1", "taxid": 2835530, "species_taxid": 2835530, "relation_to_type": "type", "validated": true, "ani": 75.161, "matched_fragments": 123, "total_fragments": 1073, "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": 75.1374, "matched_fragments": 172, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia asaccharolytica", "strain": "strain=NBRC 16224", "accession": "GCA_007989065.1", "taxid": 54010, "species_taxid": 54010, "relation_to_type": "type", "validated": true, "ani": 75.1368, "matched_fragments": 141, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nonomuraea turkmeniaca", "strain": "strain=DSM 43926", "accession": "GCA_005889735.1", "taxid": 103838, "species_taxid": 103838, "relation_to_type": "type", "validated": true, "ani": 75.1073, "matched_fragments": 177, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia asaccharolytica", "strain": "strain=DSM 44247", "accession": "GCA_000423625.1", "taxid": 54010, "species_taxid": 54010, "relation_to_type": "type", "validated": true, "ani": 75.0676, "matched_fragments": 141, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014805525.1", "gtdb_species": "s__Rhabdothermincola sediminis", "ani": 100.0, "matched_fragments": 1064, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA8139;g__Rhabdothermincola", "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_018969405.1", "gtdb_species": "s__F1-20-MAGs160 sp018969405", "ani": 77.8189, "matched_fragments": 241, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA8139;g__F1-20-MAGs160", "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_009650215.1", "gtdb_species": "s__Actinomarinicola tropica", "ani": 77.6405, "matched_fragments": 315, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__SKKL01;g__Actinomarinicola", "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_016794585.1", "gtdb_species": "s__JAEUJM01 sp016794585", "ani": 77.515, "matched_fragments": 390, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__JAEUJM01;g__JAEUJM01", "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_017882935.1", "gtdb_species": "s__JADGOP01 sp017882935", "ani": 77.51, "matched_fragments": 230, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__JAAYBP01;g__JADGOP01", "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_002403895.1", "gtdb_species": "s__UBA4742 sp002403895", "ani": 77.4711, "matched_fragments": 289, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA8139;g__UBA4742", "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_004366205.1", "gtdb_species": "s__SIRW01 sp004366205", "ani": 77.4203, "matched_fragments": 293, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__SIRW01;g__SIRW01", "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_016649895.1", "gtdb_species": "s__Actinomarinicola sp016649895", "ani": 77.3153, "matched_fragments": 258, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__SKKL01;g__Actinomarinicola", "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_019048865.1", "gtdb_species": "s__Aquihabitans sp019048865", "ani": 77.2222, "matched_fragments": 352, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__JAAYBP01;g__Aquihabitans", "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_016781135.1", "gtdb_species": "s__LC5-5 sp016781135", "ani": 77.0113, "matched_fragments": 190, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__CADCSY01;g__LC5-5", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.16", "min_intra_species_ani": "98.25", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.85", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_902805555.1", "gtdb_species": "s__CADCSY01 sp902805555", "ani": 76.9501, "matched_fragments": 204, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__CADCSY01;g__CADCSY01", "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_003697065.1", "gtdb_species": "s__J010 sp003697065", "ani": 76.9451, "matched_fragments": 187, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA11606;g__J010", "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_903868545.1", "gtdb_species": "s__CAIPVR01 sp903868545", "ani": 76.8598, "matched_fragments": 270, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__Microtrichaceae;g__CAIPVR01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.51", "min_intra_species_ani": "99.50", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_012730075.1", "gtdb_species": "s__JAAYBP01 sp012730075", "ani": 76.7999, "matched_fragments": 226, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__JAAYBP01;g__JAAYBP01", "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_018401565.1", "gtdb_species": "s__M30B73 sp018401565", "ani": 76.7911, "matched_fragments": 184, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA8139;g__M30B73", "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_009705225.1", "gtdb_species": "s__F1-20-MAGs160 sp009705225", "ani": 76.5384, "matched_fragments": 126, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA8139;g__F1-20-MAGs160", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.41", "min_intra_species_ani": "99.41", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003453695.1", "gtdb_species": "s__UBA8190 sp003453695", "ani": 76.1878, "matched_fragments": 142, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Acidimicrobiia;o__Acidimicrobiales;f__UBA8190;g__UBA8190", "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": [ "Rhabdothermincola", "sediminis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }