{ "type": "genome", "identifier": "GCF_012933655.1", "organism": "Pyxidicoccus fallax", "title": "Pyxidicoccus fallax", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Aberystwyth University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012933655.1", "bioproject": "PRJNA224116", "biosample": "SAMN14605588", "wgs_master": "JABBJJ000000000.1", "refseq_category": "reference genome", "taxid": "394095", "species_taxid": "394095", "organism_name": "Pyxidicoccus fallax", "infraspecific_name": "strain=DSM 14698", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/29", "asm_name": "ASM1293365v1", "asm_submitter": "Aberystwyth University", "gbrs_paired_asm": "GCA_012933655.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/933/655/GCF_012933655.1_ASM1293365v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "13532887", "genome_size_ungapped": "13532887", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "825", "contig_count": "825", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012933655.1-RS_2024_08_07", "annotation_date": "2024-08-07", "total_gene_count": "10871", "protein_coding_gene_count": "10509", "non_coding_gene_count": "98", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-29", "dateModified": "2020-04-29", "datePublished": "2020-04-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Pyxidicoccus fallax" ], "sample_taxid": [ "394095" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "3.666 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)": "13532887", "Number of Sequences": "825", "Longest Sequences (bp)": "130551", "N50 (bp)": "31399", "Gap Ratio (%)": "0.000015", "GCcontent (%)": "70.5", "Number of CDSs": "10143", "Average Protein Length": "369.1", "Coding Ratio (%)": "83.0", "Number of rRNAs": "2", "Number of tRNAs": "105", "Number of CRISPRs": "10" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pyxidicoccus fallax", "strain": "strain=DSM 14698", "accession": "GCA_012933655.1", "taxid": 394095, "species_taxid": 394095, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 4082, "total_fragments": 4121, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pyxidicoccus trucidator", "strain": "strain=CA060A", "accession": "GCA_010894435.1", "taxid": 2709662, "species_taxid": 2709662, "relation_to_type": "type", "validated": true, "ani": 87.4803, "matched_fragments": 2858, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pyxidicoccus caerfyrddinensis", "strain": "strain=CA032A", "accession": "GCA_010894405.1", "taxid": 2709663, "species_taxid": 2709663, "relation_to_type": "type", "validated": true, "ani": 87.2428, "matched_fragments": 2915, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myxococcus vastator", "strain": "strain=AM301", "accession": "GCA_010894475.1", "taxid": 2709664, "species_taxid": 2709664, "relation_to_type": "type", "validated": true, "ani": 84.7496, "matched_fragments": 1774, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myxococcus virescens", "strain": "strain=NBRC 100334", "accession": "GCA_007989405.1", "taxid": 83456, "species_taxid": 83456, "relation_to_type": "type", "validated": true, "ani": 84.4341, "matched_fragments": 2005, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myxococcus virescens", "strain": "strain=DSM 2260", "accession": "GCA_900101905.1", "taxid": 83456, "species_taxid": 83456, "relation_to_type": "type", "validated": true, "ani": 84.3428, "matched_fragments": 2032, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myxococcus xanthus", "strain": "strain=DSM 16526", "accession": "GCA_900106535.1", "taxid": 34, "species_taxid": 34, "relation_to_type": "type", "validated": true, "ani": 84.1828, "matched_fragments": 2037, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis", "strain": "strain=AM401", "accession": "GCA_006636215.1", "taxid": 2590453, "species_taxid": 2590453, "relation_to_type": "type", "validated": true, "ani": 83.4758, "matched_fragments": 2159, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus soli", "strain": "strain=ZKHCc1 1396", "accession": "GCA_014930455.1", "taxid": 2710757, "species_taxid": 2710757, "relation_to_type": "type", "validated": true, "ani": 82.2924, "matched_fragments": 1983, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus silvisoli", "strain": "strain=c25j21", "accession": "GCA_009909145.1", "taxid": 2697031, "species_taxid": 2697031, "relation_to_type": "type", "validated": true, "ani": 82.2185, "matched_fragments": 1806, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nannocystis exedens", "strain": "strain=DSM 71", "accession": "GCA_002343915.1", "taxid": 54, "species_taxid": 54, "relation_to_type": "type", "validated": true, "ani": 75.0217, "matched_fragments": 621, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nannocystis exedens", "strain": "strain=ATCC 25963", "accession": "GCA_900112715.1", "taxid": 54, "species_taxid": 54, "relation_to_type": "type", "validated": true, "ani": 75.0164, "matched_fragments": 606, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharothrix algeriensis", "strain": "strain=DSM 44581", "accession": "GCA_016907655.1", "taxid": 173560, "species_taxid": 173560, "relation_to_type": "type", "validated": true, "ani": 74.904, "matched_fragments": 485, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eggerthella lenta", "strain": "strain=UCSF2243", "accession": "GCA_003339945.1", "taxid": 84112, "species_taxid": 84112, "relation_to_type": "type", "validated": true, "ani": 74.885, "matched_fragments": 108, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eggerthella lenta", "strain": "strain=DSM 2243", "accession": "GCA_000024265.1", "taxid": 84112, "species_taxid": 84112, "relation_to_type": "type", "validated": true, "ani": 74.8809, "matched_fragments": 109, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eggerthella lenta", "strain": "strain=ATCC 25559", "accession": "GCA_003340105.1", "taxid": 84112, "species_taxid": 84112, "relation_to_type": "type", "validated": true, "ani": 74.879, "matched_fragments": 110, "total_fragments": 4121, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_012933655.1", "gtdb_species": "s__Myxococcus fallax", "ani": 100.0, "matched_fragments": 4082, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "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_010894435.1", "gtdb_species": "s__Myxococcus trucidator", "ani": 87.4628, "matched_fragments": 2865, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "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_010894405.1", "gtdb_species": "s__Myxococcus caerfyrddinensis", "ani": 87.2864, "matched_fragments": 2905, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "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_017301735.1", "gtdb_species": "s__Myxococcus sp017301735", "ani": 86.6372, "matched_fragments": 2856, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "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_002305895.1", "gtdb_species": "s__Myxococcus macrosporus", "ani": 84.6989, "matched_fragments": 2107, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "98.54", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_006402735.1", "gtdb_species": "s__Myxococcus xanthus_A", "ani": 84.4045, "matched_fragments": 2064, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "ani_circumscription_radius": 96.2302, "mean_intra_species_ani": "99.44", "min_intra_species_ani": "99.22", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900101905.1", "gtdb_species": "s__Myxococcus virescens", "ani": 84.3338, "matched_fragments": 2035, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "ani_circumscription_radius": 96.8216, "mean_intra_species_ani": "98.11", "min_intra_species_ani": "97.12", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000280925.3", "gtdb_species": "s__Myxococcus hansupus", "ani": 83.9861, "matched_fragments": 2055, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "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_900111765.1", "gtdb_species": "s__Myxococcus fulvus", "ani": 83.6271, "matched_fragments": 2259, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.03", "min_intra_species_ani": "95.70", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_010894455.1", "gtdb_species": "s__Myxococcus eversor", "ani": 83.61, "matched_fragments": 2233, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.18", "min_intra_species_ani": "99.18", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013336725.1", "gtdb_species": "s__Myxococcus sp013336725", "ani": 83.5304, "matched_fragments": 2277, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_017301635.1", "gtdb_species": "s__Myxococcus sp017301635", "ani": 82.9313, "matched_fragments": 2074, "total_fragments": 4121, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Myxococcus", "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": 29.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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": [ "Pyxidicoccus", "fallax" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }