{ "type": "genome", "identifier": "GCF_022179225.1", "organism": "Methylobacterium goesingense", "title": "Methylobacterium goesingense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Microbiology, Graduate School of Medical Sciences, Kyushu University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022179225.1", "bioproject": "PRJNA224116", "biosample": "SAMD00388915", "wgs_master": "BPQL00000000.1", "refseq_category": "reference genome", "taxid": "243690", "species_taxid": "243690", "organism_name": "Methylobacterium goesingense", "infraspecific_name": "strain=DSM 21331", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/01/08", "asm_name": "ASM2217922v1", "asm_submitter": "Microbiology, Graduate School of Medical Sciences, Kyushu University", "gbrs_paired_asm": "GCA_022179225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/179/225/GCF_022179225.1_ASM2217922v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5334262", "genome_size_ungapped": "5334262", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "263", "contig_count": "263", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022179225.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "5187", "protein_coding_gene_count": "4961", "non_coding_gene_count": "50", "pubmed_id": "34737731" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-01-08", "dateModified": "2022-01-08", "datePublished": "2022-01-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylobacterium goesingense" ], "sample_taxid": [ "243690" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.465 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)": "5334262", "Number of Sequences": "263", "Longest Sequences (bp)": "108376", "N50 (bp)": "38529", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.8", "Number of CDSs": "4903", "Average Protein Length": "299.7", "Coding Ratio (%)": "82.6", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylobacterium goesingense", "strain": "strain=DSM 21331", "accession": "GCA_022179225.1", "taxid": 243690, "species_taxid": 243690, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1636, "total_fragments": 1648, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylobacterium adhaesivum", "strain": "strain=DSM 17169", "accession": "GCA_022179065.1", "taxid": 333297, "species_taxid": 333297, "relation_to_type": "type", "validated": true, "ani": 83.3675, "matched_fragments": 974, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium gossipiicola", "strain": "strain=Gh-105", "accession": "GCA_900113485.1", "taxid": 582675, "species_taxid": 582675, "relation_to_type": "type", "validated": true, "ani": 83.1528, "matched_fragments": 940, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium marchantiae", "strain": "strain=DSM 21328", "accession": "GCA_022179405.1", "taxid": 600331, "species_taxid": 600331, "relation_to_type": "type", "validated": true, "ani": 82.6352, "matched_fragments": 915, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium bullatum", "strain": "strain=DSM 21893", "accession": "GCA_022179105.1", "taxid": 570505, "species_taxid": 570505, "relation_to_type": "type", "validated": true, "ani": 82.5559, "matched_fragments": 942, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium bullatum", "strain": "strain=LMG 24788", "accession": "GCA_014845095.1", "taxid": 570505, "species_taxid": 570505, "relation_to_type": "type", "validated": true, "ani": 82.5513, "matched_fragments": 871, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium cerastii", "strain": "strain=DSM 23679", "accession": "GCA_022179125.1", "taxid": 932741, "species_taxid": 932741, "relation_to_type": "type", "validated": true, "ani": 82.1692, "matched_fragments": 951, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium iners", "strain": "strain=DSM 19015", "accession": "GCA_022179305.1", "taxid": 418707, "species_taxid": 418707, "relation_to_type": "type", "validated": true, "ani": 82.1158, "matched_fragments": 881, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium dankookense", "strain": "strain=DSM 22415", "accession": "GCA_022179165.1", "taxid": 560405, "species_taxid": 560405, "relation_to_type": "type", "validated": true, "ani": 82.0486, "matched_fragments": 922, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium soli", "strain": "strain=KCTC 22810", "accession": "GCA_022179555.1", "taxid": 553447, "species_taxid": 553447, "relation_to_type": "type", "validated": true, "ani": 82.0312, "matched_fragments": 756, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium dankookense", "strain": "strain=SW08-7", "accession": "GCA_902141855.1", "taxid": 560405, "species_taxid": 560405, "relation_to_type": "type", "validated": true, "ani": 82.0218, "matched_fragments": 970, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium oryzihabitans", "strain": "strain=TER-1", "accession": "GCA_004004555.2", "taxid": 2499852, "species_taxid": 2499852, "relation_to_type": "type", "validated": true, "ani": 80.5886, "matched_fragments": 850, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium currus", "strain": "strain=PR1016A", "accession": "GCA_003058325.1", "taxid": 2051553, "species_taxid": 2051553, "relation_to_type": "type", "validated": true, "ani": 80.4944, "matched_fragments": 902, "total_fragments": 1648, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001422885.1", "gtdb_species": "s__Methylobacterium sp001422885", "ani": 87.828, "matched_fragments": 1177, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "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_003217615.1", "gtdb_species": "s__Methylobacterium sp003217615", "ani": 87.3771, "matched_fragments": 1180, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "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_001424705.1", "gtdb_species": "s__Methylobacterium sp001424705", "ani": 87.3536, "matched_fragments": 1170, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.56", "min_intra_species_ani": "98.52", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001423085.1", "gtdb_species": "s__Methylobacterium sp001423085", "ani": 87.1395, "matched_fragments": 1208, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.83", "min_intra_species_ani": "97.83", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001422985.1", "gtdb_species": "s__Methylobacterium sp001422985", "ani": 85.8888, "matched_fragments": 1141, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014845095.1", "gtdb_species": "s__Methylobacterium bullatum", "ani": 82.5453, "matched_fragments": 871, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "95.73", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003111705.1", "gtdb_species": "s__Methylobacterium sp003111705", "ani": 80.9933, "matched_fragments": 868, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.28", "min_intra_species_ani": "97.28", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014191355.1", "gtdb_species": "s__Methylobacterium sp014191355", "ani": 80.782, "matched_fragments": 817, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "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_014873335.1", "gtdb_species": "s__Methylobacterium sp014873335", "ani": 80.6334, "matched_fragments": 861, "total_fragments": 1648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.014, "cell_length": 0.425, "doubling_h": 0.623, "growth_tmp": 28.0, "optimum_tmp": 27.246, "optimum_ph": 6.721, "genome_size": 6004081.51, "gc_content": 68.2, "coding_genes": 6044.758, "rRNA16S_genes": 6.142, "tRNA_genes": 64.375, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.833, "range_salinity": 0.333, "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": 0.935, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.064, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Methylobacterium", "goesingense" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }