{ "type": "genome", "identifier": "GCF_030409435.1", "organism": "Methylobacterium adhaesivum", "title": "Methylobacterium adhaesivum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Institute of Microbiology of the Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030409435.1", "bioproject": "PRJNA224116", "biosample": "SAMN35653720", "wgs_master": "JAUFPX000000000.1", "refseq_category": "na", "taxid": "333297", "species_taxid": "333297", "organism_name": "Methylobacterium adhaesivum", "infraspecific_name": "strain=CECT 7069", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/07/05", "asm_name": "ASM3040943v1", "asm_submitter": "The Institute of Microbiology of the Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_030409435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/409/435/GCF_030409435.1_ASM3040943v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4675756", "genome_size_ungapped": "4675756", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "44", "contig_count": "44", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030409435.1-RS_2024_07_07", "annotation_date": "2024-07-07", "total_gene_count": "4390", "protein_coding_gene_count": "4266", "non_coding_gene_count": "56", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-07-05", "dateModified": "2023-07-05", "datePublished": "2023-07-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylobacterium adhaesivum" ], "sample_taxid": [ "333297" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain" ], "sample_host_location_id": [], "data_size": "1.278 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)": "4675756", "Number of Sequences": "44", "Longest Sequences (bp)": "1106181", "N50 (bp)": "360805", "Gap Ratio (%)": "0.000150", "GCcontent (%)": "68.5", "Number of CDSs": "4399", "Average Protein Length": "308.4", "Coding Ratio (%)": "87.1", "Number of rRNAs": "3", "Number of tRNAs": "52", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylobacterium adhaesivum", "strain": "strain=DSM 17169", "accession": "GCA_022179065.1", "taxid": 333297, "species_taxid": 333297, "relation_to_type": "type", "validated": true, "ani": 99.9824, "matched_fragments": 1511, "total_fragments": 1537, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylobacterium gossipiicola", "strain": "strain=Gh-105", "accession": "GCA_900113485.1", "taxid": 582675, "species_taxid": 582675, "relation_to_type": "type", "validated": true, "ani": 88.4754, "matched_fragments": 1139, "total_fragments": 1537, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium goesingense", "strain": "strain=DSM 21331", "accession": "GCA_022179225.1", "taxid": 243690, "species_taxid": 243690, "relation_to_type": "type", "validated": true, "ani": 83.5035, "matched_fragments": 968, "total_fragments": 1537, "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": 82.5958, "matched_fragments": 944, "total_fragments": 1537, "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": 82.5099, "matched_fragments": 859, "total_fragments": 1537, "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": 82.3766, "matched_fragments": 921, "total_fragments": 1537, "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": 81.8884, "matched_fragments": 827, "total_fragments": 1537, "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": 81.6257, "matched_fragments": 911, "total_fragments": 1537, "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": 81.5556, "matched_fragments": 736, "total_fragments": 1537, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium hispanicum", "strain": "strain=DSM 16372", "accession": "GCA_022179285.1", "taxid": 270350, "species_taxid": 270350, "relation_to_type": "type", "validated": true, "ani": 81.3543, "matched_fragments": 909, "total_fragments": 1537, "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": 80.2767, "matched_fragments": 808, "total_fragments": 1537, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900113485.1", "gtdb_species": "s__Methylobacterium gossipiicola", "ani": 88.4772, "matched_fragments": 1139, "total_fragments": 1537, "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_001422375.1", "gtdb_species": "s__Methylobacterium sp001422375", "ani": 87.8214, "matched_fragments": 1181, "total_fragments": 1537, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "98.25", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001423295.1", "gtdb_species": "s__Methylobacterium sp001423295", "ani": 86.9365, "matched_fragments": 1173, "total_fragments": 1537, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.70", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001424705.1", "gtdb_species": "s__Methylobacterium sp001424705", "ani": 83.8029, "matched_fragments": 1035, "total_fragments": 1537, "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_001422885.1", "gtdb_species": "s__Methylobacterium sp001422885", "ani": 83.7755, "matched_fragments": 1025, "total_fragments": 1537, "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": 83.4589, "matched_fragments": 1027, "total_fragments": 1537, "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_001423085.1", "gtdb_species": "s__Methylobacterium sp001423085", "ani": 83.4172, "matched_fragments": 1024, "total_fragments": 1537, "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_010692745.1", "gtdb_species": "s__Methylobacterium sp010692745", "ani": 83.4029, "matched_fragments": 968, "total_fragments": 1537, "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_001423265.1", "gtdb_species": "s__Methylobacterium sp001423265", "ani": 82.5856, "matched_fragments": 905, "total_fragments": 1537, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "98.73", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000372825.1", "gtdb_species": "s__Methylobacterium sp000372825", "ani": 82.3983, "matched_fragments": 905, "total_fragments": 1537, "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_004004555.2", "gtdb_species": "s__Methylobacterium sp004004555", "ani": 80.2847, "matched_fragments": 807, "total_fragments": 1537, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.0, "cell_length": 0.176, "doubling_h": 0.623, "growth_tmp": 28.0, "optimum_tmp": 28.0, "optimum_ph": 6.5, "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": 1.0, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Methylobacterium", "adhaesivum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }