{ "type": "genome", "identifier": "GCF_006151805.1", "organism": "Methylobacterium terricola", "title": "Methylobacterium terricola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "dongguk university", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006151805.1", "bioproject": "PRJNA224116", "biosample": "SAMN11835121", "wgs_master": "VDDA00000000.1", "refseq_category": "reference genome", "taxid": "2583531", "species_taxid": "2583531", "organism_name": "Methylobacterium terricola", "infraspecific_name": "strain=17Sr1-39", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/06/08", "asm_name": "ASM615180v1", "asm_submitter": "dongguk university", "gbrs_paired_asm": "GCA_006151805.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/151/805/GCF_006151805.1_ASM615180v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7873283", "genome_size_ungapped": "7872505", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "103", "contig_count": "103", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006151805.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "7409", "protein_coding_gene_count": "7139", "non_coding_gene_count": "107", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-06-08", "dateModified": "2019-06-08", "datePublished": "2019-06-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylobacterium terricola" ], "sample_taxid": [ "2583531" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Seoul" ], "sample_host_location_id": [], "data_size": "2.120 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)": "7873283", "Number of Sequences": "103", "Longest Sequences (bp)": "916167", "N50 (bp)": "258273", "Gap Ratio (%)": "0.009882", "GCcontent (%)": "70.4", "Number of CDSs": "7357", "Average Protein Length": "305.8", "Coding Ratio (%)": "85.7", "Number of rRNAs": "9", "Number of tRNAs": "86", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylobacterium terricola", "strain": "strain=17Sr1-39", "accession": "GCA_006151805.1", "taxid": 2583531, "species_taxid": 2583531, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2571, "total_fragments": 2575, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylobacterium terrae", "strain": "strain=17Sr1-28", "accession": "GCA_003173755.1", "taxid": 2202827, "species_taxid": 2202827, "relation_to_type": "type", "validated": true, "ani": 91.3833, "matched_fragments": 1761, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium platani", "strain": "strain=PMB02", "accession": "GCA_001653715.1", "taxid": 427683, "species_taxid": 427683, "relation_to_type": "type", "validated": true, "ani": 91.1164, "matched_fragments": 1771, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium platani", "strain": "strain=JCM 14648", "accession": "GCA_001043885.1", "taxid": 427683, "species_taxid": 427683, "relation_to_type": "type", "validated": true, "ani": 90.9391, "matched_fragments": 1591, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium frigidaeris", "strain": "strain=JCM 32048", "accession": "GCA_022179185.1", "taxid": 2038277, "species_taxid": 2038277, "relation_to_type": "type", "validated": true, "ani": 90.1895, "matched_fragments": 1848, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium tarhaniae", "strain": "strain=DSM 25844", "accession": "GCA_001043955.1", "taxid": 1187852, "species_taxid": 1187852, "relation_to_type": "type", "validated": true, "ani": 90.123, "matched_fragments": 1601, "total_fragments": 2575, "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": 89.9701, "matched_fragments": 1806, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium indicum", "strain": "strain=SE2.11", "accession": "GCA_001043895.1", "taxid": 1775910, "species_taxid": 1775910, "relation_to_type": "type", "validated": true, "ani": 89.8445, "matched_fragments": 1569, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium nonmethylotrophicum", "strain": "strain=6HR-1", "accession": "GCA_004745635.1", "taxid": 1141884, "species_taxid": 1141884, "relation_to_type": "type", "validated": true, "ani": 89.6484, "matched_fragments": 1768, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium ajmalii", "strain": "strain=IF7SW-B2", "accession": "GCA_016613415.1", "taxid": 2738439, "species_taxid": 2738439, "relation_to_type": "type", "validated": true, "ani": 89.6024, "matched_fragments": 1633, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium variabile", "strain": "strain=DSM 16961", "accession": "GCA_001043975.1", "taxid": 298794, "species_taxid": 298794, "relation_to_type": "type", "validated": true, "ani": 89.2116, "matched_fragments": 1586, "total_fragments": 2575, "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": 84.5915, "matched_fragments": 1422, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium crusticola", "strain": "strain=KCTC 52305", "accession": "GCA_022179145.1", "taxid": 1697972, "species_taxid": 1697972, "relation_to_type": "type", "validated": true, "ani": 84.5562, "matched_fragments": 1571, "total_fragments": 2575, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006151805.1", "gtdb_species": "s__Methylobacterium sp006151805", "ani": 100.0, "matched_fragments": 2571, "total_fragments": 2575, "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": "conclusive" }, { "accession": "GCF_011043735.1", "gtdb_species": "s__Methylobacterium sp011043735", "ani": 91.6124, "matched_fragments": 1901, "total_fragments": 2575, "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_003173755.1", "gtdb_species": "s__Methylobacterium terrae", "ani": 91.3767, "matched_fragments": 1762, "total_fragments": 2575, "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_001653715.1", "gtdb_species": "s__Methylobacterium platani", "ani": 91.1264, "matched_fragments": 1771, "total_fragments": 2575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003173775.1", "gtdb_species": "s__Methylobacterium sp003173775", "ani": 90.3502, "matched_fragments": 1794, "total_fragments": 2575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.16", "min_intra_species_ani": "95.16", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001043955.1", "gtdb_species": "s__Methylobacterium tarhaniae", "ani": 90.1578, "matched_fragments": 1596, "total_fragments": 2575, "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_016804325.1", "gtdb_species": "s__Methylobacterium aquaticum_C", "ani": 90.121, "matched_fragments": 1807, "total_fragments": 2575, "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_002759055.1", "gtdb_species": "s__Methylobacterium frigidaeris", "ani": 90.1049, "matched_fragments": 1125, "total_fragments": 2575, "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_003058325.1", "gtdb_species": "s__Methylobacterium currus", "ani": 89.9483, "matched_fragments": 1807, "total_fragments": 2575, "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_016613415.1", "gtdb_species": "s__Methylobacterium ajmalii", "ani": 89.62, "matched_fragments": 1631, "total_fragments": 2575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "96.20", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001043975.1", "gtdb_species": "s__Methylobacterium variabile", "ani": 89.2228, "matched_fragments": 1584, "total_fragments": 2575, "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": 0.014, "cell_length": 0.425, "doubling_h": 0.623, "growth_tmp": 28.448, "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", "terricola" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }