{ "type": "genome", "identifier": "GCA_026990835.1", "organism": "Methylomonas sp.", "title": "Methylomonas sp.", "description": "derived from metagenome; fragmented assembly", "data type": "Genome sequencing and assembly", "organization": "Portland State University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_026990835.1", "bioproject": "PRJNA821212", "biosample": "SAMN27361212", "wgs_master": "JALXCQ000000000.1", "refseq_category": "na", "taxid": "418", "species_taxid": "418", "organism_name": "Methylomonas sp.", "infraspecific_name": "", "isolate": "T2_metabat2_scaf2bin.184", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/12/19", "asm_name": "ASM2699083v1", "submitter": "Portland State University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/026/990/835/GCA_026990835.1_ASM2699083v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-12-19", "dateModified": "2022-12-19", "datePublished": "2022-12-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylomonas sp." ], "sample_taxid": [ "418" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Lau Basin" ], "sample_host_location_id": [], "data_size": "0.747 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 86.57, "contamination": 12.5, "strain_heterogeneity": 33.33, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2574913", "Number of Sequences": "614", "Longest Sequences (bp)": "19084", "N50 (bp)": "5030", "Gap Ratio (%)": "0.021360", "GCcontent (%)": "47.9", "Number of CDSs": "1904", "Average Protein Length": "285.6", "Coding Ratio (%)": "63.4", "Number of rRNAs": "0", "Number of tRNAs": "34", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylobacter tundripaludum", "strain": "strain=SV96", "accession": "GCA_000190755.3", "taxid": 173365, "species_taxid": 173365, "relation_to_type": "type", "validated": true, "ani": 76.252, "matched_fragments": 51, "total_fragments": 511, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 86.57, "contamination": 12.5, "strain_heterogeneity": 33.33 }, "gtdb_result": [ { "accession": "GCF_016097405.1", "gtdb_species": "s__Methylomarinum sp016097405", "ani": 78.33, "matched_fragments": 180, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomarinum", "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_000733935.1", "gtdb_species": "s__Methylomarinum vadi", "ani": 76.7491, "matched_fragments": 90, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomarinum", "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_002843155.1", "gtdb_species": "s__PGZD01 sp002843155", "ani": 76.6804, "matched_fragments": 67, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__PGZD01", "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_015711015.1", "gtdb_species": "s__Methylomonas sp015711015", "ani": 76.4212, "matched_fragments": 58, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "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_018734325.1", "gtdb_species": "s__Methylomonas paludis", "ani": 76.3811, "matched_fragments": 56, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000214665.1", "gtdb_species": "s__Methylomonas methanica_B", "ani": 76.1717, "matched_fragments": 61, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "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_006788925.1", "gtdb_species": "s__Methylotuvimicrobium kenyense", "ani": 76.0868, "matched_fragments": 50, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylotuvimicrobium", "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_018335995.1", "gtdb_species": "s__Methylomonas sp018335995", "ani": 75.9222, "matched_fragments": 59, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "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_002928965.1", "gtdb_species": "s__Methylomonas sp002928965", "ani": 75.7349, "matched_fragments": 50, "total_fragments": 511, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "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": 0.096, "cell_length": 0.397, "doubling_h": 2.049, "growth_tmp": 24.525, "optimum_tmp": 27.5, "optimum_ph": 6.3, "genome_size": 5038439.884, "gc_content": 53.056, "coding_genes": 4476.333, "rRNA16S_genes": 3.0, "tRNA_genes": 47.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.666, "range_salinity": 0.0, "facultative_respiration": 0.25, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.75, "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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Methylococcales", "f__Methylomonadaceae", "g__Methylomarinum", "s__" ], "_genome_taxon": [ "Methylomonas", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Methylococcales", "f__Methylomonadaceae", "g__Methylomarinum", "s__", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Methylococcales", "Methylomonadaceae", "Methylomarinum", "s", "", "" ], "_meo": [ { "id": "MEO_0000031", "label": "hydrothermal vent" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }