{ "type": "genome", "identifier": "GCF_030160915.1", "organism": "Methylobacterium brachythecii", "title": "Methylobacterium brachythecii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030160915.1", "bioproject": "PRJNA224116", "biosample": "SAMD00576809", "wgs_master": "BSPG00000000.1", "refseq_category": "na", "taxid": "1176177", "species_taxid": "1176177", "organism_name": "Methylobacterium brachythecii", "infraspecific_name": "strain=NBRC 107710", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/02/15", "asm_name": "ASM3016091v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_030160915.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/160/915/GCF_030160915.1_ASM3016091v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5548356", "genome_size_ungapped": "5546682", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "247", "contig_count": "247", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030160915.1-RS_2024_08_01", "annotation_date": "2024-08-01", "total_gene_count": "5258", "protein_coding_gene_count": "5086", "non_coding_gene_count": "54", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-02-15", "dateModified": "2023-02-15", "datePublished": "2023-02-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylobacterium brachythecii" ], "sample_taxid": [ "1176177" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.533 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 5.24, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5548356", "Number of Sequences": "247", "Longest Sequences (bp)": "606866", "N50 (bp)": "112820", "Gap Ratio (%)": "0.030171", "GCcontent (%)": "65.9", "Number of CDSs": "5143", "Average Protein Length": "296.9", "Coding Ratio (%)": "82.6", "Number of rRNAs": "6", "Number of tRNAs": "67", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylobacterium brachythecii", "strain": "strain=DSM 24105", "accession": "GCA_014196345.1", "taxid": 1176177, "species_taxid": 1176177, "relation_to_type": "type", "validated": true, "ani": 99.998, "matched_fragments": 1744, "total_fragments": 1756, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylobacterium gnaphalii", "strain": "strain=NBRC 107716", "accession": "GCA_007992215.1", "taxid": 1010610, "species_taxid": 1010610, "relation_to_type": "type", "validated": true, "ani": 86.8571, "matched_fragments": 1134, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium gnaphalii", "strain": "strain=DSM 24027", "accession": "GCA_022179205.1", "taxid": 1010610, "species_taxid": 1010610, "relation_to_type": "type", "validated": true, "ani": 86.7184, "matched_fragments": 1109, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium haplocladii", "strain": "strain=DSM 24195", "accession": "GCA_022179265.1", "taxid": 1176176, "species_taxid": 1176176, "relation_to_type": "type", 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"matched_fragments": 906, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium jeotgali", "strain": "strain=LMG 23639", "accession": "GCA_022179345.1", "taxid": 381630, "species_taxid": 381630, "relation_to_type": "type", "validated": true, "ani": 81.3337, "matched_fragments": 768, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylorubrum suomiense", "strain": "strain=DSM 14458", "accession": "GCA_022179765.1", "taxid": 144191, "species_taxid": 144191, "relation_to_type": "type", "validated": true, "ani": 80.9814, "matched_fragments": 880, "total_fragments": 1756, "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": 79.7989, "matched_fragments": 773, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium frigidaeris", "strain": "strain=IER25-16", "accession": "GCA_002759055.1", "taxid": 2038277, "species_taxid": 2038277, "relation_to_type": "type", "validated": true, "ani": 79.6479, "matched_fragments": 535, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovastum atsumiense", "strain": "strain=G2-11", "accession": "GCA_937425535.1", "taxid": 504468, "species_taxid": 504468, "relation_to_type": "type", "validated": true, "ani": 76.3233, "matched_fragments": 263, "total_fragments": 1756, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.24, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014196345.1", "gtdb_species": "s__Methylobacterium brachythecii", "ani": 99.998, "matched_fragments": 1744, "total_fragments": 1756, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Methylobacterium", "brachythecii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }