{ "type": "genome", "identifier": "GCF_007992175.1", "organism": "Methylobacterium haplocladii", "title": "Methylobacterium haplocladii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation Biological Resource Center", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007992175.1", "bioproject": "PRJNA224116", "biosample": "SAMD00172656", "wgs_master": "BJZT00000000.1", "refseq_category": "reference genome", "taxid": "1176176", "species_taxid": "1176176", "organism_name": "Methylobacterium haplocladii", "infraspecific_name": "strain=NBRC 107714", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/31", "asm_name": "ASM799217v1", "asm_submitter": "National Institute of Technology and Evaluation Biological Resource Center", "gbrs_paired_asm": "GCA_007992175.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/992/175/GCF_007992175.1_ASM799217v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4636856", "genome_size_ungapped": "4636856", "gc_percent": "67.500000", "replicon_count": "0", "scaffold_count": "104", "contig_count": "104", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007992175.1-RS_2024_09_09", "annotation_date": "2024-09-09", "total_gene_count": "4446", "protein_coding_gene_count": "4301", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-31", "dateModified": "2019-07-31", "datePublished": "2019-07-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylobacterium haplocladii" ], "sample_taxid": [ "1176176" ], "sample_host_organism": [ "Haplocladium microphyllum" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Okayama, Kurashiki" ], "sample_host_location_id": [], "data_size": "1.274 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)": "4636856", "Number of Sequences": "104", "Longest Sequences (bp)": "283975", "N50 (bp)": "103530", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.6", "Number of CDSs": "4351", "Average Protein Length": "299.3", "Coding Ratio (%)": "84.2", "Number of rRNAs": "3", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylobacterium haplocladii", "strain": "strain=NBRC 107714", "accession": "GCA_007992175.1", "taxid": 1176176, "species_taxid": 1176176, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1490, "total_fragments": 1494, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylobacterium haplocladii", "strain": "strain=DSM 24195", "accession": "GCA_022179265.1", "taxid": 1176176, "species_taxid": 1176176, "relation_to_type": "type", "validated": true, "ani": 99.9704, "matched_fragments": 1419, "total_fragments": 1494, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylobacterium brachythecii", "strain": "strain=DSM 24105", "accession": "GCA_014196345.1", "taxid": 1176177, "species_taxid": 1176177, "relation_to_type": "type", "validated": true, "ani": 84.4901, "matched_fragments": 1063, "total_fragments": 1494, "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": 83.9406, "matched_fragments": 930, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium gnaphalii", "strain": "strain=NBRC 107716", "accession": "GCA_007992215.1", "taxid": 1010610, "species_taxid": 1010610, "relation_to_type": "type", "validated": true, "ani": 83.751, "matched_fragments": 987, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylorubrum podarium", "strain": "strain=DSM 15083", "accession": "GCA_022179745.1", "taxid": 200476, "species_taxid": 200476, "relation_to_type": "type", "validated": true, "ani": 82.2492, "matched_fragments": 752, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylorubrum extorquens", "strain": "strain=TK 0001", "accession": "GCA_900234795.1", "taxid": 408, "species_taxid": 408, "relation_to_type": "type", "validated": true, "ani": 82.1633, "matched_fragments": 906, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylorubrum aminovorans", "strain": "strain=NBRC 15686", "accession": "GCA_022179725.1", "taxid": 269069, "species_taxid": 269069, "relation_to_type": "type", "validated": true, "ani": 81.8807, "matched_fragments": 910, "total_fragments": 1494, "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": 81.8065, "matched_fragments": 882, "total_fragments": 1494, "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": 81.273, "matched_fragments": 777, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium phyllosphaerae", "strain": "strain=CBMB27", "accession": "GCA_001936175.1", "taxid": 418223, "species_taxid": 418223, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4741, "matched_fragments": 800, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium phyllosphaerae", "strain": "strain=CBMB27", "accession": "GCA_900113465.1", "taxid": 418223, "species_taxid": 418223, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4622, "matched_fragments": 788, "total_fragments": 1494, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007992175.1", "gtdb_species": "s__Methylobacterium haplocladii", "ani": 100.0, "matched_fragments": 1490, "total_fragments": 1494, "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_008040035.1", "gtdb_species": "s__Methylobacterium sp008040035", "ani": 88.8415, "matched_fragments": 1130, "total_fragments": 1494, "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_014196345.1", "gtdb_species": "s__Methylobacterium brachythecii", "ani": 84.5051, "matched_fragments": 1060, "total_fragments": 1494, "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_007992215.1", "gtdb_species": "s__Methylobacterium gnaphalii", "ani": 83.7471, "matched_fragments": 988, "total_fragments": 1494, "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_900234795.1", "gtdb_species": "s__Methylobacterium extorquens", "ani": 82.1551, "matched_fragments": 907, "total_fragments": 1494, 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