{ "type": "genome", "identifier": "GCF_024808875.1", "organism": "Methylohalomonas lacus", "title": "Methylohalomonas lacus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024808875.1", "bioproject": "PRJNA224116", "biosample": "SAMN18243151", "wgs_master": "JANUCT000000000.1", "refseq_category": "reference genome", "taxid": "398773", "species_taxid": "398773", "organism_name": "Methylohalomonas lacus", "infraspecific_name": "strain=HMT 1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/31", "asm_name": "ASM2480887v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_024808875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/808/875/GCF_024808875.1_ASM2480887v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2761642", "genome_size_ungapped": "2761642", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "38", "contig_count": "38", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024808875.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2643", "protein_coding_gene_count": "2580", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-08-31", "dateModified": "2022-08-31", "datePublished": "2022-08-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylohalomonas lacus" ], "sample_taxid": [ "398773" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: Altai" ], "sample_host_location_id": [], "data_size": "0.780 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)": "2761642", "Number of Sequences": "38", "Longest Sequences (bp)": "259002", "N50 (bp)": "147341", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.3", "Number of CDSs": "2593", "Average Protein Length": "312.9", "Coding Ratio (%)": "88.1", "Number of rRNAs": "3", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylohalomonas lacus", "strain": "strain=HMT 1", "accession": "GCA_024808875.1", "taxid": 398773, "species_taxid": 398773, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 902, "total_fragments": 903, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thioalkalivibrio thiocyanoxidans", "strain": "strain=ARh2", "accession": "GCA_000385215.1", "taxid": 152475, "species_taxid": 152475, "relation_to_type": "type", "validated": true, "ani": 77.248, "matched_fragments": 87, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidihalobacter prosperus", "strain": "strain=DSM 5130", "accession": "GCA_000754095.2", "taxid": 160660, "species_taxid": 160660, "relation_to_type": "type", "validated": true, "ani": 76.9192, "matched_fragments": 78, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocystis violascens", "strain": "strain=DSM 198", "accession": "GCA_000227745.3", "taxid": 73141, "species_taxid": 73141, "relation_to_type": "type", "validated": true, "ani": 76.8267, "matched_fragments": 60, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio thiocyanodenitrificans", "strain": "strain=ARhD 1", "accession": "GCA_000378965.1", "taxid": 243063, "species_taxid": 243063, "relation_to_type": "type", "validated": true, "ani": 76.7462, "matched_fragments": 84, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalobacter thiocyanaticus", "strain": "strain=Hrh1", "accession": "GCA_003932505.1", "taxid": 585455, "species_taxid": 585455, "relation_to_type": "type", "validated": true, "ani": 76.7328, "matched_fragments": 122, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalocapsa marina", "strain": "strain=DSM 19078", "accession": "GCA_008632335.1", "taxid": 424902, "species_taxid": 424902, "relation_to_type": "type", "validated": true, "ani": 76.6945, "matched_fragments": 104, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 76.6152, "matched_fragments": 106, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylonatrum kenyense", "strain": "strain=AMT 1", "accession": "GCA_023195885.1", "taxid": 455253, "species_taxid": 455253, "relation_to_type": "type", "validated": true, "ani": 76.5806, "matched_fragments": 77, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vulcaniibacterium thermophilum", "strain": "strain=KCTC 32020", "accession": "GCA_007923255.1", "taxid": 1169913, "species_taxid": 1169913, "relation_to_type": "type", "validated": true, "ani": 76.5779, "matched_fragments": 86, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurivermis fontis", "strain": "strain=JG42", "accession": "GCA_004001245.1", 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"matched_fragments": 93, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_002890935.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 76.3102, "matched_fragments": 80, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteibacter yeojuensis", "strain": "strain=DSM 17673", "accession": "GCA_011742875.1", "taxid": 345309, "species_taxid": 345309, "relation_to_type": "type", "validated": true, "ani": 76.2871, "matched_fragments": 70, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_024448335.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 76.2432, "matched_fragments": 80, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nevskia ramosa", "strain": "strain=DSM 11499", "accession": "GCA_000420645.1", "taxid": 64002, "species_taxid": 64002, "relation_to_type": "type", "validated": true, "ani": 76.0542, "matched_fragments": 77, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas halmophila", "strain": "strain=NBRC 15537", "accession": "GCA_006540005.1", "taxid": 252, "species_taxid": 252, "relation_to_type": "type", "validated": true, "ani": 75.9932, "matched_fragments": 56, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas huabeiensis", "strain": "strain=HB2", "accession": "GCA_000559025.1", "taxid": 1244513, "species_taxid": 1244513, "relation_to_type": "type", "validated": true, "ani": 75.9902, "matched_fragments": 108, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas composti", "strain": "strain=CCUG 59231", "accession": "GCA_900115475.1", "taxid": 658457, "species_taxid": 658457, "relation_to_type": "type", "validated": true, "ani": 75.9442, "matched_fragments": 81, "total_fragments": 903, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000385215.1", "gtdb_species": "s__Thioalkalivibrio thiocyanoxidans", "ani": 77.248, "matched_fragments": 87, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Thioalkalivibrionaceae;g__Thioalkalivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.32", "min_intra_species_ani": "98.64", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000377785.1", "gtdb_species": "s__Thioalkalivibrio sp000377785", 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sp014359565", "ani": 77.0049, "matched_fragments": 103, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Immundisolibacterales;f__Immundisolibacteraceae;g__Immundisolibacter", "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_000376845.1", "gtdb_species": "s__Thioalkalivibrio sp000376845", "ani": 76.9708, "matched_fragments": 91, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Thioalkalivibrionaceae;g__Thioalkalivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000377345.1", "gtdb_species": 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"gtdb_species": "s__Aquisalimonas sp012044895", "ani": 76.834, "matched_fragments": 73, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Nitrococcales;f__Aquisalimonadaceae;g__Aquisalimonas", "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_014762505.1", "gtdb_species": "s__SpSt-1174 sp014762505", "ani": 76.8271, "matched_fragments": 128, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__SpSt-1174;f__SpSt-1174;g__SpSt-1174", "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_013519935.1", "gtdb_species": "s__WFHF3C12 sp013519935", "ani": 76.7575, "matched_fragments": 91, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Nitrococcales;f__Nitrococcaceae;g__WFHF3C12", "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_000420165.1", "gtdb_species": "s__Thioalkalivibrio sp000420165", "ani": 76.6448, "matched_fragments": 98, "total_fragments": 903, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Thioalkalivibrionaceae;g__Thioalkalivibrio", "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_016584105.1", "gtdb_species": "s__Ectothiorhodospira shaposhnikovii", "ani": 76.6285, 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