{ "type": "genome", "identifier": "GCF_014873765.1", "organism": "Desulfomicrobium macestii", "title": "Desulfomicrobium macestii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014873765.1", "bioproject": "PRJNA224116", "biosample": "SAMN15738578", "wgs_master": "JADBGG000000000.1", "refseq_category": "reference genome", "taxid": "90731", "species_taxid": "90731", "organism_name": "Desulfomicrobium macestii", "infraspecific_name": "strain=DSM 4194", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/09", "asm_name": "ASM1487376v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014873765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/873/765/GCF_014873765.1_ASM1487376v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4501438", "genome_size_ungapped": "4500956", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "99", "contig_count": "99", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014873765.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "4128", "protein_coding_gene_count": "4025", "non_coding_gene_count": "74", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-09", "dateModified": "2020-10-09", "datePublished": "2020-10-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfomicrobium macestii" ], "sample_taxid": [ "90731" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.271 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.44, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4501438", "Number of Sequences": "99", "Longest Sequences (bp)": "277357", "N50 (bp)": "104723", "Gap Ratio (%)": "0.010708", "GCcontent (%)": "58.5", "Number of CDSs": "4066", "Average Protein Length": "324.3", "Coding Ratio (%)": "87.9", "Number of rRNAs": "3", "Number of tRNAs": "62", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfomicrobium apsheronum", "strain": "strain=DSM 5918", "accession": "GCA_900114115.1", "taxid": 52560, "species_taxid": 52560, "relation_to_type": "type", "validated": true, "ani": 93.9293, "matched_fragments": 1119, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfomicrobium baculatum", "strain": "strain=DSM 4028", "accession": "GCA_000023225.1", "taxid": 899, "species_taxid": 899, "relation_to_type": "type", "validated": true, "ani": 87.4055, "matched_fragments": 1010, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfomicrobium escambiense", "strain": "strain=DSM 10707", "accession": "GCA_000428825.1", "taxid": 29503, "species_taxid": 29503, "relation_to_type": "type", "validated": true, "ani": 82.7654, "matched_fragments": 826, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfomicrobium orale", "strain": "strain=DSM 12838", "accession": "GCA_001553625.1", "taxid": 132132, "species_taxid": 132132, "relation_to_type": "type", "validated": true, "ani": 78.7095, "matched_fragments": 346, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfohalovibrio alkalitolerans", "strain": "strain=DSM 16529", "accession": "GCA_000422245.1", "taxid": 293256, "species_taxid": 293256, "relation_to_type": "type", "validated": true, "ani": 78.5504, "matched_fragments": 192, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio mercurii", "strain": "strain=ND132", "accession": "GCA_000189295.2", "taxid": 641491, "species_taxid": 641491, "relation_to_type": "type", "validated": true, "ani": 77.3455, "matched_fragments": 220, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio cashew", "strain": "strain=SRB007", "accession": "GCA_009762795.1", "taxid": 2678688, "species_taxid": 2678688, "relation_to_type": "type", "validated": true, "ani": 76.8961, "matched_fragments": 150, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio alkaliphilus", "strain": "strain=F-1", "accession": "GCA_009729555.1", "taxid": 2661613, "species_taxid": 2661613, "relation_to_type": "type", "validated": true, "ani": 76.6368, "matched_fragments": 146, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solidesulfovibrio fructosivorans", "strain": "strain=JJ", "accession": "GCA_000179555.1", "taxid": 878, "species_taxid": 878, "relation_to_type": "type", "validated": true, "ani": 76.4746, "matched_fragments": 173, "total_fragments": 1446, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.44, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014873765.1", "gtdb_species": "s__Desulfomicrobium macestii", "ani": 100.0, "matched_fragments": 1441, "total_fragments": 1446, "gtdb_taxonomy": 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"gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfomicrobiaceae;g__Desulfomicrobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.97", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_003542385.1", "gtdb_species": "s__Desulfomicrobium sp003542385", "ani": 82.4307, "matched_fragments": 464, "total_fragments": 1446, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfomicrobiaceae;g__Desulfomicrobium", "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": -0.245, "cell_length": 0.183, "doubling_h": 0.703, "growth_tmp": 35.0, "optimum_tmp": 43.75, "optimum_ph": null, "genome_size": 3599899.544, "gc_content": 60.4, "coding_genes": 2936.0, "rRNA16S_genes": 2.0, "tRNA_genes": 60.5, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "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 }, "_genome_taxon": [ "Desulfomicrobium", "macestii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }