{ "type": "genome", "identifier": "GCF_005818865.1", "organism": "Mariprofundus erugo", "title": "Mariprofundus erugo", "description": "na", "data type": "Genome sequencing and assembly", "organization": "East Carolina University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_005818865.1", "bioproject": "PRJNA224116", "biosample": "SAMN11634928", "wgs_master": "VBRY00000000.1", "refseq_category": "reference genome", "taxid": "2528639", "species_taxid": "2528639", "organism_name": "Mariprofundus erugo", "infraspecific_name": "strain=P3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/05/24", "asm_name": "ASM581886v1", "asm_submitter": "East Carolina University", "gbrs_paired_asm": "GCA_005818865.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/005/818/865/GCF_005818865.1_ASM581886v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2894871", "genome_size_ungapped": "2894871", "gc_percent": "54.500000", "replicon_count": "0", "scaffold_count": "44", "contig_count": "44", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_005818865.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2675", "protein_coding_gene_count": "2604", "non_coding_gene_count": "56", "pubmed_id": "31076431" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-05-24", "dateModified": "2019-05-24", "datePublished": "2019-05-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Mariprofundus erugo" ], "sample_taxid": [ "2528639" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Mallard Creek, Washington, NC" ], "sample_host_location_id": [], "data_size": "0.819 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)": "2894871", "Number of Sequences": "44", "Longest Sequences (bp)": "412590", "N50 (bp)": "236195", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "54.7", "Number of CDSs": "2616", "Average Protein Length": "327.8", "Coding Ratio (%)": "88.9", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mariprofundus erugo", "strain": "strain=P3", "accession": "GCA_005818865.1", "taxid": 2528639, "species_taxid": 2528639, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 948, "total_fragments": 950, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mariprofundus ferrooxydans", "strain": "strain=PV-1", "accession": "GCA_000153765.1", "taxid": 314344, "species_taxid": 314344, "relation_to_type": "suspected-type", "validated": true, "ani": 77.9168, "matched_fragments": 262, "total_fragments": 950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mariprofundus ferrinatatus", "strain": "strain=CP-8", "accession": "GCA_002795825.1", "taxid": 1921087, "species_taxid": 1921087, "relation_to_type": "type", "validated": true, "ani": 77.2123, "matched_fragments": 140, "total_fragments": 950, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_005818865.1", "gtdb_species": "s__Mariprofundus erugo", "ani": 100.0, "matched_fragments": 948, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000153765.1", "gtdb_species": "s__Mariprofundus ferrooxydans", "ani": 77.9168, "matched_fragments": 262, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.65", "min_intra_species_ani": "97.77", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_002791575.1", "gtdb_species": "s__Mariprofundus sp002791575", "ani": 77.6357, "matched_fragments": 297, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.85", "min_intra_species_ani": "99.62", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002795825.1", "gtdb_species": "s__Mariprofundus ferrinatatus", "ani": 77.2123, "matched_fragments": 140, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "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_013387475.1", "gtdb_species": "s__Mariprofundus sp013387475", "ani": 77.1548, "matched_fragments": 171, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "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_013387455.1", "gtdb_species": "s__Mariprofundus sp013387455", "ani": 76.8813, "matched_fragments": 168, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "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_001895085.1", "gtdb_species": "s__Mariprofundus micogutta", "ani": 76.5876, "matched_fragments": 129, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "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_003665155.1", "gtdb_species": "s__Mariprofundus sp003665155", "ani": 76.5862, "matched_fragments": 89, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "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_015485035.1", "gtdb_species": "s__Mariprofundus sp015485035", "ani": 76.5839, "matched_fragments": 118, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__Mariprofundus", "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_002791545.1", "gtdb_species": "s__CG1-02-49-23 sp002791545", "ani": 76.5616, "matched_fragments": 70, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__CG1-02-49-23", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.78", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_001871195.1", "gtdb_species": "s__UBA1543 sp001871195", "ani": 76.2942, "matched_fragments": 93, "total_fragments": 950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Zetaproteobacteria;o__Mariprofundales;f__Mariprofundaceae;g__UBA1543", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 7, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 25.0, "optimum_ph": 6.35, "genome_size": 2657476.666, "gc_content": 48.76, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 1.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Mariprofundus", "erugo" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }