{ "type": "genome", "identifier": "GCF_004364345.1", "organism": "Prosthecobacter fusiformis", "title": "Prosthecobacter fusiformis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004364345.1", "bioproject": "PRJNA224116", "biosample": "SAMN02745162", "wgs_master": "SOCA00000000.1", "refseq_category": "reference genome", "taxid": "48464", "species_taxid": "48464", "organism_name": "Prosthecobacter fusiformis", "infraspecific_name": "strain=ATCC 25309", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/22", "asm_name": "ASM436434v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_004364345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/364/345/GCF_004364345.1_ASM436434v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5828112", "genome_size_ungapped": "5826843", "gc_percent": "56.500000", "replicon_count": "0", "scaffold_count": "32", "contig_count": "32", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004364345.1-RS_2024_05_12", "annotation_date": "2024-05-12", "total_gene_count": "4654", "protein_coding_gene_count": "4578", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-22", "dateModified": "2019-03-22", "datePublished": "2019-03-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Prosthecobacter fusiformis" ], "sample_taxid": [ "48464" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:Michigan, USA" ], "sample_host_location_id": [], "data_size": "1.651 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)": "5828112", "Number of Sequences": "32", "Longest Sequences (bp)": "1528390", "N50 (bp)": "824780", "Gap Ratio (%)": "0.021774", "GCcontent (%)": "56.7", "Number of CDSs": "4659", "Average Protein Length": "371.7", "Coding Ratio (%)": "89.2", "Number of rRNAs": "6", "Number of tRNAs": "49", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Prosthecobacter fusiformis", "strain": "strain=ATCC 25309", "accession": "GCA_004364345.1", "taxid": 48464, "species_taxid": 48464, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1925, "total_fragments": 1926, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prosthecobacter dejongeii", "strain": "strain=DSM 12251", "accession": "GCA_014203045.1", "taxid": 48465, "species_taxid": 48465, "relation_to_type": "type", "validated": true, "ani": 79.7491, "matched_fragments": 821, "total_fragments": 1926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prosthecobacter debontii", "strain": "strain=ATCC 700200", "accession": "GCA_900167535.1", "taxid": 48467, "species_taxid": 48467, "relation_to_type": "type", "validated": true, "ani": 78.3883, "matched_fragments": 624, "total_fragments": 1926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevifollis gellanilyticus", "strain": "strain=NBRC 108608", "accession": "GCA_007992435.1", "taxid": 748831, "species_taxid": 748831, "relation_to_type": "type", "validated": true, "ani": 77.454, "matched_fragments": 454, "total_fragments": 1926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prosthecobacter vanneervenii", "strain": "strain=DSM 12252", "accession": "GCA_014203095.1", "taxid": 48466, "species_taxid": 48466, "relation_to_type": "type", "validated": true, "ani": 77.3049, "matched_fragments": 324, "total_fragments": 1926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Verrucomicrobium spinosum", "strain": "strain=JCM 18804", "accession": "GCA_001313125.1", "taxid": 2736, "species_taxid": 2736, "relation_to_type": "type", "validated": true, "ani": 76.4514, "matched_fragments": 167, "total_fragments": 1926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Verrucomicrobium spinosum", "strain": "strain=DSM 4136", "accession": "GCA_000172155.1", "taxid": 2736, "species_taxid": 2736, "relation_to_type": "type", "validated": true, "ani": 76.4469, "matched_fragments": 170, "total_fragments": 1926, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003506995.1", "gtdb_species": "s__Prosthecobacter sp003506995", "ani": 76.7572, "matched_fragments": 229, "total_fragments": 1926, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__Verrucomicrobiaceae;g__Prosthecobacter", "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_000172155.1", "gtdb_species": "s__Verrucomicrobium spinosum", "ani": 76.457, "matched_fragments": 169, "total_fragments": 1926, "gtdb_taxonomy": "d__Bacteria;p__Verrucomicrobiota;c__Verrucomicrobiae;o__Verrucomicrobiales;f__Verrucomicrobiaceae;g__Verrucomicrobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.88", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.523, "cell_length": 0.255, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 30.0, "optimum_ph": 6.75, "genome_size": 5828112.0, "gc_content": null, "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": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Prosthecobacter", "fusiformis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }