{ "type": "genome", "identifier": "GCF_002844395.1", "organism": "Acetivibrio saccincola", "title": "Acetivibrio saccincola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Bielefeld University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002844395.1", "bioproject": "PRJNA224116", "biosample": "SAMN07503206", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1677857", "species_taxid": "1677857", "organism_name": "Acetivibrio saccincola", "infraspecific_name": "strain=GGR1", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/12/18", "asm_name": "ASM284439v1", "asm_submitter": "Bielefeld University", "gbrs_paired_asm": "GCA_002844395.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/844/395/GCF_002844395.1_ASM284439v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3604547", "genome_size_ungapped": "3604547", "gc_percent": "35.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002844395.1-RS_2024_04_12", "annotation_date": "2024-04-12", "total_gene_count": "3323", "protein_coding_gene_count": "3188", "non_coding_gene_count": "64", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-12-18", "dateModified": "2017-12-18", "datePublished": "2017-12-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Acetivibrio saccincola" ], "sample_taxid": [ "1677857" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany: Munich" ], "sample_host_location_id": [], "data_size": "0.975 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)": "3604547", "Number of Sequences": "1", "Longest Sequences (bp)": "3604547", "N50 (bp)": "3604547", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.8", "Number of CDSs": "3263", "Average Protein Length": "311.5", "Coding Ratio (%)": "84.6", "Number of rRNAs": "9", "Number of tRNAs": "51", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Acetivibrio saccincola", "strain": "strain=GGR1", "accession": "GCA_002844395.1", "taxid": 1677857, "species_taxid": 1677857, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1196, "total_fragments": 1201, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Acetivibrio thermocellus", "strain": "strain=ATCC 27405", "accession": "GCA_000015865.1", "taxid": 1515, "species_taxid": 1515, "relation_to_type": "type", "validated": true, "ani": 79.9665, "matched_fragments": 149, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetivibrio straminisolvens", "strain": "strain=JCM 21531", "accession": "GCA_000521465.1", "taxid": 253314, "species_taxid": 253314, "relation_to_type": "type", "validated": true, "ani": 79.6955, "matched_fragments": 126, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetivibrio mesophilus", "strain": "strain=N2K1", "accession": "GCA_004102745.1", "taxid": 2487273, "species_taxid": 2487273, "relation_to_type": "type", "validated": true, "ani": 77.8262, "matched_fragments": 120, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobacteroides cellulosolvens", "strain": "strain=DSM 2933", "accession": "GCA_001262605.1", "taxid": 35825, "species_taxid": 35825, "relation_to_type": "type", "validated": true, "ani": 76.8505, "matched_fragments": 67, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobacteroides cellulosolvens", "strain": "strain=DSM 2933", "accession": "GCA_000745845.1", "taxid": 35825, "species_taxid": 35825, "relation_to_type": "type", "validated": true, "ani": 75.429, "matched_fragments": 65, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002844395.1", "gtdb_species": "s__Herbivorax saccincola", "ani": 100.0, "matched_fragments": 1193, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Herbivorax", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.55", "min_intra_species_ani": "99.29", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.85", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCA_012517995.1", "gtdb_species": "s__Herbivorax sp012517995", "ani": 85.5979, "matched_fragments": 700, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Herbivorax", "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_012841175.1", "gtdb_species": "s__Herbivorax sp012841175", "ani": 83.6296, "matched_fragments": 333, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Herbivorax", "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_000015865.1", "gtdb_species": "s__Hungateiclostridium thermocellum", "ani": 80.103, "matched_fragments": 151, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Hungateiclostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "99.46", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_004102745.1", "gtdb_species": "s__Hungateiclostridium mesophilum", "ani": 77.8689, "matched_fragments": 120, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Hungateiclostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "99.52", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_012523755.1", "gtdb_species": "s__Hungateiclostridium sp012523755", "ani": 77.3234, "matched_fragments": 116, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Hungateiclostridium", "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_008125075.1", "gtdb_species": "s__Herbivorax alkalicellulosi", "ani": 77.0939, "matched_fragments": 258, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Herbivorax", "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_001262605.1", "gtdb_species": "s__Pseudobacteroides cellulosolvens", "ani": 76.6302, "matched_fragments": 68, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__DSM-2933;g__Pseudobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_012519925.1", "gtdb_species": "s__Acetivibrio sp012519925", "ani": 76.452, "matched_fragments": 106, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Acetivibrionales;f__Acetivibrionaceae;g__Acetivibrio", "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": -0.412, "cell_length": 0.238, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 35.0, "optimum_ph": null, "genome_size": 4895402.0, "gc_content": 35.54, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "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": [ "Acetivibrio", "saccincola" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }