{ "type": "genome", "identifier": "GCA_902780945.1", "organism": "Fibrobacter succinogenes", "title": "Fibrobacter succinogenes", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902780945.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6150761", "wgs_master": "CACZHM000000000.1", "refseq_category": "na", "taxid": "833", "species_taxid": "833", "organism_name": "Fibrobacter succinogenes", "infraspecific_name": "", "isolate": "RUG12625", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG12625", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "GCF_902780945.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/780/945/GCA_902780945.1_Rumen_uncultured_genome_RUG12625", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-17", "dateModified": "2020-02-17", "datePublished": "2020-02-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Fibrobacter succinogenes" ], "sample_taxid": [ "833" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "1.008 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 88.26, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3533533", "Number of Sequences": "45", "Longest Sequences (bp)": "360304", "N50 (bp)": "165144", "Gap Ratio (%)": "0.001302", "GCcontent (%)": "48.3", "Number of CDSs": "2849", "Average Protein Length": "366.2", "Coding Ratio (%)": "88.6", "Number of rRNAs": "0", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Fibrobacter succinogenes subsp. succinogenes", "strain": "strain=S85", "accession": "GCA_000146505.1", "taxid": 834, "species_taxid": 833, "relation_to_type": "type", "validated": true, "ani": 89.2072, "matched_fragments": 873, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fibrobacter succinogenes subsp. succinogenes", "strain": "strain=S85", "accession": "GCA_000024665.1", "taxid": 834, "species_taxid": 833, "relation_to_type": "type", "validated": true, "ani": 89.1991, "matched_fragments": 873, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hallerella succinigenes", "strain": "strain=UWS3", "accession": "GCA_002797675.1", "taxid": 1896222, "species_taxid": 1896222, "relation_to_type": "type", "validated": true, "ani": 78.3923, "matched_fragments": 195, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hallerella porci", "strain": "strain=UWS4", "accession": "GCA_003148885.1", "taxid": 1945871, "species_taxid": 1945871, "relation_to_type": "type", "validated": true, "ani": 77.5272, "matched_fragments": 85, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 88.26, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002210345.1", "gtdb_species": "s__Fibrobacter sp002210345", "ani": 97.3624, "matched_fragments": 1060, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.16", "min_intra_species_ani": "96.29", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.80", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_900215325.1", "gtdb_species": "s__Fibrobacter sp900215325", "ani": 89.8045, "matched_fragments": 890, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.50", "min_intra_species_ani": "97.09", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_002210425.1", "gtdb_species": "s__Fibrobacter elongatus", "ani": 89.4041, "matched_fragments": 878, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.37", "min_intra_species_ani": "97.19", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900177805.1", "gtdb_species": "s__Fibrobacter sp900177805", "ani": 89.241, "matched_fragments": 890, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.22", "min_intra_species_ani": "97.22", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000146505.1", "gtdb_species": "s__Fibrobacter succinogenes", "ani": 89.2072, "matched_fragments": 873, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "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_902791475.1", "gtdb_species": "s__Fibrobacter succinogenes_J", "ani": 89.0807, "matched_fragments": 864, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.39", "min_intra_species_ani": "95.39", "mean_intra_species_af": "0.76", "min_intra_species_af": "0.76", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002394865.1", "gtdb_species": "s__Fibrobacter sp002394865", "ani": 88.5784, "matched_fragments": 889, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900143015.1", "gtdb_species": "s__Fibrobacter sp900143015", "ani": 86.6892, "matched_fragments": 819, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.36", "min_intra_species_ani": "97.36", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902779055.1", "gtdb_species": "s__Fibrobacter succinogenes_K", "ani": 86.649, "matched_fragments": 822, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "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_902762795.1", "gtdb_species": "s__Fibrobacter succinogenes_E", "ani": 85.4, "matched_fragments": 813, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Fibrobacterota;c__Fibrobacteria;o__Fibrobacterales;f__Fibrobacteraceae;g__Fibrobacter", "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": -0.097, "cell_length": -0.046, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 3806078.222, "gc_content": 48.062, "coding_genes": 3037.6, "rRNA16S_genes": 3.0, "tRNA_genes": 58.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Fibrobacterota", "c__Fibrobacteria", "o__Fibrobacterales", "f__Fibrobacteraceae", "g__Fibrobacter", "s__Fibrobacter sp002210345" ], "_genome_taxon": [ "Fibrobacter", "succinogenes", "d__Bacteria", "p__Fibrobacterota", "c__Fibrobacteria", "o__Fibrobacterales", "f__Fibrobacteraceae", "g__Fibrobacter", "s__Fibrobacter sp002210345", "Bacteria", "Fibrobacterota", "Fibrobacteria", "Fibrobacterales", "Fibrobacteraceae", "Fibrobacter", "Fibrobacter", "sp002210345" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }