{ "type": "genome", "identifier": "GCF_002251085.2", "organism": "Romboutsia maritimum", "title": "Romboutsia maritimum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CHU de Quebec - Universite Laval", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002251085.2", "bioproject": "PRJNA224116", "biosample": "SAMN07342383", "wgs_master": "NOJZ00000000.2", "refseq_category": "reference genome", "taxid": "2020948", "species_taxid": "2020948", "organism_name": "Romboutsia maritimum", "infraspecific_name": "strain=CCRI-22766", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/11", "asm_name": "ASM225108v2", "asm_submitter": "CHU de Quebec - Universite Laval", "gbrs_paired_asm": "GCA_002251085.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/251/085/GCF_002251085.2_ASM225108v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2828385", "genome_size_ungapped": "2828385", "gc_percent": "27.000000", "replicon_count": "0", "scaffold_count": "108", "contig_count": "108", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002251085.2-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "2850", "protein_coding_gene_count": "2720", "non_coding_gene_count": "97", "pubmed_id": "29025937" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-11", "dateModified": "2018-08-11", "datePublished": "2018-08-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Romboutsia maritimum" ], "sample_taxid": [ "2020948" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "New Zealand" ], "sample_host_location_id": [], "data_size": "0.768 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2828385", "Number of Sequences": "108", "Longest Sequences (bp)": "456453", "N50 (bp)": "118129", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "27.1", "Number of CDSs": "2691", "Average Protein Length": "295.9", "Coding Ratio (%)": "84.4", "Number of rRNAs": "14", "Number of tRNAs": "44", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "[Clostridium] dakarense", "strain": "strain=FF1", "accession": "GCA_000499525.1", "taxid": 1301100, "species_taxid": 1301100, "relation_to_type": "type", "validated": true, "ani": 80.258, "matched_fragments": 434, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Romboutsia lituseburensis", "strain": "strain=A25K", "accession": "GCA_900002825.1", "taxid": 1537, "species_taxid": 1537, "relation_to_type": "type", "validated": true, "ani": 80.0387, "matched_fragments": 480, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Romboutsia weinsteinii", "strain": "strain=CCRI-19649", "accession": "GCA_002250835.2", "taxid": 2020949, "species_taxid": 2020949, "relation_to_type": "type", "validated": true, "ani": 80.036, "matched_fragments": 409, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Romboutsia ilealis", "strain": "strain=CRIB", "accession": "GCA_900015215.1", "taxid": 1115758, "species_taxid": 1115758, "relation_to_type": "type", "validated": true, "ani": 80.0024, "matched_fragments": 363, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Romboutsia hominis", "strain": "strain=FRIFI", "accession": "GCA_900002575.1", "taxid": 1507512, "species_taxid": 1507512, "relation_to_type": "type", "validated": true, "ani": 79.965, "matched_fragments": 409, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Romboutsia lituseburensis", "strain": "strain=DSM 797", "accession": "GCA_900103615.1", "taxid": 1537, "species_taxid": 1537, "relation_to_type": "type", "validated": true, "ani": 79.9554, "matched_fragments": 470, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Romboutsia timonensis", "strain": "strain=Marseille-P326", "accession": "GCA_900106845.1", "taxid": 1776391, "species_taxid": 1776391, "relation_to_type": "type", "validated": true, "ani": 79.864, "matched_fragments": 385, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridioides difficile", "strain": "strain=FDAARGOS_1525", "accession": "GCA_020341515.1", "taxid": 1496, "species_taxid": 1496, "relation_to_type": "type", "validated": true, "ani": 79.1947, "matched_fragments": 364, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridioides difficile", "strain": "strain=DSM 1296", "accession": "GCA_000438845.1", "taxid": 1496, "species_taxid": 1496, "relation_to_type": "type", "validated": true, "ani": 79.0685, "matched_fragments": 357, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paeniclostridium sordellii", "strain": "strain=ATCC9714", "accession": "GCA_000953675.1", "taxid": 1505, "species_taxid": 1505, "relation_to_type": "type", "validated": true, "ani": 78.9859, "matched_fragments": 363, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridioides difficile", "strain": "strain=ATCC 9689", "accession": "GCA_000376285.1", "taxid": 1496, "species_taxid": 1496, "relation_to_type": "type", "validated": true, "ani": 78.9767, "matched_fragments": 355, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridioides mangenotii", "strain": "strain=DSM 1289", "accession": "GCA_017873185.1", "taxid": 1540, "species_taxid": 1540, "relation_to_type": "suspected-type", "validated": true, "ani": 77.5468, "matched_fragments": 175, "total_fragments": 891, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002251085.2", "gtdb_species": "s__Romboutsia_B maritimum", "ani": 100.0, "matched_fragments": 890, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia_B", "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": "conclusive" }, { "accession": "GCA_000686145.1", "gtdb_species": "s__Romboutsia_D sp000686145", "ani": 80.6007, "matched_fragments": 471, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia_D", "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_904418825.1", "gtdb_species": "s__Romboutsia sp904418825", "ani": 80.1297, "matched_fragments": 321, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.17", "min_intra_species_ani": "99.17", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900015215.1", "gtdb_species": "s__Romboutsia ilealis", "ani": 80.0583, "matched_fragments": 360, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.59", "min_intra_species_ani": "98.59", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900604495.1", "gtdb_species": "s__GCA-900066495 sp900066495", "ani": 80.0413, "matched_fragments": 385, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__GCA-900066495", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.74", "min_intra_species_ani": "99.60", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002250835.2", "gtdb_species": "s__Romboutsia_A weinsteinii", "ani": 80.024, "matched_fragments": 408, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia_A", "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_017590215.1", "gtdb_species": "s__CCUG-7971 sp017590215", "ani": 80.0126, "matched_fragments": 470, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__CCUG-7971", "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_902362365.1", "gtdb_species": "s__GCA-900066495 sp902362365", "ani": 80.008, "matched_fragments": 399, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__GCA-900066495", "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_900002575.1", "gtdb_species": "s__Romboutsia_C hominis", "ani": 79.9679, "matched_fragments": 407, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.29", "min_intra_species_ani": "95.25", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_014323405.1", "gtdb_species": "s__GCA-900066495 sp014323405", "ani": 79.9676, "matched_fragments": 400, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__GCA-900066495", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_012317385.1", "gtdb_species": "s__GCA-900066495 sp900545985", "ani": 79.9466, "matched_fragments": 377, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__GCA-900066495", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "98.75", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_017425305.1", "gtdb_species": "s__Paraclostridium sp017425305", "ani": 79.8083, "matched_fragments": 142, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Paraclostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.54", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900106845.1", "gtdb_species": "s__Romboutsia timonensis", "ani": 79.8065, "matched_fragments": 389, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Romboutsia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001077535.1", "gtdb_species": "s__Clostridioides difficile", "ani": 79.1467, "matched_fragments": 357, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Clostridioides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "95.94", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.86", "num_clustered_genomes": 2225, "status": "-" }, { "accession": "GCF_017873185.1", "gtdb_species": "s__Clostridioides_A mangenotii", "ani": 77.5373, "matched_fragments": 177, "total_fragments": 891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Peptostreptococcales;f__Peptostreptococcaceae;g__Clostridioides_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.86", "min_intra_species_ani": "96.86", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.146, "cell_length": 0.491, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 3758965.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 1.0, "motility": null, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "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": [ "Romboutsia", "maritimum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }