{ "type": "genome", "identifier": "GCF_900114545.1", "organism": "Halanaerobium salsuginis", "title": "Halanaerobium salsuginis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900114545.1", "bioproject": "PRJNA224116", "biosample": "SAMN02983006", "wgs_master": "FOTI00000000.1", "refseq_category": "reference genome", "taxid": "29563", "species_taxid": "29563", "organism_name": "Halanaerobium salsuginis", "infraspecific_name": "strain=ATCC 51327", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/02", "asm_name": "IMG-taxon 2597490369 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900114545.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/114/545/GCF_900114545.1_IMG-taxon_2597490369_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2991186", "genome_size_ungapped": "2990181", "gc_percent": "32.500000", "replicon_count": "0", "scaffold_count": "100", "contig_count": "100", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900114545.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "2894", "protein_coding_gene_count": "2788", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-02", "dateModified": "2016-11-02", "datePublished": "2016-11-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Halanaerobium salsuginis" ], "sample_taxid": [ "29563" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:Payne County, Oklahoma, USA" ], "sample_host_location_id": [], "data_size": "0.826 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)": "2991186", "Number of Sequences": "100", "Longest Sequences (bp)": "166833", "N50 (bp)": "58943", "Gap Ratio (%)": "0.033599", "GCcontent (%)": "32.7", "Number of CDSs": "2733", "Average Protein Length": "324.1", "Coding Ratio (%)": "88.8", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halanaerobium salsuginis", "strain": "strain=ATCC 51327", "accession": "GCA_900114545.1", "taxid": 29563, "species_taxid": 29563, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 943, "total_fragments": 946, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halanaerobium kushneri", "strain": "strain=ATCC 700103", "accession": "GCA_900156285.1", "taxid": 56779, "species_taxid": 56779, "relation_to_type": "type", "validated": true, "ani": 78.8516, "matched_fragments": 332, "total_fragments": 946, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halanaerobium congolense", "strain": "strain=DSMZ 11287", "accession": "GCA_004366375.1", "taxid": 54121, "species_taxid": 54121, "relation_to_type": "type", "validated": true, "ani": 78.6227, "matched_fragments": 295, "total_fragments": 946, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halanaerobium praevalens", "strain": "strain=DSM 2228", "accession": "GCA_000165465.1", "taxid": 2331, "species_taxid": 2331, "relation_to_type": "type", 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100.0, "matched_fragments": 943, "total_fragments": 946, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_F;c__Halanaerobiia;o__Halanaerobiales;f__Halanaerobiaceae;g__Halanaerobium", "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": "GCF_900156285.1", "gtdb_species": "s__Halanaerobium kushneri", "ani": 78.8577, "matched_fragments": 331, "total_fragments": 946, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_F;c__Halanaerobiia;o__Halanaerobiales;f__Halanaerobiaceae;g__Halanaerobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.73", "min_intra_species_ani": "97.73", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004362045.1", "gtdb_species": "s__Halanaerobium saccharolyticum_C", "ani": 78.6565, "matched_fragments": 324, "total_fragments": 946, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_F;c__Halanaerobiia;o__Halanaerobiales;f__Halanaerobiaceae;g__Halanaerobium", "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_004366375.1", "gtdb_species": "s__Halanaerobium congolense", "ani": 78.6227, "matched_fragments": 295, "total_fragments": 946, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_F;c__Halanaerobiia;o__Halanaerobiales;f__Halanaerobiaceae;g__Halanaerobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.80", "min_intra_species_ani": "95.58", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.73", "num_clustered_genomes": 19, "status": "-" }, { "accession": "GCF_000165465.1", "gtdb_species": "s__Halanaerobium praevalens", "ani": 78.5859, "matched_fragments": 276, 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"gtdb_taxonomy": "d__Bacteria;p__Firmicutes_F;c__Halanaerobiia;o__Halanaerobiales;f__Halanaerobiaceae;g__Halanaerobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000166415.1", "gtdb_species": "s__Halanaerobium hydrogeniformans", "ani": 77.8474, "matched_fragments": 195, "total_fragments": 946, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_F;c__Halanaerobiia;o__Halanaerobiales;f__Halanaerobiaceae;g__Halanaerobium", "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": -0.523, "cell_length": 0.414, "doubling_h": 0.54, "growth_tmp": 37.0, "optimum_tmp": 38.5, "optimum_ph": 9.2, 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