{ "type": "genome", "identifier": "GCF_003610555.1", "organism": "Marinifilum flexuosum", "title": "Marinifilum flexuosum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003610555.1", "bioproject": "PRJNA224116", "biosample": "SAMN06264853", "wgs_master": "RAPQ00000000.1", "refseq_category": "reference genome", "taxid": "1117708", "species_taxid": "1117708", "organism_name": "Marinifilum flexuosum", "infraspecific_name": "strain=DSM 21950", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/02", "asm_name": "ASM361055v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003610555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/610/555/GCF_003610555.1_ASM361055v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5169742", "genome_size_ungapped": "5169472", "gc_percent": "36.000000", "replicon_count": "0", "scaffold_count": "16", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003610555.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4214", "protein_coding_gene_count": "4113", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-02", "dateModified": "2018-10-02", "datePublished": "2018-10-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Marinifilum flexuosum" ], "sample_taxid": [ "1117708" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.446 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)": "5169742", "Number of Sequences": "16", "Longest Sequences (bp)": "2432619", "N50 (bp)": "870577", "Gap Ratio (%)": "0.005223", "GCcontent (%)": "35.9", "Number of CDSs": "4083", "Average Protein Length": "359.6", "Coding Ratio (%)": "85.2", "Number of rRNAs": "7", "Number of tRNAs": "80", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Marinifilum flexuosum", "strain": "strain=DSM 21950", "accession": "GCA_003610555.1", "taxid": 1117708, "species_taxid": 1117708, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1713, "total_fragments": 1715, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Marinifilum breve", "strain": "strain=JC075", "accession": "GCA_003202155.1", "taxid": 2184082, "species_taxid": 2184082, "relation_to_type": "type", "validated": true, "ani": 91.3214, "matched_fragments": 1436, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinifilum fragile", "strain": "strain=JCM 15579", "accession": "GCA_001310955.1", "taxid": 570161, "species_taxid": 570161, "relation_to_type": "type", "validated": true, "ani": 89.1484, "matched_fragments": 1306, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinifilum caeruleilacunae", "strain": "strain=JC070", "accession": "GCA_013141825.1", "taxid": 2499076, "species_taxid": 2499076, "relation_to_type": "type", "validated": true, "ani": 82.4507, "matched_fragments": 993, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ancylomarina subtilis", "strain": "strain=DSM 28825", "accession": "GCA_004217115.1", "taxid": 1639035, "species_taxid": 1639035, "relation_to_type": "type", "validated": true, "ani": 78.1417, "matched_fragments": 242, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Labilibaculum manganireducens", "strain": "strain=59.10-2M", "accession": "GCA_002843385.1", "taxid": 1940525, "species_taxid": 1940525, "relation_to_type": "type", "validated": true, "ani": 78.0962, "matched_fragments": 412, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Labilibaculum filiforme", "strain": "strain=59.16B", "accession": "GCA_002843315.1", "taxid": 1940526, "species_taxid": 1940526, "relation_to_type": "type", "validated": true, "ani": 77.9562, "matched_fragments": 427, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Labilibaculum antarcticum", "strain": "strain=SPP2", "accession": "GCA_002356295.1", "taxid": 1717717, "species_taxid": 1717717, "relation_to_type": "type", "validated": true, "ani": 77.7507, "matched_fragments": 442, "total_fragments": 1715, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003610555.1", "gtdb_species": "s__Marinifilum flexuosum", "ani": 100.0, "matched_fragments": 1714, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Marinifilum", "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_003202155.1", "gtdb_species": "s__Marinifilum breve", "ani": 91.3113, "matched_fragments": 1437, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Marinifilum", "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_001310955.1", "gtdb_species": "s__Marinifilum fragile", "ani": 89.1596, "matched_fragments": 1305, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Marinifilum", "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_013141825.1", "gtdb_species": "s__Marinifilum sp013141825", "ani": 82.4747, "matched_fragments": 990, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Marinifilum", "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_009295825.1", "gtdb_species": "s__Marinifilum sp009295825", "ani": 79.7582, "matched_fragments": 797, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Marinifilum", "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_016342745.1", "gtdb_species": "s__Labilibaculum sp016342745", "ani": 78.343, "matched_fragments": 493, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Labilibaculum", "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_004217115.1", "gtdb_species": "s__Ancylomarina subtilis", "ani": 78.1455, "matched_fragments": 243, "total_fragments": 1715, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Ancylomarina", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 25.0, "optimum_ph": null, "genome_size": 5169742.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "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": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Marinifilum", "flexuosum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }