{ "type": "genome", "identifier": "GCF_030409685.1", "organism": "Ferruginibacter paludis", "title": "Ferruginibacter paludis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Institute of Microbiology of the Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030409685.1", "bioproject": "PRJNA224116", "biosample": "SAMN35653704", "wgs_master": "JAUFQJ000000000.1", "refseq_category": "reference genome", "taxid": "1310417", "species_taxid": "1310417", "organism_name": "Ferruginibacter paludis", "infraspecific_name": "strain=CECT 8366", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/07/05", "asm_name": "ASM3040968v1", "asm_submitter": "The Institute of Microbiology of the Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_030409685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/409/685/GCF_030409685.1_ASM3040968v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6926127", "genome_size_ungapped": "6926127", "gc_percent": "41.000000", "replicon_count": "0", "scaffold_count": "34", "contig_count": "34", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030409685.1-RS_2024_07_07", "annotation_date": "2024-07-07", "total_gene_count": "5649", "protein_coding_gene_count": "5572", "non_coding_gene_count": "57", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-07-05", "dateModified": "2023-07-05", "datePublished": "2023-07-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Ferruginibacter paludis" ], "sample_taxid": [ "1310417" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.953 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)": "6926127", "Number of Sequences": "34", "Longest Sequences (bp)": "907666", "N50 (bp)": "564126", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.9", "Number of CDSs": "5509", "Average Protein Length": "358.3", "Coding Ratio (%)": "85.5", "Number of rRNAs": "2", "Number of tRNAs": "48", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ferruginibacter albus", "strain": "strain=KIS38-8", "accession": "GCA_020042285.1", "taxid": 2875540, "species_taxid": 2875540, "relation_to_type": "type", "validated": true, "ani": 76.6542, "matched_fragments": 139, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Panacibacter ginsenosidivorans", "strain": "strain=Gsoil1550", "accession": "GCA_007971225.1", "taxid": 1813871, "species_taxid": 1813871, "relation_to_type": "type", "validated": true, "ani": 76.1337, "matched_fragments": 121, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacibacter luteus", "strain": "strain=TTM-7", "accession": "GCA_004118265.1", "taxid": 2508719, "species_taxid": 2508719, "relation_to_type": "type", "validated": true, "ani": 75.9941, "matched_fragments": 119, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phnomibacter ginsenosidimutans", "strain": "strain=SB-02", "accession": "GCA_009740285.1", "taxid": 2676868, "species_taxid": 2676868, "relation_to_type": "type", "validated": true, "ani": 75.9437, "matched_fragments": 68, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavisolibacter ginsengisoli", "strain": "strain=DSM 18119", "accession": "GCA_900129295.1", "taxid": 462367, "species_taxid": 462367, "relation_to_type": "type", "validated": true, "ani": 75.9281, "matched_fragments": 63, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavihumibacter cheonanensis", "strain": "strain=WS16", "accession": "GCA_022352215.1", "taxid": 1442385, "species_taxid": 1442385, "relation_to_type": "type", "validated": true, "ani": 75.8625, "matched_fragments": 65, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminibacterium salmoneum", "strain": "strain=NBRC 103935", "accession": "GCA_000511175.1", "taxid": 426421, "species_taxid": 426421, "relation_to_type": "type", "validated": true, "ani": 75.8151, "matched_fragments": 68, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Segetibacter koreensis", "strain": "strain=DSM 18137", "accession": "GCA_000374045.1", "taxid": 398037, "species_taxid": 398037, "relation_to_type": "type", "validated": true, "ani": 75.6764, "matched_fragments": 91, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrotalea lipotrueae", "strain": "strain=TMF_100", "accession": "GCA_019249625.1", "taxid": 2803817, "species_taxid": 2803817, "relation_to_type": "type", "validated": true, "ani": 75.6722, "matched_fragments": 80, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agriterribacter humi", "strain": "strain=YJ03", "accession": "GCA_009192765.1", "taxid": 1104781, "species_taxid": 1104781, "relation_to_type": "type", "validated": true, "ani": 75.6558, "matched_fragments": 90, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Foetidibacter luteolus", "strain": "strain=YG09", "accession": "GCA_009650435.1", "taxid": 2608880, "species_taxid": 2608880, "relation_to_type": "type", "validated": true, "ani": 75.65, "matched_fragments": 113, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga niastensis", "strain": "strain=DSM 24859", "accession": "GCA_003014755.1", "taxid": 536980, "species_taxid": 536980, "relation_to_type": "type", "validated": true, "ani": 75.6493, "matched_fragments": 63, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrotalea flava", "strain": "strain=CCUG 51397", "accession": "GCA_001623405.1", "taxid": 714549, "species_taxid": 714549, "relation_to_type": "suspected-type", "validated": true, "ani": 75.5863, "matched_fragments": 89, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deminuibacter soli", "strain": "strain=K23C18032701", "accession": "GCA_003412455.1", "taxid": 2291815, "species_taxid": 2291815, "relation_to_type": "type", "validated": true, "ani": 75.5512, "matched_fragments": 98, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella caeni", "strain": "strain=HX-16-21", "accession": "GCA_004834005.1", "taxid": 2569763, "species_taxid": 2569763, "relation_to_type": "type", "validated": true, "ani": 75.3195, "matched_fragments": 79, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter gotjawali", "strain": "strain=CECT 8628", "accession": "GCA_014191635.1", "taxid": 1550579, "species_taxid": 1550579, "relation_to_type": "type", "validated": true, "ani": 75.1372, "matched_fragments": 50, "total_fragments": 2292, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_014377975.1", "gtdb_species": "s__Ferruginibacter sp014377975", "ani": 79.485, "matched_fragments": 723, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016715365.1", "gtdb_species": "s__Ferruginibacter sp016715365", "ani": 77.3896, "matched_fragments": 212, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.54", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_013141115.1", "gtdb_species": "s__Ferruginibacter sp013141115", "ani": 76.9189, "matched_fragments": 275, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_017983695.1", "gtdb_species": "s__Ferruginibacter sp017983695", "ani": 76.8903, "matched_fragments": 246, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016710935.1", "gtdb_species": "s__Ferruginibacter sp016710935", "ani": 76.8808, "matched_fragments": 212, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_014379625.1", "gtdb_species": "s__Ferruginibacter sp014379625", "ani": 76.8521, "matched_fragments": 283, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016722465.1", "gtdb_species": "s__Ferruginibacter sp016722465", "ani": 76.7764, "matched_fragments": 263, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_013288745.1", "gtdb_species": "s__Ferruginibacter sp013288745", "ani": 76.7115, "matched_fragments": 87, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016786725.1", "gtdb_species": "s__Ferruginibacter sp016786725", "ani": 76.7089, "matched_fragments": 176, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_018266775.1", "gtdb_species": "s__Ferruginibacter sp018266775", "ani": 76.5735, "matched_fragments": 211, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_014379905.1", "gtdb_species": "s__Ferruginibacter sp014379905", "ani": 76.5594, "matched_fragments": 191, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016721385.1", "gtdb_species": "s__Ferruginibacter sp016721385", "ani": 76.5215, "matched_fragments": 122, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016710745.1", "gtdb_species": "s__Ferruginibacter sp016710745", "ani": 76.4814, "matched_fragments": 148, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_018268155.1", "gtdb_species": "s__Ferruginibacter sp018268155", "ani": 76.3801, "matched_fragments": 165, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_903837525.1", "gtdb_species": "s__Ferruginibacter sp903837525", "ani": 76.2845, "matched_fragments": 81, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_016719015.1", "gtdb_species": "s__JJ008 sp016719015", "ani": 75.9982, "matched_fragments": 80, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__JJ008", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "99.17", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCA_903881425.1", "gtdb_species": "s__CAILAF01 sp903881425", "ani": 75.4945, "matched_fragments": 60, "total_fragments": 2292, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__CAILAF01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.80", "min_intra_species_ani": "99.80", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, "cell_length": 0.238, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "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": 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": [ "Ferruginibacter", "paludis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }