{ "type": "genome", "identifier": "GCF_014643735.1", "organism": "Amylibacter cionae", "title": "Amylibacter cionae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014643735.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245090", "wgs_master": "BMKA00000000.1", "refseq_category": "reference genome", "taxid": "2035344", "species_taxid": "2035344", "organism_name": "Amylibacter cionae", "infraspecific_name": "strain=CGMCC 1.15880", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464373v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014643735.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/643/735/GCF_014643735.1_ASM1464373v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4190336", "genome_size_ungapped": "4190336", "gc_percent": "56.500000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014643735.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3981", "protein_coding_gene_count": "3897", "non_coding_gene_count": "48", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Amylibacter cionae" ], "sample_taxid": [ "2035344" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.187 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)": "4190336", "Number of Sequences": "29", "Longest Sequences (bp)": "1172599", "N50 (bp)": "1153440", "Gap Ratio (%)": "0.000024", "GCcontent (%)": "56.5", "Number of CDSs": "3942", "Average Protein Length": "319.4", "Coding Ratio (%)": "90.1", "Number of rRNAs": "3", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sulfitobacter indolifex", "strain": "strain=DSM 14862", "accession": "GCA_022788655.1", "taxid": 225422, "species_taxid": 225422, "relation_to_type": "type", "validated": true, "ani": 77.842, "matched_fragments": 169, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevirhabdus pacifica", "strain": "strain=22DY15", "accession": "GCA_002094875.1", "taxid": 1267768, "species_taxid": 1267768, "relation_to_type": "type", "validated": true, "ani": 77.799, "matched_fragments": 124, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassococcus halodurans", "strain": "strain=DSM 26915", "accession": "GCA_900108225.1", "taxid": 373675, "species_taxid": 373675, "relation_to_type": "type", "validated": true, "ani": 77.7947, "matched_fragments": 149, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actibacterium lipolyticum", "strain": "strain=CECT 8621", "accession": "GCA_900184935.1", "taxid": 1524263, "species_taxid": 1524263, "relation_to_type": "type", "validated": true, "ani": 77.6993, "matched_fragments": 147, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shimia marina", "strain": "strain=CECT 7688", "accession": "GCA_001458175.1", "taxid": 321267, "species_taxid": 321267, "relation_to_type": "type", "validated": true, "ani": 77.6388, "matched_fragments": 125, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevirhabdus pacifica", "strain": "strain=DSM 27767", "accession": "GCA_002797755.1", "taxid": 1267768, "species_taxid": 1267768, "relation_to_type": "type", "validated": true, "ani": 77.4931, "matched_fragments": 127, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sagittula marina", "strain": "strain=DSM 102235", "accession": "GCA_014196795.1", "taxid": 943940, "species_taxid": 943940, "relation_to_type": "type", "validated": true, "ani": 77.4486, "matched_fragments": 134, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter pontiacus", "strain": "strain=DSM 10014", "accession": "GCA_900106935.1", "taxid": 60137, "species_taxid": 60137, "relation_to_type": "type", "validated": true, "ani": 77.386, "matched_fragments": 206, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shimia marina", "strain": "strain=DSM 26895", "accession": "GCA_900112745.1", "taxid": 321267, "species_taxid": 321267, "relation_to_type": "type", "validated": true, "ani": 77.3795, "matched_fragments": 124, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoprimorskyibacter insulae", "strain": "strain=CECT 8871", "accession": "GCA_900302505.1", "taxid": 1695997, "species_taxid": 1695997, "relation_to_type": "type", "validated": true, "ani": 77.2665, "matched_fragments": 166, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius gelatinovorus", "strain": "strain=CECT 4357", "accession": "GCA_001458355.1", "taxid": 53501, "species_taxid": 53501, "relation_to_type": "type", "validated": true, "ani": 77.0387, "matched_fragments": 127, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Litoreibacter albidus", "strain": "strain=DSM 26922", "accession": "GCA_900107015.1", "taxid": 670155, "species_taxid": 670155, "relation_to_type": "type", "validated": true, "ani": 77.0351, "matched_fragments": 140, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tritonibacter multivorans", "strain": "strain=CECT 7557", "accession": "GCA_001458415.1", "taxid": 928856, "species_taxid": 928856, "relation_to_type": "type", "validated": true, "ani": 77.0205, "matched_fragments": 152, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius gelatinovorus", "strain": "strain=DSM 5887", "accession": "GCA_900111045.1", "taxid": 53501, "species_taxid": 53501, "relation_to_type": "type", "validated": true, "ani": 76.8627, "matched_fragments": 133, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tritonibacter multivorans", "strain": "strain=DSM 26470", "accession": "GCA_900112515.1", "taxid": 928856, "species_taxid": 928856, "relation_to_type": "type", "validated": true, "ani": 76.8449, "matched_fragments": 152, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Antarcticimicrobium luteum", "strain": "strain=318-1", "accession": "GCA_004358185.1", "taxid": 2547397, "species_taxid": 2547397, "relation_to_type": "type", "validated": true, "ani": 76.7947, "matched_fragments": 163, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Litoreibacter arenae", "strain": "strain=DSM 19593", "accession": "GCA_000442275.2", "taxid": 491388, "species_taxid": 491388, "relation_to_type": "type", "validated": true, "ani": 76.7611, "matched_fragments": 151, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nioella nitratireducens", "strain": "strain=SSW136", "accession": "GCA_001879715.1", "taxid": 1287720, "species_taxid": 1287720, "relation_to_type": "type", "validated": true, "ani": 76.7151, "matched_fragments": 122, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Celeribacter litoreus", "strain": "strain=ASW11-22", "accession": "GCA_020165855.1", "taxid": 2876714, "species_taxid": 2876714, "relation_to_type": "type", "validated": true, "ani": 76.7088, "matched_fragments": 84, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimixticola soesokkakensis", "strain": "strain=CECT 8620", "accession": "GCA_900172375.1", "taxid": 1519096, "species_taxid": 1519096, "relation_to_type": "type", "validated": true, "ani": 76.6893, "matched_fragments": 117, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leisingera caerulea", "strain": "strain=DSM 24564", "accession": "GCA_000473325.1", "taxid": 506591, "species_taxid": 506591, "relation_to_type": "type", "validated": true, "ani": 76.6888, "matched_fragments": 152, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger aestuarii", "strain": "strain=AD8", "accession": "GCA_008930655.1", "taxid": 568098, "species_taxid": 568098, "relation_to_type": "type", "validated": true, "ani": 76.6882, "matched_fragments": 122, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leisingera aquimarina", "strain": "strain=DSM 24565", "accession": "GCA_000473165.1", "taxid": 476529, "species_taxid": 476529, "relation_to_type": "type", "validated": true, "ani": 76.5788, "matched_fragments": 159, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leisingera methylohalidivorans", "strain": "strain=DSM 14336; MB2", "accession": "GCA_000511355.1", "taxid": 133924, "species_taxid": 133924, "relation_to_type": "type", "validated": true, "ani": 76.5716, "matched_fragments": 160, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger aestuarii", "strain": "strain=DSM 22011", "accession": "GCA_003259905.1", "taxid": 568098, "species_taxid": 568098, "relation_to_type": "type", "validated": true, "ani": 76.3848, "matched_fragments": 119, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leisingera aquaemixtae", "strain": "strain=CECT 8399", "accession": "GCA_001458395.1", "taxid": 1396826, "species_taxid": 1396826, "relation_to_type": "type", "validated": true, "ani": 76.3665, "matched_fragments": 170, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhabdonatronobacter sediminivivens", "strain": "strain=IM2376", "accession": "GCA_013415485.1", "taxid": 2743469, "species_taxid": 2743469, "relation_to_type": "type", "validated": true, "ani": 76.3095, "matched_fragments": 82, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter aquatilis", "strain": "strain=DSM 3857", "accession": "GCA_900110025.1", "taxid": 933059, "species_taxid": 933059, "relation_to_type": "type", "validated": true, "ani": 76.1068, "matched_fragments": 150, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanomicrobium pacificus", "strain": "strain=KN286", "accession": "GCA_009833495.1", "taxid": 2692916, "species_taxid": 2692916, "relation_to_type": "type", "validated": true, "ani": 76.077, "matched_fragments": 113, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter capsulatus", "strain": "strain=DSM 1710", "accession": "GCA_003254295.1", "taxid": 1061, "species_taxid": 1061, "relation_to_type": "type", "validated": true, "ani": 76.016, "matched_fragments": 97, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter tardus", "strain": "strain=CYK-10", "accession": "GCA_009925085.1", "taxid": 2699202, "species_taxid": 2699202, "relation_to_type": "type", "validated": true, "ani": 75.8994, "matched_fragments": 78, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Albidovulum inexpectatum", "strain": "strain=DSM 12048", "accession": "GCA_002927635.1", "taxid": 196587, "species_taxid": 196587, "relation_to_type": "type", "validated": true, "ani": 75.8451, "matched_fragments": 80, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter calidifons", "strain": "strain=M37P", "accession": "GCA_011174775.1", "taxid": 2715277, "species_taxid": 2715277, "relation_to_type": "type", "validated": true, "ani": 75.6886, "matched_fragments": 82, "total_fragments": 1384, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014643735.1", "gtdb_species": "s__Amylibacter cionae", "ani": 100.0, "matched_fragments": 1384, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amylibacter", "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_001719615.1", "gtdb_species": "s__Amylibacter sediminis", "ani": 85.9779, "matched_fragments": 1093, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amylibacter", "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_002860325.1", "gtdb_species": "s__Amylibacter lutimaris", "ani": 84.9286, "matched_fragments": 1057, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amylibacter", "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_018223125.1", "gtdb_species": "s__Amylibacter sp018223125", "ani": 84.832, "matched_fragments": 1013, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amylibacter", "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_900108225.1", "gtdb_species": "s__Thalassococcus halodurans", "ani": 77.7789, "matched_fragments": 149, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Thalassococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.13", "min_intra_species_ani": "96.13", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018607905.1", "gtdb_species": "s__Amylibacter sp002387535", "ani": 77.671, "matched_fragments": 275, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amylibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.84", "min_intra_species_ani": "99.84", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001518015.1", "gtdb_species": "s__Epibacterium horizontis", "ani": 77.2244, "matched_fragments": 156, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Epibacterium", "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_011806385.1", "gtdb_species": "s__Epibacterium sp011806385", "ani": 76.8115, "matched_fragments": 174, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Epibacterium", "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_000169455.1", "gtdb_species": "s__Pseudophaeobacter sp000169455", "ani": 76.5014, "matched_fragments": 113, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudophaeobacter", "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_016764475.1", "gtdb_species": "s__Amylibacter sp016764475", "ani": 76.4087, "matched_fragments": 109, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Amylibacter", "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_003254295.1", "gtdb_species": "s__Rhodobacter capsulatus", "ani": 76.0311, "matched_fragments": 96, "total_fragments": 1384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "98.47", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "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": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "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": [ "Amylibacter", "cionae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }