{ "type": "genome", "identifier": "GCF_030409505.1", "organism": "Zunongwangia endophytica", "title": "Zunongwangia endophytica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Institute of Microbiology of the Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030409505.1", "bioproject": "PRJNA224116", "biosample": "SAMN35653718", "wgs_master": "JAUFPZ000000000.1", "refseq_category": "reference genome", "taxid": "1808945", "species_taxid": "1808945", "organism_name": "Zunongwangia endophytica", "infraspecific_name": "strain=CECT 9128", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/07/05", "asm_name": "ASM3040950v1", "asm_submitter": "The Institute of Microbiology of the Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_030409505.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/409/505/GCF_030409505.1_ASM3040950v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4384952", "genome_size_ungapped": "4384952", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030409505.1-RS_2024_07_07", "annotation_date": "2024-07-07", "total_gene_count": "3870", "protein_coding_gene_count": "3749", "non_coding_gene_count": "64", "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": [ "Zunongwangia endophytica" ], "sample_taxid": [ "1808945" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Portugal" ], "sample_host_location_id": [], "data_size": "1.224 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)": "4384952", "Number of Sequences": "3", "Longest Sequences (bp)": "4315245", "N50 (bp)": "4315245", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.1", "Number of CDSs": "3797", "Average Protein Length": "339.4", "Coding Ratio (%)": "88.2", "Number of rRNAs": "12", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Zunongwangia atlantica", "strain": "strain=22II14-10F7", "accession": "GCA_002094855.1", "taxid": 1502297, "species_taxid": 1502297, "relation_to_type": "type", "validated": true, "ani": 81.8471, "matched_fragments": 868, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zunongwangia mangrovi", "strain": "strain=DSM 24499", "accession": "GCA_900112105.1", "taxid": 1334022, "species_taxid": 1334022, "relation_to_type": "type", "validated": true, "ani": 81.7001, "matched_fragments": 882, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zunongwangia profunda", "strain": "strain=SMA-87", "accession": "GCA_000023465.1", "taxid": 398743, "species_taxid": 398743, "relation_to_type": "type", "validated": true, "ani": 81.0114, "matched_fragments": 858, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salegens", "strain": "strain=ACAM 48", "accession": "GCA_900142975.1", "taxid": 143223, "species_taxid": 143223, "relation_to_type": "type", "validated": true, "ani": 77.8325, "matched_fragments": 300, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter mishustinae", "strain": "strain=DSM 23404", "accession": "GCA_002900095.1", "taxid": 270918, "species_taxid": 270918, "relation_to_type": "type", "validated": true, "ani": 77.6763, "matched_fragments": 300, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter agarivorans", "strain": "strain=DSM 23515", "accession": "GCA_900113135.1", "taxid": 345907, "species_taxid": 345907, "relation_to_type": "type", "validated": true, "ani": 77.5942, "matched_fragments": 308, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salegens", "strain": "strain=DSM 5424", "accession": "GCA_003001895.1", "taxid": 143223, "species_taxid": 143223, "relation_to_type": "type", "validated": true, "ani": 77.5728, "matched_fragments": 288, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter holothuriorum", "strain": "strain=DSM 23405", "accession": "GCA_900168045.1", "taxid": 241145, "species_taxid": 241145, "relation_to_type": "type", "validated": true, "ani": 77.5715, "matched_fragments": 258, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter lacus", "strain": "strain=LM13S", "accession": "GCA_020164555.1", "taxid": 2873599, "species_taxid": 2873599, "relation_to_type": "type", "validated": true, "ani": 77.5208, "matched_fragments": 264, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter mishustinae", "strain": "strain=KCTC 12263", "accession": "GCA_001431365.1", "taxid": 270918, "species_taxid": 270918, "relation_to_type": "type", "validated": true, "ani": 77.4973, "matched_fragments": 291, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gramella crocea", "strain": "strain=YB25", "accession": "GCA_022410465.1", "taxid": 2904124, "species_taxid": 2904124, "relation_to_type": "type", "validated": true, "ani": 77.4156, "matched_fragments": 121, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter mishustinae", "strain": "strain=KCTC 12263", "accession": "GCA_014651335.1", "taxid": 270918, "species_taxid": 270918, "relation_to_type": "type", "validated": true, "ani": 77.4032, "matched_fragments": 289, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter maritimus", "strain": "strain=F63223", "accession": "GCA_016236915.1", "taxid": 2794347, "species_taxid": 2794347, "relation_to_type": "type", "validated": true, "ani": 77.2451, "matched_fragments": 237, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haloflavibacter putidus", "strain": "strain=PLHSN227", "accession": "GCA_006546625.1", "taxid": 2576776, "species_taxid": 2576776, "relation_to_type": "type", "validated": true, "ani": 77.1339, "matched_fragments": 111, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium alkalisoli", "strain": "strain=XS-5", "accession": "GCA_008000935.1", "taxid": 2602769, "species_taxid": 2602769, "relation_to_type": "type", "validated": true, "ani": 77.0568, "matched_fragments": 65, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sediminilitoris", "strain": "strain=YSM-43", "accession": "GCA_023008245.1", "taxid": 2024526, "species_taxid": 2024526, "relation_to_type": "type", "validated": true, "ani": 76.9938, "matched_fragments": 94, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavivirga algicola", "strain": "strain=Y03", "accession": "GCA_012910715.1", "taxid": 2729136, "species_taxid": 2729136, "relation_to_type": "type", "validated": true, "ani": 76.8852, "matched_fragments": 107, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bizionia argentinensis", "strain": "strain=JUB59", "accession": "GCA_000224335.2", "taxid": 456455, "species_taxid": 456455, "relation_to_type": "type", "validated": true, "ani": 76.5139, "matched_fragments": 78, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina aggregata", "strain": "strain=RZW4-3-2", "accession": "GCA_001632745.1", "taxid": 1642818, "species_taxid": 1642818, "relation_to_type": "type", "validated": true, "ani": 76.2451, "matched_fragments": 119, "total_fragments": 1460, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002094855.1", "gtdb_species": "s__Zunongwangia atlantica", "ani": 81.8467, "matched_fragments": 867, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zunongwangia", "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_900112105.1", "gtdb_species": "s__Zunongwangia mangrovi", "ani": 81.7137, "matched_fragments": 880, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zunongwangia", "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_000023465.1", "gtdb_species": "s__Zunongwangia profunda", "ani": 80.9737, "matched_fragments": 858, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zunongwangia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.17", "min_intra_species_ani": "98.44", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.80", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_000745315.1", "gtdb_species": "s__Salegentibacter sp000745315", "ani": 78.0858, "matched_fragments": 283, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "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_900104765.1", "gtdb_species": "s__Gillisia sp900104765", "ani": 77.8375, "matched_fragments": 197, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Gillisia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "98.23", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900142975.1", "gtdb_species": "s__Salegentibacter salegens", "ani": 77.8368, "matched_fragments": 300, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002900095.1", "gtdb_species": "s__Salegentibacter mishustinae", "ani": 77.6463, "matched_fragments": 302, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900113135.1", "gtdb_species": "s__Salegentibacter agarivorans", "ani": 77.6084, "matched_fragments": 305, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.64", "min_intra_species_ani": "95.65", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900168265.1", "gtdb_species": "s__Salegentibacter salarius", "ani": 77.5605, "matched_fragments": 266, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900168045.1", "gtdb_species": "s__Salegentibacter holothuriorum", "ani": 77.5542, "matched_fragments": 258, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "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_003054225.1", "gtdb_species": "s__Gramella gaetbulicola", "ani": 77.4271, "matched_fragments": 181, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Gramella", "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_009735585.1", "gtdb_species": "s__Gramella aestuarii", "ani": 77.2409, "matched_fragments": 139, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Gramella", "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_016236915.1", "gtdb_species": "s__Salegentibacter maritimus", "ani": 77.1683, "matched_fragments": 235, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "98.21", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000224335.1", "gtdb_species": "s__Algorimicrobium argentinense", "ani": 76.5402, "matched_fragments": 77, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algorimicrobium", "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_900111025.1", "gtdb_species": "s__Jejuia jejuensis", "ani": 76.5241, "matched_fragments": 66, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Jejuia", "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_016649785.1", "gtdb_species": "s__Gillisia sp016649785", "ani": 76.1211, "matched_fragments": 76, "total_fragments": 1460, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Gillisia", "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": 28.0, "optimum_tmp": 32.5, "optimum_ph": null, "genome_size": 4629934.8, "gc_content": 36.0, "coding_genes": 4445.667, "rRNA16S_genes": 3.0, "tRNA_genes": 49.0, "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": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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": [ "Zunongwangia", "endophytica" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }