{ "type": "genome", "identifier": "GCF_023509475.1", "organism": "Aestuariirhabdus haliotis", "title": "Aestuariirhabdus haliotis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023509475.1", "bioproject": "PRJNA224116", "biosample": "SAMN25981863", "wgs_master": "JAKSDZ000000000.1", "refseq_category": "reference genome", "taxid": "2918751", "species_taxid": "2918751", "organism_name": "Aestuariirhabdus haliotis", "infraspecific_name": "strain=Z083", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/19", "asm_name": "ASM2350947v1", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_023509475.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/509/475/GCF_023509475.1_ASM2350947v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4157691", "genome_size_ungapped": "4157691", "gc_percent": "52.000000", "replicon_count": "0", "scaffold_count": "125", "contig_count": "125", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023509475.1-RS_2024_11_26", "annotation_date": "2024-11-26", "total_gene_count": "3921", "protein_coding_gene_count": "3841", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-05-19", "dateModified": "2022-05-19", "datePublished": "2022-05-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Aestuariirhabdus haliotis" ], "sample_taxid": [ "2918751" ], "sample_host_organism": [ "Abalone" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Weihai" ], "sample_host_location_id": [], "data_size": "1.195 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)": "4157691", "Number of Sequences": "125", "Longest Sequences (bp)": "413949", "N50 (bp)": "78157", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "51.9", "Number of CDSs": "3839", "Average Protein Length": "317.9", "Coding Ratio (%)": "88.1", "Number of rRNAs": "3", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aestuariirhabdus litorea", "strain": "strain=GTF13", "accession": "GCA_003864255.1", "taxid": 2528527, "species_taxid": 2528527, "relation_to_type": "type", "validated": true, "ani": 78.509, "matched_fragments": 374, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aestuariicella albida", "strain": "strain=HHU G3-2", "accession": "GCA_018863235.1", "taxid": 2842452, "species_taxid": 2842452, "relation_to_type": "type", "validated": true, "ani": 77.337, "matched_fragments": 56, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas capeferrum", "strain": "strain=WCS358", "accession": "GCA_022548835.1", "taxid": 1495066, "species_taxid": 1495066, "relation_to_type": "type", "validated": true, "ani": 76.3954, "matched_fragments": 50, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas hydrolytica", "strain": "strain=DSWY01", "accession": "GCA_021495345.2", "taxid": 2493633, "species_taxid": 2493633, "relation_to_type": "type", "validated": true, "ani": 76.2574, "matched_fragments": 52, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter fuscus", "strain": "strain=NH169-3", "accession": "GCA_003007675.1", "taxid": 2109942, "species_taxid": 2109942, "relation_to_type": "type", "validated": true, "ani": 76.19, "matched_fragments": 50, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guguanensis", "strain": "strain=JCM 18416", "accession": "GCA_900104265.1", "taxid": 1198456, "species_taxid": 1198456, "relation_to_type": "type", "validated": true, "ani": 76.1021, "matched_fragments": 56, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=DSM 13124", "accession": "GCA_007858155.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 76.0656, "matched_fragments": 51, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas yangonensis", "strain": "strain=MY50", "accession": "GCA_009932725.1", "taxid": 2579922, "species_taxid": 2579922, "relation_to_type": "type", "validated": true, "ani": 76.0145, "matched_fragments": 60, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aeruginosa", "strain": "strain=JCM 5962", "accession": "GCA_022496575.1", "taxid": 287, "species_taxid": 287, "relation_to_type": "type", "validated": true, "ani": 75.6998, "matched_fragments": 50, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas proteolytica", "strain": "strain=DSM 15321", "accession": "GCA_007858275.1", "taxid": 219574, "species_taxid": 219574, "relation_to_type": "type", "validated": true, "ani": 75.6887, "matched_fragments": 56, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas proteolytica", "strain": "strain=CCUG 51515T", "accession": "GCA_008692865.1", "taxid": 219574, "species_taxid": 219574, "relation_to_type": "type", "validated": true, "ani": 75.3278, "matched_fragments": 54, "total_fragments": 1327, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003864255.1", "gtdb_species": "s__Aestuariirhabdus litorea", "ani": 78.5088, "matched_fragments": 373, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Aestuariirhabdaceae;g__Aestuariirhabdus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003789045.1", "gtdb_species": "s__Marinobacter_A sp003789045", "ani": 76.2587, "matched_fragments": 56, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.70", "min_intra_species_ani": "97.70", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018424605.1", "gtdb_species": "s__Marinobacter lipolyticus_B", "ani": 76.254, "matched_fragments": 55, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_002874965.1", "gtdb_species": "s__Pseudomonas_E sp002874965", "ani": 76.2277, "matched_fragments": 54, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.77", "min_intra_species_ani": "98.46", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 48, "status": "-" }, { "accession": "GCF_003007675.1", "gtdb_species": "s__Marinobacter fuscus", "ani": 76.19, "matched_fragments": 50, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_003024385.1", "gtdb_species": "s__Pseudomonas_E sp003024385", "ani": 76.1734, "matched_fragments": 59, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_000305785.2", "gtdb_species": "s__Simiduia agarivorans", "ani": 76.1627, "matched_fragments": 51, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Simiduia", "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_000418555.1", "gtdb_species": "s__Pseudomonas_E sp000418555", "ani": 76.102, "matched_fragments": 57, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_900497695.1", "gtdb_species": "s__Pseudomonas_E wadenswilerensis", "ani": 76.0181, "matched_fragments": 52, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.26", "min_intra_species_ani": "99.26", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000346755.1", "gtdb_species": "s__Pseudomonas_E sp000346755", "ani": 76.0079, "matched_fragments": 58, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_009932725.1", "gtdb_species": "s__Pseudomonas_E sp009932725", "ani": 76.0056, "matched_fragments": 59, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.40", "min_intra_species_ani": "98.35", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000017205.1", "gtdb_species": "s__Pseudomonas aeruginosa_A", "ani": 75.805, "matched_fragments": 51, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "98.78", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.80", "num_clustered_genomes": 42, "status": "-" }, { "accession": "GCF_001945445.1", "gtdb_species": "s__Pseudomonas_E sp001945445", "ani": 75.7465, "matched_fragments": 54, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.66", "min_intra_species_ani": "98.66", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011752565.1", "gtdb_species": "s__Pseudomonas_E sp011752565", "ani": 75.6415, "matched_fragments": 50, "total_fragments": 1327, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "98.50", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "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": [ "Aestuariirhabdus", "haliotis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }