{ "type": "genome", "identifier": "GCF_014207695.1", "organism": "Pseudoteredinibacter isoporae", "title": "Pseudoteredinibacter isoporae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014207695.1", "bioproject": "PRJNA224116", "biosample": "SAMN14908446", "wgs_master": "JACHHT000000000.1", "refseq_category": "reference genome", "taxid": "570281", "species_taxid": "570281", "organism_name": "Pseudoteredinibacter isoporae", "infraspecific_name": "strain=DSM 22368", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1420769v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014207695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/207/695/GCF_014207695.1_ASM1420769v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4866856", "genome_size_ungapped": "4866472", "gc_percent": "49.500000", "replicon_count": "0", "scaffold_count": "13", "contig_count": "13", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014207695.1-RS_2024_04_27", "annotation_date": "2024-04-27", "total_gene_count": "4187", "protein_coding_gene_count": "4130", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoteredinibacter isoporae" ], "sample_taxid": [ "570281" ], "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": "1.385 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)": "4866856", "Number of Sequences": "13", "Longest Sequences (bp)": "2038951", "N50 (bp)": "1787480", "Gap Ratio (%)": "0.007890", "GCcontent (%)": "49.6", "Number of CDSs": "4167", "Average Protein Length": "341.0", "Coding Ratio (%)": "87.6", "Number of rRNAs": "3", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoteredinibacter isoporae", "strain": "strain=DSM 22368", "accession": "GCA_014207695.1", "taxid": 570281, "species_taxid": 570281, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1616, "total_fragments": 1616, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoteredinibacter isoporae", "strain": "strain=LMG 25246", "accession": "GCA_011602085.1", "taxid": 570281, "species_taxid": 570281, "relation_to_type": "type", "validated": true, "ani": 99.9997, "matched_fragments": 1615, "total_fragments": 1616, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoteredinibacter isoporae", "strain": "strain=DSM 22368", "accession": "GCA_011683895.1", "taxid": 570281, "species_taxid": 570281, "relation_to_type": "type", "validated": true, "ani": 99.9941, "matched_fragments": 1606, "total_fragments": 1616, "ani_threshold": 95, "status": "conclusive" }, { "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": 77.2906, "matched_fragments": 102, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aestuariicella hydrocarbonica", "strain": "strain=JCM 30134", "accession": "GCA_011602365.1", "taxid": 1470433, "species_taxid": 1470433, "relation_to_type": "type", "validated": true, "ani": 77.1991, "matched_fragments": 109, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agaribacterium haliotis", "strain": "strain=feces2", "accession": "GCA_002312815.1", "taxid": 2013869, "species_taxid": 2013869, "relation_to_type": "type", "validated": true, "ani": 76.9601, "matched_fragments": 60, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer mangrovi", "strain": "strain=DD-13", "accession": "GCA_002009015.1", "taxid": 927787, "species_taxid": 927787, "relation_to_type": "type", "validated": true, "ani": 76.6399, "matched_fragments": 64, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomaricurvus alcaniphilus", "strain": "strain=MEBiC06469", "accession": "GCA_011440395.1", "taxid": 1166482, "species_taxid": 1166482, "relation_to_type": "type", "validated": true, "ani": 76.4872, "matched_fragments": 85, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Simiduia agarivorans", "strain": "strain=DSM 21679", "accession": "GCA_000420285.1", "taxid": 447471, "species_taxid": 447471, "relation_to_type": "type", "validated": true, "ani": 76.4502, "matched_fragments": 85, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer celer", "strain": "strain=KCTC 12973", "accession": "GCA_020991125.1", "taxid": 435905, "species_taxid": 435905, "relation_to_type": "type", "validated": true, "ani": 76.4462, "matched_fragments": 58, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer harenosus", "strain": "strain=HB161719", "accession": "GCA_005771435.1", "taxid": 2576840, "species_taxid": 2576840, "relation_to_type": "type", "validated": true, "ani": 75.9917, "matched_fragments": 59, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_011602085.1", "gtdb_species": "s__Pseudoteredinibacter isoporae", "ani": 99.9997, "matched_fragments": 1615, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudoteredinibacter", "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": "0.99", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_018863235.1", "gtdb_species": "s__Pseudomaricurvus sp018863235", "ani": 77.2906, "matched_fragments": 102, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudomaricurvus", "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_011602365.1", "gtdb_species": "s__Pseudomaricurvus hydrocarbonicus", "ani": 77.2199, "matched_fragments": 108, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudomaricurvus", "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_011683955.1", "gtdb_species": "s__Pseudomaricurvus alkylphenolicus", "ani": 77.1147, "matched_fragments": 111, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudomaricurvus", "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_009857815.1", "gtdb_species": "s__Pseudomaricurvus sp009857815", "ani": 77.0534, "matched_fragments": 96, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudomaricurvus", "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_002312815.1", "gtdb_species": "s__Agaribacterium haliotis", "ani": 76.9601, "matched_fragments": 60, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Agaribacterium", "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_002707785.1", "gtdb_species": "s__Pseudomaricurvus sp002707785", "ani": 76.9366, "matched_fragments": 93, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudomaricurvus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.83", "min_intra_species_ani": "99.83", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004363885.1", "gtdb_species": "s__Cellvibrio sp004363885", "ani": 76.8313, "matched_fragments": 62, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Cellvibrio", "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_009903625.1", "gtdb_species": "s__Microbulbifer sp009903625", "ani": 76.758, "matched_fragments": 70, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_011440395.1", "gtdb_species": "s__Pseudomaricurvus alcaniphilus", "ani": 76.5054, "matched_fragments": 84, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Pseudomaricurvus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "98.35", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001639145.1", "gtdb_species": "s__Microbulbifer sp001639145", "ani": 76.465, "matched_fragments": 62, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_014904735.1", "gtdb_species": "s__Microbulbifer hainanensis", "ani": 76.195, "matched_fragments": 52, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_005771435.1", "gtdb_species": "s__Microbulbifer harenosus", "ani": 75.9917, "matched_fragments": 59, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.17", "min_intra_species_ani": "98.17", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 25.0, "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": 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": [ "Pseudoteredinibacter", "isoporae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }