{ "type": "genome", "identifier": "GCF_014925405.1", "organism": "Pseudoalteromonas ulvae UL12", "title": "Pseudoalteromonas ulvae UL12", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014925405.1", "bioproject": "PRJNA224116", "biosample": "SAMN03380247", "wgs_master": "AQHJ00000000.1", "refseq_category": "na", "taxid": "1315306", "species_taxid": "107327", "organism_name": "Pseudoalteromonas ulvae UL12", "infraspecific_name": "strain=UL12", "isolate": "na", "version_status": "latest", "assembly_level": "Chromosome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/07", "asm_name": "ASM1492540v1", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_014925405.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/925/405/GCF_014925405.1_ASM1492540v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4745459", "genome_size_ungapped": "4745459", "gc_percent": "41.000000", "replicon_count": "1", "scaffold_count": "35", "contig_count": "35", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014925405.1-RS_2024_11_20", "annotation_date": "2024-11-20", "total_gene_count": "4378", "protein_coding_gene_count": "4135", "non_coding_gene_count": "203", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-07", "dateModified": "2020-10-07", "datePublished": "2020-10-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas ulvae UL12" ], "sample_taxid": [ "1315306" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Australia: eastern coast" ], "sample_host_location_id": [], "data_size": "1.340 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)": "4745459", "Number of Sequences": "35", "Longest Sequences (bp)": "856917", "N50 (bp)": "462978", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.2", "Number of CDSs": "4194", "Average Protein Length": "332.5", "Coding Ratio (%)": "88.2", "Number of rRNAs": "5", "Number of tRNAs": "193", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas ulvae", "strain": "strain=UL12", "accession": "GCA_014925405.1", "taxid": 107327, "species_taxid": 107327, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1565, "total_fragments": 1566, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoalteromonas tunicata", "strain": "strain=D2", "accession": "GCA_002310815.1", "taxid": 314281, "species_taxid": 314281, "relation_to_type": "type", "validated": true, "ani": 79.9102, "matched_fragments": 619, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas tunicata", "strain": "strain=D2", "accession": "GCA_003568825.1", "taxid": 314281, "species_taxid": 314281, "relation_to_type": "type", "validated": true, "ani": 79.91, "matched_fragments": 613, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas tunicata", "strain": "strain=D2", "accession": "GCA_000153245.1", "taxid": 314281, "species_taxid": 314281, "relation_to_type": "type", "validated": true, "ani": 79.8667, "matched_fragments": 618, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas nigrifaciens", "strain": "strain=NCTC10691", "accession": "GCA_900455185.1", "taxid": 28109, "species_taxid": 28109, "relation_to_type": "type", "validated": true, "ani": 78.6831, "matched_fragments": 214, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas profundi", "strain": "strain=CGMCC 1.15394", "accession": "GCA_014642695.1", "taxid": 1774956, "species_taxid": 1774956, "relation_to_type": "type", "validated": true, "ani": 78.6725, "matched_fragments": 230, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas nigrifaciens", "strain": "strain=KMM 661", "accession": "GCA_002221505.1", "taxid": 28109, "species_taxid": 28109, "relation_to_type": "type", "validated": true, "ani": 78.5481, "matched_fragments": 208, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas undina", "strain": "strain=DSM 6065", "accession": "GCA_000238275.4", "taxid": 43660, "species_taxid": 43660, "relation_to_type": "type", "validated": true, "ani": 78.5435, "matched_fragments": 227, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas arctica", "strain": "strain=A 37-1-2", "accession": "GCA_000238395.4", "taxid": 394751, "species_taxid": 394751, "relation_to_type": "type", "validated": true, "ani": 78.3074, "matched_fragments": 219, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas piratica", "strain": "strain=OCN003", "accession": "GCA_000788395.1", "taxid": 1348114, "species_taxid": 1348114, "relation_to_type": "type", "validated": true, "ani": 78.2837, "matched_fragments": 202, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas carrageenovora", "strain": "strain=NBRC 12985", "accession": "GCA_006539245.1", "taxid": 227, "species_taxid": 227, "relation_to_type": "type", "validated": true, "ani": 78.2059, "matched_fragments": 191, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas nigrifaciens", "strain": "strain=NBRC 103036", "accession": "GCA_007991255.1", "taxid": 28109, "species_taxid": 28109, "relation_to_type": "type", "validated": true, "ani": 78.2053, "matched_fragments": 199, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas spongiae", "strain": "strain=UST010723-006", "accession": "GCA_000238255.4", "taxid": 298657, "species_taxid": 298657, "relation_to_type": "type", "validated": true, "ani": 78.1562, "matched_fragments": 197, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas citrea", "strain": "strain=DSM 8771", "accession": "GCA_000238375.4", "taxid": 43655, "species_taxid": 43655, "relation_to_type": "type", "validated": true, "ani": 78.0857, "matched_fragments": 209, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella vesiculosa", "strain": "strain=M7", "accession": "GCA_021560015.1", "taxid": 518738, "species_taxid": 518738, "relation_to_type": "type", "validated": true, "ani": 76.8967, "matched_fragments": 70, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio nitrifigilis", "strain": "strain=NFV-1", "accession": "GCA_015686695.1", "taxid": 2789781, "species_taxid": 2789781, "relation_to_type": "type", "validated": true, "ani": 76.6631, "matched_fragments": 50, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella aestuarii", "strain": "strain=JCM 17801", "accession": "GCA_023283685.1", "taxid": 1028752, "species_taxid": 1028752, "relation_to_type": "type", "validated": true, "ani": 76.5748, "matched_fragments": 70, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella nanhaiensis", "strain": "strain=NR704-98", "accession": "GCA_019457885.1", "taxid": 2864872, "species_taxid": 2864872, "relation_to_type": "type", "validated": true, "ani": 76.4974, "matched_fragments": 53, "total_fragments": 1566, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014925405.1", "gtdb_species": "s__Pseudoalteromonas ulvae", "ani": 100.0, "matched_fragments": 1565, "total_fragments": 1566, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.81", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.241, "cell_length": 0.166, "doubling_h": 0.348, "growth_tmp": 27.0, "optimum_tmp": 24.901, "optimum_ph": 7.588, "genome_size": 4586484.0, "gc_content": 41.108, "coding_genes": 3972.54, "rRNA16S_genes": 8.705, "tRNA_genes": 104.429, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.941, "range_salinity": 0.8, "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": [ "Pseudoalteromonas", "ulvae", "UL12" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }