{ "type": "genome", "identifier": "GCF_014925285.1", "organism": "Pseudoalteromonas lipolytica LMEB 39", "title": "Pseudoalteromonas lipolytica LMEB 39", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014925285.1", "bioproject": "PRJNA224116", "biosample": "SAMN03380238", "wgs_master": "AQHA00000000.1", "refseq_category": "reference genome", "taxid": "1315275", "species_taxid": "570156", "organism_name": "Pseudoalteromonas lipolytica LMEB 39", "infraspecific_name": "strain=LMEB 39", "isolate": "na", "version_status": "latest", "assembly_level": "Chromosome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/07", "asm_name": "ASM1492528v1", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_014925285.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/925/285/GCF_014925285.1_ASM1492528v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4570506", "genome_size_ungapped": "4570506", "gc_percent": "41.500000", "replicon_count": "1", "scaffold_count": "36", "contig_count": "36", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014925285.1-RS_2024_11_20", "annotation_date": "2024-11-20", "total_gene_count": "4095", "protein_coding_gene_count": "3937", "non_coding_gene_count": "124", "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 lipolytica LMEB 39" ], "sample_taxid": [ "1315275" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Yangtze River estuary" ], "sample_host_location_id": [], "data_size": "1.293 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)": "4570506", "Number of Sequences": "36", "Longest Sequences (bp)": "1143391", "N50 (bp)": "625411", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.5", "Number of CDSs": "3981", "Average Protein Length": "340.0", "Coding Ratio (%)": "88.9", "Number of rRNAs": "1", "Number of tRNAs": "109", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas lipolytica", "strain": "strain=LMEB 39", "accession": "GCA_014925285.1", "taxid": 570156, "species_taxid": 570156, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1507, "total_fragments": 1508, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoalteromonas lipolytica", "strain": "strain=CGMCC 1.8499", "accession": "GCA_900116435.1", "taxid": 570156, "species_taxid": 570156, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9667, "matched_fragments": 1478, "total_fragments": 1508, "ani_threshold": 95, "status": "conclusive" }, { "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": 83.9563, "matched_fragments": 1051, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas shioyasakiensis", "strain": "strain=JCM 18891", "accession": "GCA_001550135.1", "taxid": 1190813, "species_taxid": 1190813, "relation_to_type": "suspected-type", "validated": true, "ani": 83.9003, "matched_fragments": 1052, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas gelatinilytica", "strain": "strain=NH153", "accession": "GCA_001641615.1", "taxid": 1703256, "species_taxid": 1703256, "relation_to_type": "type", "validated": true, "ani": 83.8217, "matched_fragments": 1070, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas arabiensis", "strain": "strain=JCM 17292", "accession": "GCA_001550155.1", "taxid": 874454, "species_taxid": 874454, "relation_to_type": "type", "validated": true, "ani": 83.2084, "matched_fragments": 983, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrosphaera ytuae", "strain": "strain=MTZ26", "accession": "GCA_017638545.1", "taxid": 2820710, "species_taxid": 2820710, "relation_to_type": "type", "validated": true, "ani": 79.7343, "matched_fragments": 85, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio algicola", "strain": "strain=SM1977", "accession": "GCA_009601765.2", "taxid": 2662262, "species_taxid": 2662262, "relation_to_type": "type", "validated": true, "ani": 76.4698, "matched_fragments": 56, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella sairae", "strain": "strain=LMG 21408", "accession": "GCA_023283535.1", "taxid": 190310, "species_taxid": 190310, "relation_to_type": "type", "validated": true, "ani": 76.4243, "matched_fragments": 60, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella ulleungensis", "strain": "strain=KCTC 62130", "accession": "GCA_023283965.1", "taxid": 2282699, "species_taxid": 2282699, "relation_to_type": "type", "validated": true, "ani": 75.9731, "matched_fragments": 75, "total_fragments": 1508, "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": 75.8673, "matched_fragments": 74, "total_fragments": 1508, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900116435.1", "gtdb_species": "s__Pseudoalteromonas lipolytica", "ani": 99.9667, "matched_fragments": 1478, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 12, "status": "conclusive" }, { "accession": "GCA_002684115.1", "gtdb_species": "s__Pseudoalteromonas sp002684115", "ani": 85.5797, "matched_fragments": 225, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 97.0029, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "97.71", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_013391845.1", "gtdb_species": "s__Pseudoalteromonas sp002685175", "ani": 84.0123, "matched_fragments": 873, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001550135.1", "gtdb_species": "s__Pseudoalteromonas shioyasakiensis", "ani": 83.9108, "matched_fragments": 1050, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 97.0029, "mean_intra_species_ani": "98.58", "min_intra_species_ani": "98.56", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_004792295.1", "gtdb_species": "s__Pseudoalteromonas lipolytica_C", "ani": 83.9073, "matched_fragments": 1008, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "98.24", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.68", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001641615.1", "gtdb_species": "s__Pseudoalteromonas gelatinilytica", "ani": 83.8234, "matched_fragments": 1070, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.45", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_013349995.1", "gtdb_species": "s__Pseudoalteromonas sp013349995", "ani": 83.7674, "matched_fragments": 1014, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 96.6093, "mean_intra_species_ani": "97.46", "min_intra_species_ani": "97.37", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001469895.1", "gtdb_species": "s__Pseudoalteromonas sp001469895", "ani": 83.7199, "matched_fragments": 1029, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 96.7314, "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_019134595.1", "gtdb_species": "s__Pseudoalteromonas shioyasakiensis_A", "ani": 83.6537, "matched_fragments": 1050, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.6918, "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_001306915.1", "gtdb_species": "s__Pseudoalteromonas lipolytica_A", "ani": 83.5702, "matched_fragments": 1003, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001550155.1", "gtdb_species": "s__Pseudoalteromonas arabiensis", "ani": 83.1998, "matched_fragments": 984, "total_fragments": 1508, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.77", "min_intra_species_ani": "95.60", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.302, "cell_length": 0.0, "doubling_h": 0.348, "growth_tmp": 28.0, "optimum_tmp": 25.0, "optimum_ph": 7.588, "genome_size": 4593101.4, "gc_content": 41.3, "coding_genes": 3972.54, "rRNA16S_genes": 8.705, "tRNA_genes": 104.429, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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", "lipolytica", "LMEB", "39" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }