{ "type": "genome", "identifier": "GCF_014191715.1", "organism": "Litorivivens lipolytica", "title": "Litorivivens lipolytica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014191715.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025081", "wgs_master": "JACHWY000000000.1", "refseq_category": "reference genome", "taxid": "1524264", "species_taxid": "1524264", "organism_name": "Litorivivens lipolytica", "infraspecific_name": "strain=CECT 8654", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419171v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014191715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/191/715/GCF_014191715.1_ASM1419171v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3489636", "genome_size_ungapped": "3489538", "gc_percent": "55.500000", "replicon_count": "0", "scaffold_count": "9", "contig_count": "9", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014191715.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3250", "protein_coding_gene_count": "3194", "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": [ "Litorivivens lipolytica" ], "sample_taxid": [ "1524264" ], "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": "0.992 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)": "3489636", "Number of Sequences": "9", "Longest Sequences (bp)": "1823444", "N50 (bp)": "1823444", "Gap Ratio (%)": "0.002808", "GCcontent (%)": "55.7", "Number of CDSs": "3226", "Average Protein Length": "329.7", "Coding Ratio (%)": "91.4", "Number of rRNAs": "3", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Litorivivens lipolytica", "strain": "strain=CECT 8654", "accession": "GCA_014191715.1", "taxid": 1524264, "species_taxid": 1524264, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1159, "total_fragments": 1159, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Spongiibacter pelagi", "strain": "strain=KMU-158", "accession": "GCA_014705705.1", "taxid": 2760804, "species_taxid": 2760804, "relation_to_type": "type", "validated": true, "ani": 77.7993, "matched_fragments": 131, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spongiibacter taiwanensis", "strain": "strain=SPT1", "accession": "GCA_023702635.1", "taxid": 1748242, "species_taxid": 1748242, "relation_to_type": "type", "validated": true, "ani": 77.5565, "matched_fragments": 135, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spongiibacter tropicus", "strain": "strain=DSM 19543", "accession": "GCA_000420325.1", "taxid": 454602, "species_taxid": 454602, "relation_to_type": "type", "validated": true, "ani": 77.4895, "matched_fragments": 164, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parahaliea maris", "strain": "strain=HSLHS9", "accession": "GCA_008064665.1", "taxid": 2716870, "species_taxid": 2716870, "relation_to_type": "type", "validated": true, "ani": 77.3696, "matched_fragments": 120, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spongiibacter nanhainus", "strain": "strain=csc3.9", "accession": "GCA_016132545.1", "taxid": 2794344, "species_taxid": 2794344, "relation_to_type": "type", "validated": true, "ani": 77.3654, "matched_fragments": 137, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer elongatus", "strain": "strain=DSM 6810", "accession": "GCA_021165935.1", "taxid": 86173, "species_taxid": 86173, "relation_to_type": "type", "validated": true, "ani": 77.0868, "matched_fragments": 89, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbulbifer elongatus", "strain": "strain=DSM 6810", "accession": "GCA_022554105.1", "taxid": 86173, "species_taxid": 86173, "relation_to_type": "type", "validated": true, "ani": 77.0829, "matched_fragments": 89, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halopseudomonas bauzanensis", "strain": "strain=CGMCC 1.9095", "accession": "GCA_900114735.1", "taxid": 653930, "species_taxid": 653930, "relation_to_type": "type", "validated": true, "ani": 76.9408, "matched_fragments": 66, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halopseudomonas bauzanensis", "strain": "strain=DSM 22558", "accession": "GCA_900111225.1", "taxid": 653930, "species_taxid": 653930, "relation_to_type": "type", "validated": true, "ani": 76.927, "matched_fragments": 66, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas knackmussii", "strain": "strain=B13", "accession": "GCA_000689415.1", "taxid": 65741, "species_taxid": 65741, "relation_to_type": "type", "validated": true, "ani": 76.7732, "matched_fragments": 83, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alcanivorax profundi", "strain": "strain=MTEO17", "accession": "GCA_003597125.1", "taxid": 2338368, "species_taxid": 2338368, "relation_to_type": "type", "validated": true, "ani": 76.6931, "matched_fragments": 67, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aeruginosa", "strain": "strain=CCUG 551", "accession": "GCA_008801675.1", "taxid": 287, "species_taxid": 287, "relation_to_type": "type", "validated": true, "ani": 76.6467, "matched_fragments": 76, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Seongchinamella sediminis", "strain": "strain=U0301", "accession": "GCA_003457605.1", "taxid": 2283635, "species_taxid": 2283635, "relation_to_type": "type", "validated": true, "ani": 76.6042, "matched_fragments": 107, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_002890935.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 76.5736, "matched_fragments": 63, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium aestuarii", "strain": "strain=ST58-10", "accession": "GCA_001651805.1", "taxid": 1821621, "species_taxid": 1821621, "relation_to_type": "type", "validated": true, "ani": 76.547, "matched_fragments": 72, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas linyingensis", "strain": "strain=LMG 25967", "accession": "GCA_900109175.1", "taxid": 915471, "species_taxid": 915471, "relation_to_type": "type", "validated": true, "ani": 76.5171, "matched_fragments": 85, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas indica", "strain": "strain=NBRC 103045", "accession": "GCA_002091635.1", "taxid": 137658, "species_taxid": 137658, "relation_to_type": "type", "validated": true, "ani": 76.5093, "matched_fragments": 81, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas tohonis", "strain": "strain=TUM18999", "accession": "GCA_012767755.2", "taxid": 2725477, "species_taxid": 2725477, "relation_to_type": "type", "validated": true, "ani": 76.5021, "matched_fragments": 84, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudohaliea rubra", "strain": "strain=DSM 19751", "accession": "GCA_000764025.1", "taxid": 475795, "species_taxid": 475795, "relation_to_type": "type", "validated": true, "ani": 76.3457, "matched_fragments": 58, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter similis", "strain": "strain=A3d10", "accession": "GCA_000830985.1", "taxid": 1420916, "species_taxid": 1420916, "relation_to_type": "type", "validated": true, "ani": 76.2837, "matched_fragments": 65, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineobactrum sediminis", "strain": "strain=F02", "accession": "GCA_002868715.1", "taxid": 1905677, "species_taxid": 1905677, "relation_to_type": "type", "validated": true, "ani": 76.2778, "matched_fragments": 69, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter pelagius", "strain": "strain=CGMCC 1.6775", "accession": "GCA_900114925.1", "taxid": 379482, "species_taxid": 379482, "relation_to_type": "type", "validated": true, "ani": 76.2669, "matched_fragments": 72, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sagittaria", "strain": "strain=JCM 18195", "accession": "GCA_900115715.1", "taxid": 1135990, "species_taxid": 1135990, "relation_to_type": "type", "validated": true, "ani": 76.1964, "matched_fragments": 78, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium alkalitolerans", "strain": "strain=AK62", "accession": "GCA_017776525.1", "taxid": 1542925, "species_taxid": 1542925, "relation_to_type": "type", "validated": true, "ani": 76.1932, "matched_fragments": 69, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinicola endophyticus", "strain": "strain=CPA92", "accession": "GCA_003206575.1", "taxid": 1949083, "species_taxid": 1949083, "relation_to_type": "type", "validated": true, "ani": 75.9419, "matched_fragments": 60, "total_fragments": 1159, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014191715.1", "gtdb_species": "s__Litorivivens lipolytica", "ani": 100.0, "matched_fragments": 1159, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Spongiibacteraceae;g__Litorivivens", "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": "conclusive" }, { "accession": "GCA_002710725.1", "gtdb_species": "s__Litorivivens sp002710725", "ani": 81.0282, "matched_fragments": 497, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Spongiibacteraceae;g__Litorivivens", "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_002415025.1", "gtdb_species": "s__Litorivivens sp002415025", "ani": 77.8596, "matched_fragments": 333, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Spongiibacteraceae;g__Litorivivens", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.82", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000420325.1", "gtdb_species": "s__Spongiibacter tropicus", "ani": 77.4895, "matched_fragments": 164, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Spongiibacteraceae;g__Spongiibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "97.89", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_016132545.1", "gtdb_species": "s__CSC3-9 sp016132545", "ani": 77.3858, "matched_fragments": 136, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Spongiibacteraceae;g__CSC3-9", "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_008064665.1", "gtdb_species": "s__Parahaliea maris", "ani": 77.3244, "matched_fragments": 122, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halieaceae;g__Parahaliea", "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_000422345.1", "gtdb_species": "s__Spongiibacter marinus_A", "ani": 77.2896, "matched_fragments": 105, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Spongiibacteraceae;g__Spongiibacter", "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_003402235.1", "gtdb_species": "s__Parahaliea mediterranea", "ani": 77.0644, "matched_fragments": 140, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halieaceae;g__Parahaliea", "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_900114735.1", 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"s__Pseudomonas_D excrementavium", "ani": 76.828, "matched_fragments": 53, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_D", "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_003597125.1", "gtdb_species": "s__Alcanivorax profundi", "ani": 76.6931, "matched_fragments": 67, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Alcanivoracaceae;g__Alcanivorax", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003457605.1", "gtdb_species": "s__Halioglobus sediminis", "ani": 76.6433, "matched_fragments": 104, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halieaceae;g__Halioglobus", "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_001651805.1", "gtdb_species": "s__Marinobacterium_A aestuarii", "ani": 76.5744, "matched_fragments": 71, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium_A", "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_900109175.1", "gtdb_species": "s__Pseudomonas_K linyingensis", "ani": 76.5624, "matched_fragments": 83, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_K", "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_004340525.1", "gtdb_species": "s__Chromatocurvus halotolerans", "ani": 76.4988, "matched_fragments": 55, "total_fragments": 1159, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halieaceae;g__Chromatocurvus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002699145.1", "gtdb_species": "s__Halioglobus sp002699145", "ani": 76.4705, "matched_fragments": 86, 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