{ "type": "genome", "identifier": "GCF_004920405.1", "organism": "Pseudomonas leptonychotis", "title": "Pseudomonas leptonychotis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Masaryk University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004920405.1", "bioproject": "PRJNA224116", "biosample": "SAMN10220049", "wgs_master": "RFLV00000000.1", "refseq_category": "reference genome", "taxid": "2448482", "species_taxid": "2448482", "organism_name": "Pseudomonas leptonychotis", "infraspecific_name": "strain=CCM 8849", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/29", "asm_name": "ASM492040v1", "asm_submitter": "Masaryk University", "gbrs_paired_asm": "GCA_004920405.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/920/405/GCF_004920405.1_ASM492040v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4394381", "genome_size_ungapped": "4394381", "gc_percent": "59.000000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004920405.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "4112", "protein_coding_gene_count": "4009", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-29", "dateModified": "2019-04-29", "datePublished": "2019-04-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas leptonychotis" ], "sample_taxid": [ "2448482" ], "sample_host_organism": [ "Leptonychotes weddellii" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica: James Ross Island" ], "sample_host_location_id": [], "data_size": "1.236 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)": "4394381", "Number of Sequences": "29", "Longest Sequences (bp)": "2322232", "N50 (bp)": "2322232", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.8", "Number of CDSs": "4101", "Average Protein Length": "318.8", "Coding Ratio (%)": "89.3", "Number of rRNAs": "6", "Number of tRNAs": "56", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas peli", "strain": "strain=DSM 17833", "accession": "GCA_900099645.1", "taxid": 592361, "species_taxid": 592361, "relation_to_type": "type", "validated": true, "ani": 85.4956, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas borbori", "strain": "strain=DSM 17834", "accession": "GCA_900115555.1", "taxid": 289003, "species_taxid": 289003, "relation_to_type": "type", "validated": true, "ani": 81.6621, "matched_fragments": 830, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cuatrocienegasensis", "strain": "strain=CIP 109853", "accession": "GCA_900110925.1", "taxid": 543360, "species_taxid": 543360, "relation_to_type": "type", "validated": true, "ani": 81.5699, "matched_fragments": 835, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas benzenivorans", "strain": "strain=DSM 8628", "accession": "GCA_900100495.1", "taxid": 556533, "species_taxid": 556533, "relation_to_type": "type", "validated": true, "ani": 81.3852, "matched_fragments": 906, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 81.2084, "matched_fragments": 825, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas ullengensis", "strain": "strain=UL070", "accession": "GCA_014174475.1", "taxid": 2759166, "species_taxid": 2759166, "relation_to_type": "type", "validated": true, "ani": 80.9845, "matched_fragments": 739, "total_fragments": 1456, "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": 80.7383, "matched_fragments": 854, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", "taxid": 2320867, "species_taxid": 2320867, "relation_to_type": "type", "validated": true, "ani": 80.3422, "matched_fragments": 738, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas insulae", "strain": "strain=UL073", "accession": "GCA_016901015.1", "taxid": 2809017, "species_taxid": 2809017, "relation_to_type": "type", "validated": true, "ani": 80.0943, "matched_fragments": 682, "total_fragments": 1456, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004920405.1", "gtdb_species": "s__Pseudomonas_E leptonychotis", "ani": 100.0, "matched_fragments": 1454, "total_fragments": 1456, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", 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"ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.54", "min_intra_species_ani": "99.51", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900099645.1", "gtdb_species": "s__Pseudomonas_E peli", "ani": 85.5037, "matched_fragments": 1116, "total_fragments": 1456, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.85", "min_intra_species_ani": "96.04", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900113745.1", "gtdb_species": "s__Pseudomonas_E guineae", "ani": 85.3308, "matched_fragments": 1072, "total_fragments": 1456, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", 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