{ "type": "genome", "identifier": "GCF_014268275.3", "organism": "Pseudomonas tritici", "title": "Pseudomonas tritici", "description": "na", "data type": "Genome sequencing and assembly", "organization": "KU Leuven", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014268275.3", "bioproject": "PRJNA224116", "biosample": "SAMN15248358", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2745518", "species_taxid": "2745518", "organism_name": "Pseudomonas tritici", "infraspecific_name": "strain=SWRI145", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/12", "asm_name": "ASM1426827v3", "asm_submitter": "KU Leuven", "gbrs_paired_asm": "GCA_014268275.3", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/268/275/GCF_014268275.3_ASM1426827v3", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6240195", "genome_size_ungapped": "6240195", "gc_percent": "60.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014268275.3-RS_2024_07_22", "annotation_date": "2024-07-22", "total_gene_count": "5780", "protein_coding_gene_count": "5624", "non_coding_gene_count": "86", "pubmed_id": "32752051;34442845" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-07-12", "dateModified": "2021-07-12", "datePublished": "2021-07-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas tritici" ], "sample_taxid": [ "2745518" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Iran: Zanjan" ], "sample_host_location_id": [], "data_size": "1.751 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)": "6240195", "Number of Sequences": "1", "Longest Sequences (bp)": "6240195", "N50 (bp)": "6240195", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.9", "Number of CDSs": "5769", "Average Protein Length": "321.3", "Coding Ratio (%)": "89.1", "Number of rRNAs": "16", "Number of tRNAs": "68", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas marginalis", "strain": "strain=ICMP 3553", "accession": "GCA_003700725.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 90.3894, "matched_fragments": 1602, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=ICMP 3553", "accession": "GCA_001645105.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 90.256, "matched_fragments": 1710, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pergaminensis", "strain": "strain=1008", "accession": "GCA_024112395.1", "taxid": 2853159, "species_taxid": 2853159, "relation_to_type": "type", "validated": true, "ani": 90.0571, "matched_fragments": 1732, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas azotoformans", "strain": "strain=LMG 21611", "accession": "GCA_900103345.1", "taxid": 47878, "species_taxid": 47878, "relation_to_type": "suspected-type", "validated": true, "ani": 89.8264, "matched_fragments": 1704, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas simiae", "strain": "strain=CCUG 50988", "accession": "GCA_001730615.1", "taxid": 321846, "species_taxid": 321846, "relation_to_type": "type", "validated": true, "ani": 89.8161, "matched_fragments": 1660, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas azotoformans", "strain": "", "accession": "GCA_900624915.1", "taxid": 47878, "species_taxid": 47878, "relation_to_type": "suspected-type", "validated": true, "ani": 89.8089, "matched_fragments": 1677, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas azotoformans", "strain": "strain=NBRC 12693", "accession": "GCA_002091515.1", "taxid": 47878, "species_taxid": 47878, "relation_to_type": "suspected-type", "validated": true, "ani": 89.7609, "matched_fragments": 1672, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lurida", "strain": "strain=LMG 21995", "accession": "GCA_002563895.1", "taxid": 244566, "species_taxid": 244566, "relation_to_type": "type", "validated": true, "ani": 89.721, "matched_fragments": 1668, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cedrina subsp. cedrina", "strain": "", "accession": "GCA_900625035.1", "taxid": 76762, "species_taxid": 651740, "relation_to_type": "type", "validated": true, "ani": 89.5751, "matched_fragments": 1661, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cedrina subsp. cedrina", "strain": "strain=DSM 17516", "accession": "GCA_001983175.1", "taxid": 76762, "species_taxid": 651740, "relation_to_type": "type", "validated": true, "ani": 89.5417, "matched_fragments": 1670, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=DSM 13124", "accession": "GCA_007858155.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 88.8873, "matched_fragments": 1687, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cremoris", "strain": "strain=WS 5106", "accession": "GCA_014230465.1", "taxid": 2724178, "species_taxid": 2724178, "relation_to_type": "type", "validated": true, "ani": 88.3551, "matched_fragments": 1624, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pisciculturae", "strain": "strain=P115", "accession": "GCA_015461805.1", "taxid": 2730413, "species_taxid": 2730413, "relation_to_type": "type", "validated": true, "ani": 88.2834, "matched_fragments": 1582, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas antarctica", "strain": "", "accession": "GCA_900624995.1", "taxid": 219572, "species_taxid": 219572, "relation_to_type": "type", "validated": true, "ani": 87.8396, "matched_fragments": 1445, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas antarctica", "strain": "strain=CMS 35", "accession": "GCA_010634845.1", "taxid": 219572, "species_taxid": 219572, "relation_to_type": "type", "validated": true, "ani": 87.8146, "matched_fragments": 1559, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas spelaei", "strain": "strain=CCM 7893", "accession": "GCA_009724245.1", "taxid": 1055469, "species_taxid": 1055469, "relation_to_type": "type", "validated": true, "ani": 86.0808, "matched_fragments": 1399, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brenneri", "strain": "strain=JCM 13307", "accession": "GCA_014646715.1", "taxid": 129817, "species_taxid": 129817, "relation_to_type": "type", "validated": true, "ani": 85.9855, "matched_fragments": 1399, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brenneri", "strain": "strain=DSM 15294", "accession": "GCA_007858285.1", "taxid": 129817, "species_taxid": 129817, "relation_to_type": "type", "validated": true, "ani": 85.9432, "matched_fragments": 1417, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas karstica", "strain": "strain=CCM 7891", "accession": "GCA_009707515.1", "taxid": 1055468, "species_taxid": 1055468, "relation_to_type": "type", "validated": true, "ani": 85.2112, "matched_fragments": 1288, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas ceruminis", "strain": "strain=BML-PP028", "accession": "GCA_021602025.1", "taxid": 2740516, "species_taxid": 2740516, "relation_to_type": "type", "validated": true, "ani": 80.5693, "matched_fragments": 852, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas ceruminis", "strain": "strain=BML-PP028", "accession": "GCA_013373895.1", "taxid": 2740516, "species_taxid": 2740516, "relation_to_type": "type", "validated": true, "ani": 80.5442, "matched_fragments": 849, "total_fragments": 2080, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001186335.1", "gtdb_species": "s__Pseudomonas_E trivialis_B", "ani": 95.3367, "matched_fragments": 1814, "total_fragments": 2080, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.34", "min_intra_species_ani": "95.31", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCF_001645105.1", 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89.0081, "matched_fragments": 1675, "total_fragments": 2080, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.70", "min_intra_species_ani": "97.45", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000346755.1", "gtdb_species": "s__Pseudomonas_E sp000346755", "ani": 88.9591, "matched_fragments": 1504, "total_fragments": 2080, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_900580675.1", "gtdb_species": "s__Pseudomonas_E sp900580675", "ani": 88.9432, 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1678, "total_fragments": 2080, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001050345.1", "gtdb_species": "s__Pseudomonas_E fildesensis", "ani": 88.6027, "matched_fragments": 1609, "total_fragments": 2080, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_004682045.1", "gtdb_species": "s__Pseudomonas_E nabeulensis", "ani": 88.3734, "matched_fragments": 1530, 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