{ "type": "genome", "identifier": "GCF_017114825.1", "organism": "Pseudomonas gregormendelii", "title": "Pseudomonas gregormendelii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Balearic Islands", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017114825.1", "bioproject": "PRJNA224116", "biosample": "SAMN16408249", "wgs_master": "JADEVO000000000.1", "refseq_category": "reference genome", "taxid": "1628277", "species_taxid": "1628277", "organism_name": "Pseudomonas gregormendelii", "infraspecific_name": "strain=LMG 28632", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/01", "asm_name": "ASM1711482v1", "asm_submitter": "University of Balearic Islands", "gbrs_paired_asm": "GCA_017114825.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/114/825/GCF_017114825.1_ASM1711482v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5765427", "genome_size_ungapped": "5765327", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "111", "contig_count": "111", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017114825.1-RS_2024_06_17", "annotation_date": "2024-06-17", "total_gene_count": "5412", "protein_coding_gene_count": "5179", "non_coding_gene_count": "71", "pubmed_id": "33629945" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-01", "dateModified": "2021-03-01", "datePublished": "2021-03-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas gregormendelii" ], "sample_taxid": [ "1628277" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica" ], "sample_host_location_id": [], "data_size": "1.628 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)": "5765427", "Number of Sequences": "111", "Longest Sequences (bp)": "360331", "N50 (bp)": "113037", "Gap Ratio (%)": "0.001734", "GCcontent (%)": "59.6", "Number of CDSs": "5317", "Average Protein Length": "313.3", "Coding Ratio (%)": "86.7", "Number of rRNAs": "3", "Number of tRNAs": "63", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas mandelii", "strain": "strain=DSM 17967", "accession": "GCA_007858265.1", "taxid": 75612, "species_taxid": 75612, "relation_to_type": "suspected-type", "validated": true, "ani": 86.4751, "matched_fragments": 1398, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas mandelii", "strain": "strain=LMG 21607", "accession": "GCA_900106065.1", "taxid": 75612, "species_taxid": 75612, "relation_to_type": "suspected-type", "validated": true, "ani": 86.4502, "matched_fragments": 1425, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas mandelii", "strain": "strain=NBRC 103147", "accession": "GCA_002091695.1", "taxid": 75612, "species_taxid": 75612, "relation_to_type": "suspected-type", "validated": true, "ani": 86.4407, "matched_fragments": 1390, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lini", "strain": "strain=CCUG 51522", "accession": "GCA_008801525.1", "taxid": 163011, "species_taxid": 163011, "relation_to_type": "type", 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1320, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas azerbaijanoriens", "strain": "strain=SWRI123", "accession": "GCA_019139795.1", "taxid": 2842350, "species_taxid": 2842350, "relation_to_type": "type", "validated": true, "ani": 85.6064, "matched_fragments": 1330, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas laurylsulfatiphila", "strain": "strain=AP3_16", "accession": "GCA_002934665.1", "taxid": 2011015, "species_taxid": 2011015, "relation_to_type": "type", "validated": true, "ani": 85.5824, "matched_fragments": 1372, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas laurylsulfativorans", "strain": "strain=AP3_22", "accession": "GCA_002906155.1", "taxid": 1943631, "species_taxid": 1943631, "relation_to_type": "type", "validated": true, "ani": 85.5182, "matched_fragments": 1341, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas izuensis", "strain": "strain=IzPS43_3003", "accession": "GCA_009861505.1", "taxid": 2684212, "species_taxid": 2684212, "relation_to_type": "type", "validated": true, "ani": 85.4897, "matched_fragments": 1326, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas azerbaijanoccidens", "strain": "strain=SWRI74", "accession": "GCA_019145495.1", "taxid": 2842347, "species_taxid": 2842347, "relation_to_type": "type", "validated": true, "ani": 85.4486, "matched_fragments": 1370, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas umsongensis", "strain": "strain=DSM 16611", "accession": "GCA_002236105.1", "taxid": 198618, "species_taxid": 198618, "relation_to_type": "type", "validated": true, "ani": 85.388, "matched_fragments": 1410, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pharyngis", "strain": "strain=BML-PP036", "accession": "GCA_021602345.1", "taxid": 2892333, "species_taxid": 2892333, "relation_to_type": "type", "validated": true, "ani": 85.0247, "matched_fragments": 1299, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sputi", "strain": "strain=BML-PP014", "accession": "GCA_021603585.1", "taxid": 2892325, "species_taxid": 2892325, "relation_to_type": "type", "validated": true, "ani": 85.012, "matched_fragments": 1274, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas germanica", "strain": "strain=FIT28", "accession": "GCA_019614655.1", "taxid": 2815720, "species_taxid": 2815720, "relation_to_type": "type", "validated": true, "ani": 84.4766, "matched_fragments": 1308, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas rhizophila", "strain": "strain=S211", "accession": "GCA_003033885.1", "taxid": 2045200, "species_taxid": 2045200, "relation_to_type": "type", "validated": true, "ani": 83.6287, "matched_fragments": 1164, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017114825.1", "gtdb_species": "s__Pseudomonas_E gregormendelii", "ani": 100.0, "matched_fragments": 1866, "total_fragments": 1870, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.47", "min_intra_species_ani": "97.13", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCF_000282415.1", "gtdb_species": "s__Pseudomonas_E sp000282415", "ani": 86.6239, 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1416, "total_fragments": 1870, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.73", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_006438925.1", "gtdb_species": "s__Pseudomonas_E mandelii_C", "ani": 86.4656, "matched_fragments": 1346, "total_fragments": 1870, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.98", "min_intra_species_ani": "96.81", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_902497855.1", "gtdb_species": "s__Pseudomonas_E fluorescens_BI", "ani": 86.45, "matched_fragments": 1411, 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