{ "type": "genome", "identifier": "GCF_014647635.1", "organism": "Pseudomonas matsuisoli", "title": "Pseudomonas matsuisoli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014647635.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245291", "wgs_master": "BMPO00000000.1", "refseq_category": "reference genome", "taxid": "1515666", "species_taxid": "1515666", "organism_name": "Pseudomonas matsuisoli", "infraspecific_name": "strain=JCM 30078", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464763v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014647635.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/647/635/GCF_014647635.1_ASM1464763v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4609972", "genome_size_ungapped": "4609962", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014647635.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "4122", "protein_coding_gene_count": "4017", "non_coding_gene_count": "54", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas matsuisoli" ], "sample_taxid": [ "1515666" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.305 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)": "4609972", "Number of Sequences": "20", "Longest Sequences (bp)": "772811", "N50 (bp)": "522967", "Gap Ratio (%)": "0.000217", "GCcontent (%)": "59.5", "Number of CDSs": "4102", "Average Protein Length": "327.7", "Coding Ratio (%)": "87.5", "Number of rRNAs": "2", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas matsuisoli", "strain": "strain=JCM 30078", "accession": "GCA_014647635.1", "taxid": 1515666, "species_taxid": 1515666, 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"below_threshold" }, { "organism_name": "Stutzerimonas stutzeri", "strain": "strain=CGMCC 1.1803", "accession": "GCA_000219605.1", "taxid": 316, "species_taxid": 316, "relation_to_type": "type", "validated": true, "ani": 78.5655, "matched_fragments": 329, "total_fragments": 1527, "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": 78.5526, "matched_fragments": 405, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas songnenensis", "strain": "strain=NEAU-ST5-5", "accession": "GCA_003696315.1", "taxid": 1176259, "species_taxid": 1176259, "relation_to_type": "type", "validated": true, "ani": 78.5463, "matched_fragments": 322, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas 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"accession": "GCA_002890935.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 78.5244, "matched_fragments": 334, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas nitroreducens", "strain": "strain=DSM 14399", "accession": "GCA_012986245.1", "taxid": 46680, "species_taxid": 46680, "relation_to_type": "suspected-type", "validated": true, "ani": 78.5144, "matched_fragments": 379, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas oleovorans subsp. oleovorans", "strain": "strain=NBRC 13583", "accession": "GCA_002091815.1", "taxid": 1218129, "species_taxid": 301, "relation_to_type": "type", "validated": true, "ani": 78.4997, "matched_fragments": 363, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guryensis", "strain": "strain=SR9", "accession": "GCA_014164785.1", 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78.2872, "matched_fragments": 420, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas kunmingensis", "strain": "strain=DSM 25974", "accession": "GCA_024397575.1", "taxid": 1211807, "species_taxid": 1211807, "relation_to_type": "type", "validated": true, "ani": 78.2805, "matched_fragments": 331, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas kunmingensis", "strain": "strain=DSM 25974", "accession": "GCA_900114065.1", "taxid": 1211807, "species_taxid": 1211807, "relation_to_type": "type", "validated": true, "ani": 78.2469, "matched_fragments": 340, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas taeanensis", "strain": "strain=MS-3", "accession": "GCA_000498575.2", "taxid": 574962, "species_taxid": 574962, "relation_to_type": "type", "validated": true, "ani": 77.9587, "matched_fragments": 309, "total_fragments": 1527, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014647635.1", "gtdb_species": "s__Pseudomonas_P matsuisoli", "ani": 100.0, "matched_fragments": 1527, "total_fragments": 1527, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_P", "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": "GCF_003205495.1", "gtdb_species": "s__Pseudomonas_E alcaligenes_B", "ani": 78.862, "matched_fragments": 341, "total_fragments": 1527, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, 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