{ "type": "genome", "identifier": "GCF_020387775.1", "organism": "Photorhabdus antumapuensis", "title": "Photorhabdus antumapuensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Universidad de Chile", "publication": [ {} ], "properties": { "assembly_accession": "GCF_020387775.1", "bioproject": "PRJNA224116", "biosample": "SAMN20400328", "wgs_master": "JAHZMK000000000.1", "refseq_category": "reference genome", "taxid": "2862867", "species_taxid": "2862867", "organism_name": "Photorhabdus antumapuensis", "infraspecific_name": "strain=UCH-936", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/10/08", "asm_name": "ASM2038777v1", "asm_submitter": "Universidad de Chile", "gbrs_paired_asm": "GCA_020387775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/020/387/775/GCF_020387775.1_ASM2038777v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5042059", "genome_size_ungapped": "5036795", "gc_percent": "42.500000", "replicon_count": "0", "scaffold_count": "106", "contig_count": "106", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_020387775.1-RS_2024_11_06", "annotation_date": "2024-11-06", "total_gene_count": "4509", "protein_coding_gene_count": "4233", "non_coding_gene_count": "79", "pubmed_id": "36223180" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-10-08", "dateModified": "2021-10-08", "datePublished": "2021-10-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Photorhabdus antumapuensis" ], "sample_taxid": [ "2862867" ], "sample_host_organism": [ "Heterorhabditis atacamensis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Chile: Santiago" ], "sample_host_location_id": [], "data_size": "1.434 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)": "5042059", "Number of Sequences": "106", "Longest Sequences (bp)": "381453", "N50 (bp)": "133067", "Gap Ratio (%)": "0.104997", "GCcontent (%)": "42.5", "Number of CDSs": "4273", "Average Protein Length": "311.7", "Coding Ratio (%)": "79.2", "Number of rRNAs": "3", "Number of tRNAs": "66", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Photorhabdus kleinii", "strain": "strain=DSM 23513", "accession": "GCA_025384885.1", "taxid": 768034, "species_taxid": 768034, "relation_to_type": "type", "validated": true, "ani": 93.0836, 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1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus laumondii subsp. laumondii", "strain": "strain=TT01", "accession": "GCA_003343245.1", "taxid": 141679, "species_taxid": 2218628, "relation_to_type": "type", "validated": true, "ani": 92.3047, "matched_fragments": 1394, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus luminescens subsp. mexicana", "strain": "strain=MEX47-22", "accession": "GCA_004348775.1", "taxid": 2100167, "species_taxid": 29488, "relation_to_type": "type", "validated": true, "ani": 91.9926, "matched_fragments": 1365, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus noenieputensis", "strain": "strain=DSM 25462", "accession": "GCA_023108895.1", "taxid": 1208607, "species_taxid": 1208607, "relation_to_type": "type", "validated": true, "ani": 91.3295, "matched_fragments": 1359, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus aegyptia", "strain": "strain=BA1", "accession": "GCA_000612035.1", "taxid": 2805098, "species_taxid": 2805098, "relation_to_type": "type", "validated": true, "ani": 91.2026, "matched_fragments": 1229, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus akhurstii", "strain": "strain=DSM 15138", "accession": "GCA_018448925.1", "taxid": 171438, "species_taxid": 171438, "relation_to_type": "type", "validated": true, "ani": 91.1361, "matched_fragments": 1334, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus caribbeanensis", "strain": "strain=HG29", "accession": "GCA_018448885.1", "taxid": 1004165, "species_taxid": 1004165, "relation_to_type": "type", "validated": true, "ani": 91.1235, "matched_fragments": 1296, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus hindustanensis", "strain": "strain=H1", "accession": "GCA_002968995.1", "taxid": 2918802, "species_taxid": 2918802, "relation_to_type": "type", "validated": true, "ani": 90.9638, "matched_fragments": 1351, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus hainanensis", "strain": "strain=DSM 22397", "accession": "GCA_018448965.1", "taxid": 1004166, "species_taxid": 1004166, "relation_to_type": "type", "validated": true, "ani": 90.939, "matched_fragments": 1355, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus khanii subsp. guanajuatensis", "strain": "strain=MEX20-17", "accession": "GCA_004348755.1", "taxid": 2100166, "species_taxid": 1004150, "relation_to_type": "type", "validated": true, "ani": 87.8039, "matched_fragments": 1227, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": 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14550", "accession": "GCA_025384845.1", "taxid": 574560, "species_taxid": 574560, "relation_to_type": "type", "validated": true, "ani": 86.9296, "matched_fragments": 1177, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003545805.1", "gtdb_species": "s__Photorhabdus sp003545805", "ani": 96.2865, "matched_fragments": 1418, "total_fragments": 1629, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Photorhabdus", "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_003287735.1", "gtdb_species": "s__Photorhabdus bodei", "ani": 92.6118, "matched_fragments": 1335, "total_fragments": 1629, 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