{ "type": "genome", "identifier": "GCF_003254705.1", "organism": "Phenylobacterium deserti", "title": "Phenylobacterium deserti", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Huazhong Agricultural university", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003254705.1", "bioproject": "PRJNA224116", "biosample": "SAMN09212667", "wgs_master": "QFYR00000000.1", "refseq_category": "reference genome", "taxid": "1914756", "species_taxid": "1914756", "organism_name": "Phenylobacterium deserti", "infraspecific_name": "strain=YIM 73061", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/18", "asm_name": "ASM325470v1", "asm_submitter": "Huazhong Agricultural university", "gbrs_paired_asm": "GCA_003254705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/254/705/GCF_003254705.1_ASM325470v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3878658", "genome_size_ungapped": "3878658", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "12", "contig_count": "12", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003254705.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3816", "protein_coding_gene_count": "3747", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-18", "dateModified": "2018-06-18", "datePublished": "2018-06-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Phenylobacterium deserti" ], "sample_taxid": [ "1914756" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pakistan: Punjab" ], "sample_host_location_id": [], "data_size": "1.059 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)": "3878658", "Number of Sequences": "12", "Longest Sequences (bp)": "1923015", "N50 (bp)": "599835", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.2", "Number of CDSs": "3803", "Average Protein Length": "311.2", "Coding Ratio (%)": "91.5", "Number of rRNAs": "2", "Number of tRNAs": "52", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Phenylobacterium deserti", "strain": "strain=YIM 73061", "accession": "GCA_003254705.1", "taxid": 1914756, "species_taxid": 1914756, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1287, "total_fragments": 1288, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Phenylobacterium hankyongense", "strain": "strain=HKS-05", "accession": "GCA_003254505.1", "taxid": 1813876, "species_taxid": 1813876, "relation_to_type": "type", "validated": true, "ani": 81.59, "matched_fragments": 708, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium zucineum", "strain": "strain=HLK1", "accession": "GCA_000017265.1", "taxid": 284016, "species_taxid": 284016, "relation_to_type": "type", "validated": true, "ani": 81.2869, "matched_fragments": 688, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium soli", "strain": "strain=LX32", "accession": "GCA_003254475.1", "taxid": 2170551, "species_taxid": 2170551, "relation_to_type": "type", "validated": true, "ani": 80.9651, "matched_fragments": 637, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium kunshanense", "strain": "strain=BUT-10", "accession": "GCA_003254525.1", "taxid": 1445034, "species_taxid": 1445034, "relation_to_type": "type", "validated": true, "ani": 80.1523, "matched_fragments": 593, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium aquaticum", "strain": "strain=KACC 18306", "accession": "GCA_022695515.1", "taxid": 1763816, "species_taxid": 1763816, "relation_to_type": "type", "validated": true, "ani": 79.6783, "matched_fragments": 574, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phenylobacterium glaciei", "strain": "strain=20VBR1", "accession": "GCA_016772415.2", "taxid": 2803784, "species_taxid": 2803784, "relation_to_type": "type", "validated": true, "ani": 79.5127, "matched_fragments": 535, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter rhizosphaerae", "strain": "strain=CGMCC 1.15915", "accession": "GCA_014645055.1", "taxid": 2010972, "species_taxid": 2010972, "relation_to_type": "type", "validated": true, "ani": 79.0261, "matched_fragments": 537, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter flavus", "strain": "strain=CGMCC1 15093", "accession": "GCA_002858845.1", "taxid": 1679497, "species_taxid": 1679497, "relation_to_type": "type", "validated": true, "ani": 79.0126, "matched_fragments": 565, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas guildfordensis", "strain": "strain=Sa3CVA3", "accession": "GCA_014836405.1", "taxid": 2762241, "species_taxid": 2762241, "relation_to_type": "type", "validated": true, "ani": 78.1793, "matched_fragments": 304, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas albigilva", "strain": "strain=KEME 9005-016", "accession": "GCA_023503965.1", "taxid": 1312364, "species_taxid": 1312364, "relation_to_type": "type", "validated": true, "ani": 77.9525, "matched_fragments": 369, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria marisrubri", "strain": "strain=ZGT118", "accession": "GCA_001507595.1", "taxid": 1685379, "species_taxid": 1685379, "relation_to_type": "type", "validated": true, "ani": 76.3807, "matched_fragments": 92, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia marisminoris", "strain": "strain=CECT 7066", "accession": "GCA_900172315.1", "taxid": 315423, "species_taxid": 315423, "relation_to_type": "type", "validated": true, "ani": 76.2363, "matched_fragments": 104, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter aquaticus", "strain": "strain=CGMCC 1.7029", "accession": "GCA_014645295.1", 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"type", "validated": true, "ani": 75.8259, "matched_fragments": 107, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus indicus", "strain": "strain=IO390502", "accession": "GCA_003056335.1", "taxid": 2079229, "species_taxid": 2079229, "relation_to_type": "type", "validated": true, "ani": 75.8158, "matched_fragments": 89, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas psychrolutea", "strain": "strain=CGMCC 1.10106", "accession": "GCA_014636175.1", "taxid": 1259676, "species_taxid": 1259676, "relation_to_type": "type", "validated": true, "ani": 75.6575, "matched_fragments": 66, "total_fragments": 1288, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003254705.1", "gtdb_species": "s__Phenylobacterium deserti", "ani": 100.0, 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