{ "type": "genome", "identifier": "GCF_028607085.1", "organism": "Sphingomonas naphthae", "title": "Sphingomonas naphthae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Agricultural Sciences, Rural Development Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_028607085.1", "bioproject": "PRJNA224116", "biosample": "SAMN33038042", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1813468", "species_taxid": "1813468", "organism_name": "Sphingomonas naphthae", "infraspecific_name": "strain=KACC 18716", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/02/13", "asm_name": "ASM2860708v1", "asm_submitter": "National Institute of Agricultural Sciences, Rural Development Administration", "gbrs_paired_asm": "GCA_028607085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/028/607/085/GCF_028607085.1_ASM2860708v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4310851", "genome_size_ungapped": "4310851", "gc_percent": "67.500000", "replicon_count": "5", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_028607085.1-RS_2024_03_24", "annotation_date": "2024-03-24", "total_gene_count": "4199", "protein_coding_gene_count": "4109", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-02-13", "dateModified": "2023-02-13", "datePublished": "2023-02-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas naphthae" ], "sample_taxid": [ "1813468" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Jeollabuk-do, Gunsan-si" ], "sample_host_location_id": [], "data_size": "1.169 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)": "4310851", "Number of Sequences": "5", "Longest Sequences (bp)": "3919827", "N50 (bp)": "3919827", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.3", "Number of CDSs": "4182", "Average Protein Length": "310.8", "Coding Ratio (%)": "90.4", "Number of rRNAs": "6", "Number of tRNAs": "55", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas solaris", "strain": "strain=R4DWN", "accession": "GCA_007785815.1", "taxid": 2529389, 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"validated": true, "ani": 79.9967, "matched_fragments": 519, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas fennica", "strain": "strain=K101", "accession": "GCA_003034225.1", "taxid": 114404, "species_taxid": 114404, "relation_to_type": "type", "validated": true, "ani": 79.9331, "matched_fragments": 551, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas oligoaromativorans", "strain": "strain=DSM 102246", "accession": "GCA_011762195.1", "taxid": 575322, "species_taxid": 575322, "relation_to_type": "type", "validated": true, "ani": 79.853, "matched_fragments": 516, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizorhabdus histidinilytica", "strain": "strain=UM2", "accession": "GCA_900167915.1", "taxid": 439228, "species_taxid": 439228, "relation_to_type": "type", "validated": true, "ani": 79.6057, 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1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas laterariae", "strain": "strain=LNB2", "accession": "GCA_900188165.1", "taxid": 861865, "species_taxid": 861865, "relation_to_type": "type", "validated": true, "ani": 79.4653, "matched_fragments": 494, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas crusticola", "strain": "strain=MIMD3", "accession": "GCA_003391115.1", "taxid": 1697973, "species_taxid": 1697973, "relation_to_type": "type", "validated": true, "ani": 79.3317, "matched_fragments": 401, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizorhabdus phycosphaerae", "strain": "strain=MK52", "accession": "GCA_011044255.1", "taxid": 2711156, "species_taxid": 2711156, "relation_to_type": "type", "validated": true, "ani": 79.1044, "matched_fragments": 446, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas morindae", "strain": "strain=NBD5", "accession": "GCA_023822065.1", "taxid": 1541170, "species_taxid": 1541170, "relation_to_type": "type", "validated": true, "ani": 79.096, "matched_fragments": 533, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas desiccabilis", "strain": "strain=CP1D", "accession": "GCA_004135605.1", "taxid": 429134, "species_taxid": 429134, "relation_to_type": "type", "validated": true, "ani": 79.0688, "matched_fragments": 427, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas desiccabilis", "strain": "strain=DSM 16792", "accession": "GCA_014196135.1", "taxid": 429134, "species_taxid": 429134, "relation_to_type": "type", "validated": true, "ani": 79.0628, "matched_fragments": 428, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas baiyangensis", "strain": "strain=L-1-4 w-11", "accession": "GCA_005144715.1", "taxid": 2572576, "species_taxid": 2572576, "relation_to_type": "type", "validated": true, "ani": 78.9648, "matched_fragments": 420, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas formosensis", "strain": "strain=CC-Nfb-2", "accession": "GCA_009755815.1", "taxid": 861534, "species_taxid": 861534, "relation_to_type": "type", "validated": true, "ani": 78.9102, "matched_fragments": 512, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas flavalba", "strain": "strain=ZLT-5", "accession": "GCA_004796535.1", "taxid": 2559804, "species_taxid": 2559804, "relation_to_type": "type", "validated": true, "ani": 78.9101, "matched_fragments": 399, "total_fragments": 1434, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas rubra", "strain": "strain=CGMCC 1.9113", "accession": "GCA_900115745.1", 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