{ "type": "genome", "identifier": "GCF_003660165.1", "organism": "Sphingomonas paeninsulae", "title": "Sphingomonas paeninsulae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "College of Life Science", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003660165.1", "bioproject": "PRJNA224116", "biosample": "SAMN10031348", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2319844", "species_taxid": "2319844", "organism_name": "Sphingomonas paeninsulae", "infraspecific_name": "strain=YZ-8", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/16", "asm_name": "ASM366016v1", "asm_submitter": "College of Life Science", "gbrs_paired_asm": "GCA_003660165.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/660/165/GCF_003660165.1_ASM366016v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3994557", "genome_size_ungapped": "3994557", "gc_percent": "59.000000", "replicon_count": "3", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003660165.1-RS_2024_05_27", "annotation_date": "2024-05-27", "total_gene_count": "4018", "protein_coding_gene_count": "3727", "non_coding_gene_count": "57", "pubmed_id": "31671048" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-16", "dateModified": "2018-10-16", "datePublished": "2018-10-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas paeninsulae" ], "sample_taxid": [ "2319844" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica" ], "sample_host_location_id": [], "data_size": "1.127 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.45, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3994557", "Number of Sequences": "3", "Longest Sequences (bp)": "2923164", "N50 (bp)": "2923164", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.9", "Number of CDSs": "4155", "Average Protein Length": "287.8", "Coding Ratio (%)": "89.8", "Number of rRNAs": "6", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas paeninsulae", "strain": "strain=YZ-8", "accession": "GCA_003660165.1", "taxid": 2319844, "species_taxid": 2319844, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1329, "total_fragments": 1330, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphingomonas alpina", "strain": "strain=DSM 22537", "accession": "GCA_025370095.1", "taxid": 653931, "species_taxid": 653931, "relation_to_type": "type", "validated": true, "ani": 77.4472, "matched_fragments": 204, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium boeckii", "strain": "strain=DSM 25079", "accession": "GCA_014199215.1", "taxid": 1082345, "species_taxid": 1082345, "relation_to_type": "type", "validated": true, "ani": 77.3022, "matched_fragments": 193, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas aliaeris", "strain": "strain=DH-S5", "accession": "GCA_016743815.1", "taxid": 2759526, "species_taxid": 2759526, "relation_to_type": "type", "validated": true, "ani": 77.2366, "matched_fragments": 190, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium 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"GCA_003053745.1", "taxid": 185950, "species_taxid": 185950, "relation_to_type": "type", "validated": true, "ani": 77.0821, "matched_fragments": 194, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas changnyeongensis", "strain": "strain=C33", "accession": "GCA_009913435.1", "taxid": 2698679, "species_taxid": 2698679, "relation_to_type": "type", "validated": true, "ani": 77.048, "matched_fragments": 166, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas colocasiae", "strain": "strain=JCM 31229", "accession": "GCA_019880585.1", "taxid": 1848973, "species_taxid": 1848973, "relation_to_type": "type", "validated": true, "ani": 77.0459, "matched_fragments": 197, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas gilva", "strain": "strain=ZDH117", "accession": "GCA_003515075.1", "taxid": 2305907, "species_taxid": 2305907, "relation_to_type": "type", "validated": true, "ani": 77.0356, "matched_fragments": 168, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium baderi", "strain": "strain=LL03", "accession": "GCA_000445145.1", "taxid": 1332080, "species_taxid": 1332080, "relation_to_type": "type", "validated": true, "ani": 77.0323, "matched_fragments": 159, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizorhabdus dicambivorans", "strain": "strain=Ndbn-20", "accession": "GCA_002355275.1", "taxid": 1850238, "species_taxid": 1850238, "relation_to_type": "type", "validated": true, "ani": 77.022, "matched_fragments": 160, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquisediminimonas profunda", "strain": "strain=DS48-3", "accession": "GCA_019443285.1", "taxid": 1550733, "species_taxid": 1550733, "relation_to_type": "type", "validated": true, "ani": 77.0027, "matched_fragments": 97, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingorhabdus pulchriflava", "strain": "strain=GY_G", "accession": "GCA_003367235.1", "taxid": 2292257, "species_taxid": 2292257, "relation_to_type": "type", "validated": true, "ani": 76.9659, "matched_fragments": 103, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas lutea", "strain": "strain=KCTC 23642", "accession": "GCA_014396785.1", "taxid": 1045317, "species_taxid": 1045317, "relation_to_type": "type", "validated": true, "ani": 76.9562, "matched_fragments": 82, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium psychrophilum", "strain": "strain=AR-3-1", "accession": "GCA_012927105.1", "taxid": 2728834, "species_taxid": 2728834, "relation_to_type": "type", "validated": true, "ani": 76.9543, "matched_fragments": 189, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas panni", "strain": "strain=DSM 15761", "accession": "GCA_022664435.1", "taxid": 237612, "species_taxid": 237612, "relation_to_type": "type", "validated": true, "ani": 76.9412, "matched_fragments": 181, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas lutea", "strain": "strain=KCTC 23642", "accession": "GCA_021497585.1", "taxid": 1045317, "species_taxid": 1045317, "relation_to_type": "type", "validated": true, "ani": 76.9249, "matched_fragments": 83, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium baderi", "strain": "strain=LL03", "accession": "GCA_001046655.1", "taxid": 1332080, "species_taxid": 1332080, "relation_to_type": "type", "validated": true, "ani": 76.91, "matched_fragments": 160, "total_fragments": 1330, "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": 76.7663, "matched_fragments": 162, "total_fragments": 1330, "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": 76.7346, "matched_fragments": 171, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingosinithalassobacter tenebrarum", "strain": "strain=zrk23", "accession": "GCA_011057975.1", "taxid": 2711215, "species_taxid": 2711215, "relation_to_type": "type", "validated": true, "ani": 76.6579, "matched_fragments": 166, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas deserti", "strain": "strain=GL-C-18", "accession": "GCA_003012735.1", "taxid": 2116704, "species_taxid": 2116704, "relation_to_type": "type", "validated": true, "ani": 76.1226, "matched_fragments": 132, "total_fragments": 1330, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.45, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003660165.1", "gtdb_species": "s__UBA1936 sp003660165", "ani": 100.0, "matched_fragments": 1329, "total_fragments": 1330, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__UBA1936", "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": "GCA_002336985.1", "gtdb_species": "s__UBA1936 sp002336985", "ani": 77.517, "matched_fragments": 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