{ "type": "genome", "identifier": "GCF_003515075.1", "organism": "Sphingomonas gilva", "title": "Sphingomonas gilva", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Huzhong Agricultrural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003515075.1", "bioproject": "PRJNA224116", "biosample": "SAMN09926245", "wgs_master": "QWLV00000000.1", "refseq_category": "reference genome", "taxid": "2305907", "species_taxid": "2305907", "organism_name": "Sphingomonas gilva", "infraspecific_name": "strain=ZDH117", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/10", "asm_name": "ASM351507v1", "asm_submitter": "Huzhong Agricultrural University", "gbrs_paired_asm": "GCA_003515075.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/515/075/GCF_003515075.1_ASM351507v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3541169", "genome_size_ungapped": "3541149", "gc_percent": "67.500000", "replicon_count": "0", "scaffold_count": "17", "contig_count": "17", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003515075.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "3413", "protein_coding_gene_count": "3347", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-10", "dateModified": "2018-09-10", "datePublished": "2018-09-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas gilva" ], "sample_taxid": [ "2305907" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: DanXia Mountain of Shaoguan City Guangdong Province" ], "sample_host_location_id": [], "data_size": "0.959 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3541169", "Number of Sequences": "17", "Longest Sequences (bp)": "980120", "N50 (bp)": "850722", "Gap Ratio (%)": "0.000762", "GCcontent (%)": "67.6", "Number of CDSs": "3345", "Average Protein Length": "322.5", "Coding Ratio (%)": "91.4", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas gilva", "strain": "strain=ZDH117", "accession": "GCA_003515075.1", "taxid": 2305907, "species_taxid": 2305907, "relation_to_type": "type", "validated": true, "ani": 100.0, 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2559804, "species_taxid": 2559804, "relation_to_type": "type", "validated": true, "ani": 79.5902, "matched_fragments": 462, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas carotinifaciens", "strain": "strain=DSM 27347", "accession": "GCA_009789535.1", "taxid": 1166323, "species_taxid": 1166323, "relation_to_type": "type", "validated": true, "ani": 79.5522, "matched_fragments": 513, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas carotinifaciens", "strain": "strain=DSM 27347", "accession": "GCA_014197095.1", "taxid": 1166323, "species_taxid": 1166323, "relation_to_type": "type", "validated": true, "ani": 79.5485, "matched_fragments": 511, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas suaedae", "strain": "strain=XS-10", "accession": "GCA_007833215.1", "taxid": 2599297, "species_taxid": 2599297, "relation_to_type": "type", "validated": true, "ani": 79.5029, "matched_fragments": 561, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas gei", "strain": "strain=ZFGT-11", "accession": "GCA_004792685.1", "taxid": 1395960, "species_taxid": 1395960, "relation_to_type": "type", "validated": true, "ani": 79.478, "matched_fragments": 577, "total_fragments": 1170, "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": 79.4197, "matched_fragments": 465, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas alpina", "strain": "strain=DSM 22537", "accession": "GCA_025370095.1", "taxid": 653931, "species_taxid": 653931, "relation_to_type": "type", "validated": true, "ani": 78.9448, 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95, "status": "below_threshold" }, { "organism_name": "Sphingomonas jejuensis", "strain": "strain=DSM 27651", "accession": "GCA_011927695.1", "taxid": 904715, "species_taxid": 904715, "relation_to_type": "type", "validated": true, "ani": 78.6808, "matched_fragments": 409, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003515075.1", "gtdb_species": "s__Sphingomonas gilva", "ani": 100.0, "matched_fragments": 1168, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas", "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_018449795.1", "gtdb_species": 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