{ "type": "genome", "identifier": "GCF_022865105.1", "organism": "Sphingomicrobium astaxanthinifaciens", "title": "Sphingomicrobium astaxanthinifaciens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Anhui University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022865105.1", "bioproject": "PRJNA224116", "biosample": "SAMN25602469", "wgs_master": "JAKNYM000000000.1", "refseq_category": "na", "taxid": "1227949", "species_taxid": "1227949", "organism_name": "Sphingomicrobium astaxanthinifaciens", "infraspecific_name": "strain=JCM 18551", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/09", "asm_name": "ASM2286510v1", "asm_submitter": "Anhui University", "gbrs_paired_asm": "GCA_022865105.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/865/105/GCF_022865105.1_ASM2286510v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2243783", "genome_size_ungapped": "2243783", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022865105.1-RS_2024_04_21", "annotation_date": "2024-04-21", "total_gene_count": "2289", "protein_coding_gene_count": "2224", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-09", "dateModified": "2022-04-09", "datePublished": "2022-04-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomicrobium astaxanthinifaciens" ], "sample_taxid": [ "1227949" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Taiwan" ], "sample_host_location_id": [], "data_size": "0.602 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)": "2243783", "Number of Sequences": "2", "Longest Sequences (bp)": "1474485", "N50 (bp)": "1474485", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.3", "Number of CDSs": "2243", "Average Protein Length": "304.6", "Coding Ratio (%)": "91.3", "Number of rRNAs": "6", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomicrobium astaxanthinifaciens", "strain": "strain=JCM 18551", "accession": "GCA_022865105.1", "taxid": 1227949, "species_taxid": 1227949, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomicrobium flavum", "strain": "strain=JCM 18555", "accession": "GCA_024721605.1", "taxid": 1229164, "species_taxid": 1229164, "relation_to_type": "type", "validated": true, "ani": 79.5824, "matched_fragments": 407, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas astaxanthinifaciens", "strain": "strain=DSM 22298", "accession": "GCA_000711715.1", "taxid": 407019, "species_taxid": 407019, "relation_to_type": "type", "validated": true, "ani": 79.4521, "matched_fragments": 400, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas ginkgonis", "strain": "strain=HMF7854", "accession": "GCA_003970925.1", "taxid": 2315330, "species_taxid": 2315330, "relation_to_type": "type", "validated": true, "ani": 79.1506, "matched_fragments": 380, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas rhizophila", "strain": "strain=KACC 19189", "accession": "GCA_014396585.1", "taxid": 2071607, "species_taxid": 2071607, "relation_to_type": "type", "validated": true, "ani": 78.8285, "matched_fragments": 304, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas segetis", "strain": "strain=YJ09", "accession": "GCA_009720245.1", "taxid": 1104779, "species_taxid": 1104779, "relation_to_type": "type", "validated": true, "ani": 78.2626, "matched_fragments": 285, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium huizhouense", "strain": "strain=c7", "accession": "GCA_020179475.1", "taxid": 2866625, "species_taxid": 2866625, "relation_to_type": "type", "validated": true, "ani": 78.0905, "matched_fragments": 290, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingopyxis 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"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": "-" }, { "accession": "GCF_003499275.1", "gtdb_species": "s__Sphingomicrobium mesophila", "ani": 79.4806, "matched_fragments": 375, "total_fragments": 747, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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": "-" }, { "accession": "GCF_000711715.1", "gtdb_species": "s__Sphingomicrobium astaxanthinifaciens", "ani": 79.4625, "matched_fragments": 399, "total_fragments": 747, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", 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