{ "type": "genome", "identifier": "GCF_003391115.1", "organism": "Sphingomonas crusticola", "title": "Sphingomonas crusticola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "inner mongolia aricultual university", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003391115.1", "bioproject": "PRJNA224116", "biosample": "SAMN09767471", "wgs_master": "QTJP00000000.1", "refseq_category": "reference genome", "taxid": "1697973", "species_taxid": "1697973", "organism_name": "Sphingomonas crusticola", "infraspecific_name": "strain=MIMD3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/13", "asm_name": "ASM339111v1", "asm_submitter": "inner mongolia aricultual university", "gbrs_paired_asm": "GCA_003391115.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/391/115/GCF_003391115.1_ASM339111v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3367145", "genome_size_ungapped": "3367145", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003391115.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3195", "protein_coding_gene_count": "3128", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-13", "dateModified": "2018-08-13", "datePublished": "2018-08-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas crusticola" ], "sample_taxid": [ "1697973" ], "sample_host_organism": [ "biological soil crusts" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Huhhot" ], "sample_host_location_id": [], "data_size": "0.930 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)": "3367145", "Number of Sequences": "2", "Longest Sequences (bp)": "3366072", "N50 (bp)": "3366072", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.7", "Number of CDSs": "3173", "Average Protein Length": "324.4", "Coding Ratio (%)": "91.7", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas crusticola", "strain": "strain=MIMD3", "accession": "GCA_003391115.1", "taxid": 1697973, "species_taxid": 1697973, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1122, "total_fragments": 1122, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphingomonas vulcanisoli", "strain": "strain=CECT 8804", "accession": "GCA_011761305.1", "taxid": 1658060, "species_taxid": 1658060, "relation_to_type": "type", "validated": true, "ani": 79.4705, "matched_fragments": 402, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas oleivorans", "strain": "strain=FW-11", "accession": "GCA_003050615.1", "taxid": 1735121, "species_taxid": 1735121, "relation_to_type": "type", "validated": true, "ani": 79.0308, "matched_fragments": 363, "total_fragments": 1122, "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": 78.7538, "matched_fragments": 373, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas jatrophae", "strain": "strain=S5-249", "accession": "GCA_900113315.1", "taxid": 1166337, "species_taxid": 1166337, "relation_to_type": "type", "validated": true, "ani": 78.6331, "matched_fragments": 376, "total_fragments": 1122, "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": 78.5647, "matched_fragments": 357, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas profundi", "strain": "strain=LMO-1", "accession": "GCA_009739515.1", "taxid": 2681549, "species_taxid": 2681549, "relation_to_type": "type", "validated": true, "ani": 78.5265, "matched_fragments": 379, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas solaris", "strain": "strain=R4DWN", "accession": "GCA_007785815.1", "taxid": 2529389, "species_taxid": 2529389, "relation_to_type": "type", "validated": true, "ani": 78.4499, "matched_fragments": 327, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas sanxanigenens", "strain": "strain=NX02", "accession": "GCA_000512205.2", "taxid": 397260, "species_taxid": 397260, "relation_to_type": "type", "validated": true, "ani": 78.4212, "matched_fragments": 372, "total_fragments": 1122, "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": 78.3595, "matched_fragments": 293, "total_fragments": 1122, "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": 78.344, "matched_fragments": 391, "total_fragments": 1122, "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": 78.2364, "matched_fragments": 372, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas prati", "strain": "strain=W18RD", "accession": "GCA_009755805.1", "taxid": 1843237, "species_taxid": 1843237, "relation_to_type": "type", "validated": true, "ani": 78.1648, "matched_fragments": 305, "total_fragments": 1122, "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": 78.1638, "matched_fragments": 306, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas prati", "strain": "strain=CGMCC 1.15645", "accession": "GCA_014643515.1", "taxid": 1843237, "species_taxid": 1843237, "relation_to_type": "type", "validated": true, "ani": 78.1451, "matched_fragments": 310, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas prati", "strain": "strain=DSM 103336", "accession": "GCA_014199405.1", "taxid": 1843237, "species_taxid": 1843237, "relation_to_type": "type", "validated": true, "ani": 78.1439, "matched_fragments": 306, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas parva", "strain": "strain=17J27-24", "accession": "GCA_004564275.1", "taxid": 2555898, "species_taxid": 2555898, "relation_to_type": "type", "validated": true, "ani": 78.1296, "matched_fragments": 318, "total_fragments": 1122, "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": 78.1067, "matched_fragments": 343, "total_fragments": 1122, "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": 78.071, "matched_fragments": 298, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas kaistensis", "strain": "strain=DSM 16846", "accession": "GCA_011927725.1", "taxid": 298708, "species_taxid": 298708, "relation_to_type": "type", "validated": true, "ani": 78.0358, "matched_fragments": 219, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas horti", "strain": "strain=MAH-20", "accession": "GCA_009753715.1", "taxid": 2682842, "species_taxid": 2682842, "relation_to_type": "type", "validated": true, "ani": 77.9796, "matched_fragments": 322, "total_fragments": 1122, "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": 77.9118, "matched_fragments": 203, "total_fragments": 1122, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003391115.1", "gtdb_species": "s__Sphingomonas_I crusticola", "ani": 100.0, "matched_fragments": 1122, "total_fragments": 1122, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_I", "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_011761305.1", "gtdb_species": "s__Sphingomonas_I vulcanisoli", "ani": 79.4457, "matched_fragments": 404, "total_fragments": 1122, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_I", "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_903644055.1", "gtdb_species": "s__Sphingomonas_I sp903644055", "ani": 79.3526, "matched_fragments": 319, "total_fragments": 1122, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_I", "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_013113735.1", "gtdb_species": "s__Sphingomonas_I sp013113735", "ani": 79.1562, "matched_fragments": 466, "total_fragments": 1122, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_I", "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_003050615.1", "gtdb_species": "s__Sphingomonas_H oleivorans", "ani": 79.0069, "matched_fragments": 365, "total_fragments": 1122, "gtdb_taxonomy": 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"d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__XMGL2", "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_900113315.1", "gtdb_species": "s__Sphingomonas_G jatrophae", "ani": 78.6064, "matched_fragments": 379, "total_fragments": 1122, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_G", "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_900188165.1", "gtdb_species": "s__Sphingomonas_E laterariae", "ani": 78.5593, "matched_fragments": 358, "total_fragments": 1122, "gtdb_taxonomy": 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