{ "type": "genome", "identifier": "GCF_000423645.1", "organism": "Sediminimonas qiaohouensis DSM 21189", "title": "Sediminimonas qiaohouensis DSM 21189", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000423645.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441501", "wgs_master": "AUIJ00000000.1", "refseq_category": "reference genome", "taxid": "1123247", "species_taxid": "552061", "organism_name": "Sediminimonas qiaohouensis DSM 21189", "infraspecific_name": "strain=DSM 21189", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/11", "asm_name": "ASM42364v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000423645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/423/645/GCF_000423645.1_ASM42364v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3554982", "genome_size_ungapped": "3553881", "gc_percent": "64.000000", "replicon_count": "0", "scaffold_count": "67", "contig_count": "68", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000423645.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "3524", "protein_coding_gene_count": "3388", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-11", "dateModified": "2013-07-11", "datePublished": "2013-07-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Sediminimonas qiaohouensis DSM 21189" ], "sample_taxid": [ "1123247" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "0.991 MB", "sample_ph_range": { "min": 6590.0, "max": 6590.0 }, "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)": "3554982", "Number of Sequences": "67", "Longest Sequences (bp)": "475853", "N50 (bp)": "146200", "Gap Ratio (%)": "0.030971", "GCcontent (%)": "63.8", "Number of CDSs": "3405", "Average Protein Length": "308.9", "Coding Ratio (%)": "88.8", "Number of rRNAs": "4", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Roseovarius pacificus", "strain": "strain=DSM 29589", "accession": "GCA_900142665.1", "taxid": 337701, "species_taxid": 337701, 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"status": "below_threshold" }, { "organism_name": "Roseovarius litoreus", "strain": "strain=DSM 28249", "accession": "GCA_900142765.1", "taxid": 1155722, "species_taxid": 1155722, "relation_to_type": "type", "validated": true, "ani": 78.8346, "matched_fragments": 410, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salibaculum halophilum", "strain": "strain=WDS1C4", "accession": "GCA_002094885.1", "taxid": 1914408, "species_taxid": 1914408, "relation_to_type": "type", "validated": true, "ani": 78.4859, "matched_fragments": 349, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola aestuarii", "strain": "strain=E2-1", "accession": "GCA_010614805.1", "taxid": 2697319, "species_taxid": 2697319, "relation_to_type": "type", "validated": true, "ani": 78.3757, "matched_fragments": 365, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria sediminis", "strain": "strain=CAU 1488", "accession": "GCA_005938215.1", "taxid": 2583820, "species_taxid": 2583820, "relation_to_type": "type", "validated": true, "ani": 78.3664, "matched_fragments": 401, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinihabitans flavidus", "strain": "strain=DSM 27842", "accession": "GCA_900110425.1", "taxid": 569882, "species_taxid": 569882, "relation_to_type": "type", "validated": true, "ani": 78.3134, "matched_fragments": 421, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevirhabdus pacifica", "strain": "strain=DSM 27767", "accession": "GCA_002797755.1", "taxid": 1267768, "species_taxid": 1267768, "relation_to_type": "type", "validated": true, "ani": 78.2933, "matched_fragments": 333, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseibacterium elongatum", "strain": "strain=DFL-43", "accession": "GCA_000590925.1", "taxid": 159346, "species_taxid": 159346, "relation_to_type": "type", "validated": true, "ani": 78.2784, "matched_fragments": 361, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter sabulilitoris", "strain": "strain=HSMS-29", "accession": "GCA_005887615.1", "taxid": 2562655, "species_taxid": 2562655, "relation_to_type": "type", "validated": true, "ani": 78.2124, "matched_fragments": 414, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseivivax isoporae", "strain": "strain=LMG 25204", "accession": "GCA_000521865.1", "taxid": 591206, "species_taxid": 591206, "relation_to_type": "type", "validated": true, "ani": 78.2031, "matched_fragments": 378, "total_fragments": 1152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola marinus", "strain": "strain=LMG 23705", "accession": "GCA_002786295.1", "taxid": 396013, 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"below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000423645.1", "gtdb_species": "s__Sediminimonas qiaohouensis", "ani": 100.0, "matched_fragments": 1148, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sediminimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.45", "min_intra_species_ani": "97.45", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_011389955.1", "gtdb_species": "s__Sediminimonas sp011389955", "ani": 84.3634, "matched_fragments": 414, "total_fragments": 1152, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sediminimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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