{ "type": "genome", "identifier": "GCF_003581645.1", "organism": "Pelagerythrobacter aerophilus", "title": "Pelagerythrobacter aerophilus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Second Institute of Oceanography, State Oceanic Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003581645.1", "bioproject": "PRJNA224116", "biosample": "SAMN09939628", "wgs_master": "QXFK00000000.1", "refseq_category": "reference genome", "taxid": "2306995", "species_taxid": "2306995", "organism_name": "Pelagerythrobacter aerophilus", "infraspecific_name": "strain=Ery1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/20", "asm_name": "ASM358164v1", "asm_submitter": "Second Institute of Oceanography, State Oceanic Administration", "gbrs_paired_asm": "GCA_003581645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/581/645/GCF_003581645.1_ASM358164v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3653105", "genome_size_ungapped": "3653105", "gc_percent": "65.500000", "replicon_count": "0", "scaffold_count": "19", "contig_count": "19", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003581645.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3578", "protein_coding_gene_count": "3488", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-20", "dateModified": "2018-09-20", "datePublished": "2018-09-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Pelagerythrobacter aerophilus" ], "sample_taxid": [ "2306995" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean" ], "sample_host_location_id": [], "data_size": "1.010 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)": "3653105", "Number of Sequences": "19", "Longest Sequences (bp)": "802746", "N50 (bp)": "636049", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.4", "Number of CDSs": "3529", "Average Protein Length": "314.8", "Coding Ratio (%)": "91.2", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pelagerythrobacter aerophilus", "strain": "strain=Ery1", "accession": "GCA_003581645.1", "taxid": 2306995, "species_taxid": 2306995, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1180, "total_fragments": 1210, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pelagerythrobacter rhizovicinus", "strain": "strain=AY-3R", "accession": "GCA_004135625.1", "taxid": 2268576, "species_taxid": 2268576, "relation_to_type": "type", "validated": true, "ani": 88.8605, "matched_fragments": 818, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marinus", "strain": "strain=H32", "accession": "GCA_009827515.1", "taxid": 538382, "species_taxid": 538382, "relation_to_type": "type", "validated": true, "ani": 83.2433, "matched_fragments": 693, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=KCTC 22370", "accession": "GCA_001028625.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 81.2453, "matched_fragments": 632, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=DSM 21428", "accession": "GCA_001461885.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 81.2107, "matched_fragments": 643, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania proteolytica", "strain": "strain=6B39", "accession": "GCA_019711565.1", "taxid": 2867239, "species_taxid": 2867239, "relation_to_type": "type", "validated": true, "ani": 80.0489, "matched_fragments": 509, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella amylolytica", "strain": "strain=NS1", "accession": "GCA_003626915.1", "taxid": 2338327, "species_taxid": 2338327, "relation_to_type": "type", "validated": true, "ani": 79.9658, "matched_fragments": 495, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alteriqipengyuania lutimaris", "strain": "strain=S-5", "accession": "GCA_003363135.1", "taxid": 1538146, "species_taxid": 1538146, "relation_to_type": "type", "validated": true, "ani": 79.5924, "matched_fragments": 465, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania xiapuensis", "strain": "strain=1NDW9", "accession": "GCA_019711395.1", "taxid": 2867236, "species_taxid": 2867236, "relation_to_type": "type", "validated": true, "ani": 79.2769, "matched_fragments": 446, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania gelatinilytica", "strain": "strain=1NDH1", "accession": "GCA_019711315.1", "taxid": 2867231, "species_taxid": 2867231, "relation_to_type": "type", "validated": true, "ani": 79.0393, "matched_fragments": 412, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania aerophila", "strain": "strain=GH25", "accession": "GCA_019711555.1", "taxid": 2867242, "species_taxid": 2867242, "relation_to_type": "type", "validated": true, "ani": 79.0074, "matched_fragments": 369, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003581645.1", "gtdb_species": "s__Pelagerythrobacter aerophilus", "ani": 100.0, "matched_fragments": 1175, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_016803135.1", "gtdb_species": "s__Pelagerythrobacter sp016803135", "ani": 89.6644, "matched_fragments": 873, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_004135625.1", "gtdb_species": "s__Pelagerythrobacter rhizovicinus", "ani": 88.885, "matched_fragments": 817, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_009827515.1", "gtdb_species": "s__Pelagerythrobacter marinus", "ani": 83.2312, "matched_fragments": 694, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_001028625.1", "gtdb_species": "s__Pelagerythrobacter marensis", "ani": 81.2428, "matched_fragments": 633, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001542855.1", "gtdb_species": "s__Qipengyuania sp001542855", "ani": 80.4344, "matched_fragments": 504, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.07", "min_intra_species_ani": "97.03", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_009828015.1", "gtdb_species": "s__Qipengyuania citrea", "ani": 79.8257, "matched_fragments": 467, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.91", "min_intra_species_ani": "97.49", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 20, "status": "-" }, { "accession": "GCF_015999305.1", "gtdb_species": "s__Alteriqipengyuania sp015999305", "ani": 79.6371, "matched_fragments": 471, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Alteriqipengyuania", "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_009827315.1", "gtdb_species": "s__Qipengyuania gaetbuli", "ani": 79.5829, "matched_fragments": 463, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Pelagerythrobacter", "aerophilus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }