{ "type": "genome", "identifier": "GCF_013377885.1", "organism": "Hymenobacter lapidiphilus", "title": "Hymenobacter lapidiphilus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Masaryk University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013377885.1", "bioproject": "PRJNA224116", "biosample": "SAMN14907208", "wgs_master": "JABKAU000000000.1", "refseq_category": "reference genome", "taxid": "2608003", "species_taxid": "2608003", "organism_name": "Hymenobacter lapidiphilus", "infraspecific_name": "strain=P5342", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/30", "asm_name": "ASM1337788v1", "asm_submitter": "Masaryk University", "gbrs_paired_asm": "GCA_013377885.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/377/885/GCF_013377885.1_ASM1337788v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4611553", "genome_size_ungapped": "4611553", "gc_percent": "60.500000", "replicon_count": "0", "scaffold_count": "121", "contig_count": "121", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013377885.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4098", "protein_coding_gene_count": "4015", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-30", "dateModified": "2020-06-30", "datePublished": "2020-06-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Hymenobacter lapidiphilus" ], "sample_taxid": [ "2608003" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica:James Ross Island, Lachman Crags" ], "sample_host_location_id": [], "data_size": "1.300 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)": "4611553", "Number of Sequences": "121", "Longest Sequences (bp)": "247977", "N50 (bp)": "111359", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.5", "Number of CDSs": "4022", "Average Protein Length": "323.3", "Coding Ratio (%)": "84.6", "Number of rRNAs": "2", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Hymenobacter lapidiphilus", "strain": "strain=P5342", "accession": "GCA_013377885.1", "taxid": 2608003, "species_taxid": 2608003, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1478, "total_fragments": 1483, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Hymenobacter terrestris", "strain": "strain=P5252", "accession": "GCA_013377905.1", "taxid": 2748310, "species_taxid": 2748310, "relation_to_type": "type", "validated": true, "ani": 90.5481, "matched_fragments": 1143, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter actinosclerus", "strain": "strain=DSM 15310", "accession": "GCA_900111515.1", "taxid": 82805, "species_taxid": 82805, "relation_to_type": "type", "validated": true, "ani": 87.2402, "matched_fragments": 1124, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter psychrophilus", "strain": "strain=CGMCC 1.8975", "accession": "GCA_900107135.1", "taxid": 651662, "species_taxid": 651662, "relation_to_type": "type", "validated": true, "ani": 87.1911, "matched_fragments": 1191, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter aerophilus", "strain": "strain=DSM 13606", "accession": "GCA_000382225.1", "taxid": 119644, "species_taxid": 119644, "relation_to_type": "type", "validated": true, "ani": 87.1721, "matched_fragments": 1108, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter amundsenii", "strain": "strain=CCM 8682", "accession": "GCA_002204745.1", "taxid": 2006685, "species_taxid": 2006685, "relation_to_type": "type", "validated": true, "ani": 83.9831, "matched_fragments": 1098, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter piscis", "strain": "strain=NST-14", "accession": "GCA_018760735.1", "taxid": 2839984, "species_taxid": 2839984, "relation_to_type": "type", "validated": true, "ani": 83.0393, "matched_fragments": 1035, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter perfusus", "strain": "strain=LMG 26000", "accession": "GCA_003944765.1", "taxid": 1236770, "species_taxid": 1236770, "relation_to_type": "type", "validated": true, "ani": 81.3353, "matched_fragments": 942, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter guriensis", "strain": "strain=BT594", "accession": "GCA_015773195.1", "taxid": 2793065, "species_taxid": 2793065, "relation_to_type": "type", "validated": true, "ani": 80.0056, "matched_fragments": 763, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter aquaticus", "strain": "strain=JCM 31653", "accession": "GCA_004765605.1", "taxid": 1867101, "species_taxid": 1867101, "relation_to_type": "type", "validated": true, "ani": 79.9886, "matched_fragments": 831, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter telluris", "strain": "strain=BT186", "accession": "GCA_017313265.1", "taxid": 2816474, "species_taxid": 2816474, "relation_to_type": "type", "validated": true, "ani": 79.4174, "matched_fragments": 723, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter metallicola", "strain": "strain=9PBR-1", "accession": "GCA_004745645.1", "taxid": 2563114, "species_taxid": 2563114, "relation_to_type": "type", "validated": true, "ani": 79.371, "matched_fragments": 710, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter gummosus", "strain": "strain=KCTC 52166", "accession": "GCA_003970915.1", "taxid": 1776032, "species_taxid": 1776032, "relation_to_type": "type", "validated": true, "ani": 79.1412, "matched_fragments": 773, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter edaphi", "strain": "strain=NL", "accession": "GCA_003258365.1", "taxid": 2211146, "species_taxid": 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78.1746, "matched_fragments": 516, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia perseverans", "strain": "strain=INN12", "accession": "GCA_022870505.1", "taxid": 2615214, "species_taxid": 2615214, "relation_to_type": "type", "validated": true, "ani": 74.7616, "matched_fragments": 71, "total_fragments": 1483, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013377885.1", "gtdb_species": "s__Hymenobacter lapidiphilus", "ani": 100.0, "matched_fragments": 1478, "total_fragments": 1483, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Hymenobacter", "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, 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"optimum_ph": 7.3, "genome_size": 5095981.0, "gc_content": 60.5, "coding_genes": 4057.5, "rRNA16S_genes": 3.0, "tRNA_genes": 43.5, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Hymenobacter", "lapidiphilus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }