{ "type": "genome", "identifier": "GCF_008727875.1", "organism": "Larkinella humicola", "title": "Larkinella humicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Seoul Women's University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008727875.1", "bioproject": "PRJNA224116", "biosample": "SAMN12671286", "wgs_master": "VTWS00000000.1", "refseq_category": "reference genome", "taxid": "2607654", "species_taxid": "2607654", "organism_name": "Larkinella humicola", "infraspecific_name": "strain=MA1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/09/29", "asm_name": "ASM872787v1", "asm_submitter": "Seoul Women's University", "gbrs_paired_asm": "GCA_008727875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/727/875/GCF_008727875.1_ASM872787v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7857116", "genome_size_ungapped": "7857116", "gc_percent": "52.500000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008727875.1-RS_2024_09_16", "annotation_date": "2024-09-16", "total_gene_count": "6328", "protein_coding_gene_count": "6259", "non_coding_gene_count": "39", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-09-29", "dateModified": "2019-09-29", "datePublished": "2019-09-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Larkinella humicola" ], "sample_taxid": [ "2607654" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Busan" ], "sample_host_location_id": [], "data_size": "2.221 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)": "7857116", "Number of Sequences": "20", "Longest Sequences (bp)": "1887790", "N50 (bp)": "721815", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.3", "Number of CDSs": "6292", "Average Protein Length": "370.2", "Coding Ratio (%)": "88.9", "Number of rRNAs": "0", "Number of tRNAs": "38", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Larkinella humicola", "strain": "strain=MA1", "accession": "GCA_008727875.1", "taxid": 2607654, "species_taxid": 2607654, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2608, "total_fragments": 2608, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Larkinella punicea", "strain": "strain=ZZJ9", "accession": "GCA_003334855.1", "taxid": 2315727, "species_taxid": 2315727, "relation_to_type": "type", "validated": true, "ani": 92.5456, "matched_fragments": 2230, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Larkinella knui", "strain": "strain=KCTC42998", "accession": "GCA_003858645.1", "taxid": 2025310, "species_taxid": 2025310, "relation_to_type": "type", "validated": true, "ani": 83.3368, "matched_fragments": 1810, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Larkinella rosea", "strain": "strain=KCTC52004", "accession": "GCA_003858635.1", "taxid": 2025312, "species_taxid": 2025312, "relation_to_type": "type", "validated": true, "ani": 81.7582, "matched_fragments": 1703, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Larkinella terrae", "strain": "strain=KCTC 52001", "accession": "GCA_009668025.1", "taxid": 2025311, "species_taxid": 2025311, "relation_to_type": "type", "validated": true, "ani": 81.7543, "matched_fragments": 1666, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Larkinella arboricola", "strain": "strain=DSM 21851", "accession": "GCA_003259745.1", "taxid": 643671, "species_taxid": 643671, "relation_to_type": "type", "validated": true, "ani": 80.0194, "matched_fragments": 1259, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spirosoma panaciterrae", "strain": "strain=DSM 21099", "accession": "GCA_000374025.1", "taxid": 496058, "species_taxid": 496058, "relation_to_type": "type", "validated": true, "ani": 76.2363, "matched_fragments": 249, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter armeniacus", "strain": "strain=BT189", "accession": "GCA_014699055.1", "taxid": 2771358, "species_taxid": 2771358, "relation_to_type": "type", "validated": true, "ani": 75.0833, "matched_fragments": 56, "total_fragments": 2608, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_008727875.1", "gtdb_species": "s__Larkinella sp008727875", "ani": 100.0, "matched_fragments": 2608, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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_006149005.1", "gtdb_species": "s__Larkinella sp006149005", "ani": 92.8932, "matched_fragments": 2242, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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_003334855.1", "gtdb_species": "s__Larkinella punicea", "ani": 92.5456, "matched_fragments": 2230, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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_003858645.1", "gtdb_species": "s__Larkinella knui", "ani": 83.3453, "matched_fragments": 1808, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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_003858635.1", "gtdb_species": "s__Larkinella rosea", "ani": 81.7599, "matched_fragments": 1702, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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_009668025.1", "gtdb_species": "s__Larkinella terrae", "ani": 81.748, "matched_fragments": 1668, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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_004366505.1", "gtdb_species": "s__Larkinella sp004366505", "ani": 80.4297, "matched_fragments": 1372, "total_fragments": 2608, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Larkinella", "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": -0.14, "cell_length": 0.259, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 30.0, "optimum_ph": 7.0, "genome_size": 7020148.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Larkinella", "humicola" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }