{ "type": "genome", "identifier": "GCF_011170065.1", "organism": "Lactococcus insecticola", "title": "Lactococcus insecticola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of yamanashi", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011170065.1", "bioproject": "PRJNA224116", "biosample": "SAMD00206658", "wgs_master": "BLLH00000000.1", "refseq_category": "reference genome", "taxid": "2709158", "species_taxid": "2709158", "organism_name": "Lactococcus insecticola", "infraspecific_name": "strain=Hs20B0-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/21", "asm_name": "ASM1117006v1", "asm_submitter": "University of yamanashi", "gbrs_paired_asm": "GCA_011170065.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/170/065/GCF_011170065.1_ASM1117006v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1979452", "genome_size_ungapped": "1979452", "gc_percent": "42.000000", "replicon_count": "0", "scaffold_count": "28", "contig_count": "28", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011170065.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "1932", "protein_coding_gene_count": "1854", "non_coding_gene_count": "60", "pubmed_id": "32614762" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-21", "dateModified": "2020-02-21", "datePublished": "2020-02-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Lactococcus insecticola" ], "sample_taxid": [ "2709158" ], "sample_host_organism": [ "Hodotermopsis sjostedti" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.555 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.46, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "1979452", "Number of Sequences": "28", "Longest Sequences (bp)": "437291", "N50 (bp)": "142093", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.2", "Number of CDSs": "1847", "Average Protein Length": "318.3", "Coding Ratio (%)": "89.1", "Number of rRNAs": "4", "Number of tRNAs": "50", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactococcus insecticola", "strain": "strain=Hs20B0-1", "accession": "GCA_011170065.1", "taxid": 2709158, "species_taxid": 2709158, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 646, "total_fragments": 647, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus raffinolactis", "strain": "strain=NBRC 100932", "accession": "GCA_001591765.1", "taxid": 1366, "species_taxid": 1366, "relation_to_type": "type", "validated": true, "ani": 79.2827, "matched_fragments": 198, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus raffinolactis", "strain": "strain=ATCC 43920", "accession": "GCA_002441745.1", "taxid": 1366, "species_taxid": 1366, "relation_to_type": "type", "validated": true, "ani": 79.21, "matched_fragments": 197, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus reticulitermitis", "strain": "strain=Rs-Y01", "accession": "GCA_002260845.1", "taxid": 2025039, "species_taxid": 2025039, "relation_to_type": "type", "validated": true, "ani": 79.0967, "matched_fragments": 228, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus laudensis", "strain": "strain=DSM 28961", "accession": "GCA_013449735.1", "taxid": 1494461, "species_taxid": 1494461, "relation_to_type": "type", "validated": true, "ani": 79.0316, "matched_fragments": 216, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus laudensis", "strain": "strain=LMG 28353", "accession": "GCA_019586025.1", "taxid": 1494461, "species_taxid": 1494461, "relation_to_type": "type", "validated": true, "ani": 78.992, "matched_fragments": 219, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus paracarnosus", "strain": "strain=TMW 2.1615", "accession": "GCA_006770285.1", "taxid": 2749962, "species_taxid": 2749962, "relation_to_type": "type", "validated": true, "ani": 78.967, "matched_fragments": 145, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus chungangensis", "strain": "strain=DSM 22330", "accession": "GCA_900119835.1", "taxid": 451457, "species_taxid": 451457, "relation_to_type": "type", "validated": true, "ani": 78.8555, "matched_fragments": 200, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus hodotermopsidis", "strain": "strain=Hs30E4-3", "accession": "GCA_011170085.1", "taxid": 2709157, "species_taxid": 2709157, "relation_to_type": "type", "validated": true, "ani": 78.8316, "matched_fragments": 227, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus chungangensis", "strain": "strain=DSM 22330", "accession": "GCA_002441885.1", "taxid": 451457, "species_taxid": 451457, "relation_to_type": "type", "validated": true, "ani": 78.8258, "matched_fragments": 208, "total_fragments": 647, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.46, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_011170065.1", "gtdb_species": "s__Lactococcus_A insecticola", "ani": 100.0, "matched_fragments": 646, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "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_001591765.1", "gtdb_species": "s__Lactococcus_A raffinolactis", "ani": 79.2827, "matched_fragments": 198, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.11", "min_intra_species_ani": "98.57", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_002260845.1", "gtdb_species": "s__Lactococcus_A reticulitermitis", "ani": 79.0967, "matched_fragments": 228, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "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_013449735.1", "gtdb_species": "s__Lactococcus_A laudensis", "ani": 79.0316, "matched_fragments": 216, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.98", "min_intra_species_ani": "97.98", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_006770285.1", "gtdb_species": "s__Lactococcus_A paracarnosus", "ani": 78.967, "matched_fragments": 145, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011170085.1", "gtdb_species": "s__Lactococcus_A hodotermopsidis", "ani": 78.8763, "matched_fragments": 224, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "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_002441885.1", "gtdb_species": "s__Lactococcus_A chungangensis", "ani": 78.8258, "matched_fragments": 208, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.24", "min_intra_species_ani": "98.46", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002441695.1", "gtdb_species": "s__Lactococcus_A piscium", "ani": 78.646, "matched_fragments": 159, "total_fragments": 647, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "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": -0.302, "doubling_h": -0.114, "growth_tmp": 31.261, "optimum_tmp": 30.902, "optimum_ph": 5.9, "genome_size": 2225783.826, "gc_content": 37.699, "coding_genes": 2184.408, "rRNA16S_genes": 4.75, "tRNA_genes": 58.609, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.7, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.3, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.857, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.142, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Lactococcus", "insecticola" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }