{ "type": "genome", "identifier": "GCF_021654455.1", "organism": "Streptococcus parasuis", "title": "Streptococcus parasuis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kobe Institute of Health", "publication": [ {} ], "properties": { "assembly_accession": "GCF_021654455.1", "bioproject": "PRJNA224116", "biosample": "SAMD00265706", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1501662", "species_taxid": "1501662", "organism_name": "Streptococcus parasuis", "infraspecific_name": "strain=SUT-286", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/12/28", "asm_name": "ASM2165445v1", "asm_submitter": "Kobe Institute of Health", "gbrs_paired_asm": "GCA_021654455.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/021/654/455/GCF_021654455.1_ASM2165445v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2197342", "genome_size_ungapped": "2197342", "gc_percent": "40.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_021654455.1-RS_2024_03_13", "annotation_date": "2024-03-13", "total_gene_count": "2202", "protein_coding_gene_count": "2072", "non_coding_gene_count": "72", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-12-28", "dateModified": "2021-12-28", "datePublished": "2021-12-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus parasuis" ], "sample_taxid": [ "1501662" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "0.621 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)": "2197342", "Number of Sequences": "1", "Longest Sequences (bp)": "2197342", "N50 (bp)": "2197342", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.0", "Number of CDSs": "2138", "Average Protein Length": "298.0", "Coding Ratio (%)": "87.0", "Number of rRNAs": "12", "Number of tRNAs": "56", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus parasuis", "strain": "strain=SUT-286", "accession": "GCA_021654455.1", "taxid": 1501662, "species_taxid": 1501662, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 732, "total_fragments": 732, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptococcus suis", "strain": "strain=NCTC10234", "accession": "GCA_900475585.1", "taxid": 1307, "species_taxid": 1307, "relation_to_type": "type", "validated": true, "ani": 87.3459, "matched_fragments": 439, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus suis", "strain": "strain=S735", "accession": "GCA_000294495.1", "taxid": 1307, "species_taxid": 1307, "relation_to_type": "type", "validated": true, "ani": 87.237, "matched_fragments": 444, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus porci", "strain": "strain=DSM 23759", "accession": "GCA_000423765.1", "taxid": 502567, "species_taxid": 502567, "relation_to_type": "type", "validated": true, "ani": 82.5443, "matched_fragments": 143, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus plurextorum", "strain": "strain=DSM 22810", "accession": "GCA_000423745.1", "taxid": 456876, "species_taxid": 456876, "relation_to_type": "type", "validated": true, "ani": 82.0777, "matched_fragments": 149, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus toyakuensis", "strain": "strain=TP1632", "accession": "GCA_024346585.1", "taxid": 2819619, "species_taxid": 2819619, "relation_to_type": "type", "validated": true, "ani": 80.6563, "matched_fragments": 123, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus oriscaviae", "strain": "strain=HKU75", "accession": "GCA_018137985.1", "taxid": 2781599, "species_taxid": 2781599, "relation_to_type": "type", "validated": true, "ani": 80.513, "matched_fragments": 239, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus ruminantium", "strain": "strain=GUT187T", "accession": "GCA_003609975.1", "taxid": 1917441, "species_taxid": 1917441, "relation_to_type": "type", "validated": true, "ani": 80.0943, "matched_fragments": 300, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equinus", "strain": "strain=NCTC12969", "accession": "GCA_900459295.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 80.0699, "matched_fragments": 93, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus downii", "strain": "strain=CECT 9732", "accession": "GCA_004353325.1", "taxid": 1968889, "species_taxid": 1968889, "relation_to_type": "type", "validated": true, "ani": 79.3127, "matched_fragments": 141, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equinus", "strain": "strain=ATCC 9812", "accession": "GCA_000187265.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 79.1845, "matched_fragments": 83, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus respiraculi", "strain": "strain=HTS25", "accession": "GCA_003595525.1", "taxid": 2021971, "species_taxid": 2021971, "relation_to_type": "type", "validated": true, "ani": 78.7867, "matched_fragments": 160, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus cuniculi", "strain": "strain=CCUG 65085", "accession": "GCA_001921845.1", "taxid": 1432788, "species_taxid": 1432788, "relation_to_type": "type", "validated": true, "ani": 78.6263, "matched_fragments": 156, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus azizii", "strain": "strain=12-5202", "accession": "GCA_001984715.1", "taxid": 1579424, "species_taxid": 1579424, "relation_to_type": "type", "validated": true, "ani": 78.1873, "matched_fragments": 145, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000440555.1", "gtdb_species": "s__Streptococcus suis_N", "ani": 97.0469, "matched_fragments": 592, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.61", "min_intra_species_ani": "95.42", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.79", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_004283785.1", "gtdb_species": "s__Streptococcus parasuis", "ani": 94.803, "matched_fragments": 491, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.19", "min_intra_species_ani": "96.80", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.77", "num_clustered_genomes": 20, "status": "-" }, { "accession": "GCF_000294495.1", "gtdb_species": "s__Streptococcus suis", "ani": 87.1768, "matched_fragments": 446, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.2533, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "95.80", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.80", "num_clustered_genomes": 1267, "status": "-" }, { "accession": "GCF_902702775.1", "gtdb_species": "s__Streptococcus suis_W", "ani": 87.1018, "matched_fragments": 465, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.2533, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "95.78", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.77", "num_clustered_genomes": 106, "status": "-" }, { "accession": "GCF_016743335.1", "gtdb_species": "s__Streptococcus suis_Y", "ani": 86.4585, "matched_fragments": 426, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.53", "min_intra_species_ani": "95.45", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.78", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_002831545.1", "gtdb_species": "s__Streptococcus suis_P", "ani": 86.4103, "matched_fragments": 460, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.02", "min_intra_species_ani": "95.04", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.78", "num_clustered_genomes": 133, "status": "-" }, { "accession": "GCF_000440115.1", "gtdb_species": "s__Streptococcus suis_L", "ani": 86.3298, "matched_fragments": 416, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_002760245.1", "gtdb_species": "s__Streptococcus suis_I", "ani": 86.2741, "matched_fragments": 425, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_002964045.1", "gtdb_species": "s__Streptococcus suis_U", "ani": 84.9707, "matched_fragments": 393, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.50", "min_intra_species_ani": "95.50", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016775005.1", "gtdb_species": "s__Streptococcus suis_X", "ani": 84.4562, "matched_fragments": 334, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "97.65", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002964575.1", "gtdb_species": "s__Streptococcus suis_R", "ani": 84.3383, "matched_fragments": 405, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_002960625.1", "gtdb_species": "s__Streptococcus suis_T", "ani": 84.0987, "matched_fragments": 401, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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": -0.157, 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