{ "type": "genome", "identifier": "GCF_001832905.1", "organism": "Floricoccus tropicus", "title": "Floricoccus tropicus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "School of Industrial Technology, Universiti Sains Malaysia", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001832905.1", "bioproject": "PRJNA224116", "biosample": "SAMN05831614", "wgs_master": "MKIR00000000.1", "refseq_category": "reference genome", "taxid": "1859473", "species_taxid": "1859473", "organism_name": "Floricoccus tropicus", "infraspecific_name": "strain=DF1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/13", "asm_name": "ASM183290v1", "asm_submitter": "School of Industrial Technology, Universiti Sains Malaysia", "gbrs_paired_asm": "GCA_001832905.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/832/905/GCF_001832905.1_ASM183290v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2157756", "genome_size_ungapped": "2157756", "gc_percent": "33.000000", "replicon_count": "0", "scaffold_count": "26", "contig_count": "26", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001832905.1-RS_2024_06_16", "annotation_date": "2024-06-16", "total_gene_count": "2246", "protein_coding_gene_count": "2166", "non_coding_gene_count": "64", "pubmed_id": "29034853" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-13", "dateModified": "2016-10-13", "datePublished": "2016-10-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Floricoccus tropicus" ], "sample_taxid": [ "1859473" ], "sample_host_organism": [ "Durio zibethinus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Malaysia: Penang" ], "sample_host_location_id": [], "data_size": "0.601 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)": "2157756", "Number of Sequences": "26", "Longest Sequences (bp)": "393964", "N50 (bp)": "241922", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "33.0", "Number of CDSs": "2182", "Average Protein Length": "292.0", "Coding Ratio (%)": "88.6", "Number of rRNAs": "5", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Floricoccus tropicus", "strain": "strain=DF1", "accession": "GCA_001832905.1", "taxid": 1859473, "species_taxid": 1859473, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 709, "total_fragments": 709, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Floricoccus penangensis", "strain": "strain=HibF3", "accession": "GCA_001832885.1", "taxid": 1859475, "species_taxid": 1859475, "relation_to_type": "type", "validated": true, "ani": 93.5804, "matched_fragments": 586, "total_fragments": 709, "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": 77.4871, "matched_fragments": 71, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=FDAARGOS_1018", "accession": "GCA_016403165.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 77.4291, "matched_fragments": 60, "total_fragments": 709, "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": 77.3372, "matched_fragments": 74, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus subsp. gallolyticus", "strain": "strain=DSM 16831", "accession": "GCA_002000985.1", "taxid": 53354, "species_taxid": 315405, "relation_to_type": "type", "validated": true, "ani": 77.2472, "matched_fragments": 65, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus bovimastitidis", "strain": "strain=NZ1587", "accession": "GCA_001885095.1", "taxid": 1856638, "species_taxid": 1856638, "relation_to_type": "type", "validated": true, "ani": 77.2434, "matched_fragments": 60, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus vicugnae", "strain": "strain=SL1232", "accession": "GCA_016461705.1", "taxid": 2740579, "species_taxid": 2740579, "relation_to_type": "type", "validated": true, "ani": 77.2009, "matched_fragments": 69, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus lactis subsp. hordniae", "strain": "strain=DSM 20450", "accession": "GCA_002441785.1", "taxid": 203404, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 76.9173, "matched_fragments": 58, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus lactis subsp. hordniae", "strain": "strain=NBRC 100931", "accession": "GCA_001591725.1", "taxid": 203404, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 76.9021, "matched_fragments": 58, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus lactis subsp. hordniae", "strain": "strain=CCUG 32210T", "accession": "GCA_008692945.1", "taxid": 203404, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 76.8984, "matched_fragments": 61, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus protaetiae", "strain": "strain=KACC 19320", "accession": "GCA_006965445.1", "taxid": 2592653, "species_taxid": 2592653, "relation_to_type": "type", "validated": true, "ani": 76.7994, "matched_fragments": 52, "total_fragments": 709, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001832905.1", "gtdb_species": "s__Floricoccus tropicus", "ani": 100.0, "matched_fragments": 709, "total_fragments": 709, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Floricoccus", "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_001832885.1", "gtdb_species": "s__Floricoccus penangensis", "ani": 93.5804, "matched_fragments": 586, "total_fragments": 709, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Floricoccus", "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_900475675.1", "gtdb_species": "s__Streptococcus lutetiensis", "ani": 77.6684, "matched_fragments": 60, "total_fragments": 709, "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": "95.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 50, "status": "-" }, { "accession": "GCF_000187265.1", "gtdb_species": "s__Streptococcus equinus", "ani": 77.4871, "matched_fragments": 71, "total_fragments": 709, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.03", "min_intra_species_ani": "95.86", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 42, "status": "-" }, { "accession": "GCF_900101445.1", "gtdb_species": "s__Streptococcus equinus_B", "ani": 77.3949, "matched_fragments": 68, "total_fragments": 709, "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": "95.22", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001885095.1", "gtdb_species": "s__Streptococcus bovimastitidis", "ani": 77.2434, "matched_fragments": 60, "total_fragments": 709, "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_016461705.1", "gtdb_species": "s__Streptococcus vicugnae", "ani": 77.1991, "matched_fragments": 69, "total_fragments": 709, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.43", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "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": [ "Floricoccus", "tropicus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }