{ "type": "genome", "identifier": "GCF_009192945.1", "organism": "Xanthomonas maliensis", "title": "Xanthomonas maliensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CSIR-Institute of Microbial Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009192945.1", "bioproject": "PRJNA224116", "biosample": "SAMN07569859", "wgs_master": "NSET00000000.1", "refseq_category": "reference genome", "taxid": "1321368", "species_taxid": "1321368", "organism_name": "Xanthomonas maliensis", "infraspecific_name": "strain=LMG 27592", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/10/21", "asm_name": "ASM919294v1", "asm_submitter": "CSIR-Institute of Microbial Technology", "gbrs_paired_asm": "GCA_009192945.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/192/945/GCF_009192945.1_ASM919294v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5196983", "genome_size_ungapped": "5196983", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "141", "contig_count": "141", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009192945.1-RS_2024_05_06", "annotation_date": "2024-05-06", "total_gene_count": "4429", "protein_coding_gene_count": "4241", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-10-21", "dateModified": "2019-10-21", "datePublished": "2019-10-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Xanthomonas maliensis" ], "sample_taxid": [ "1321368" ], "sample_host_organism": [ "Oryza sativa" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Mali: Africa" ], "sample_host_location_id": [], "data_size": "1.431 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)": "5196983", "Number of Sequences": "141", "Longest Sequences (bp)": "265116", "N50 (bp)": "77591", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.2", "Number of CDSs": "4243", "Average Protein Length": "346.3", "Coding Ratio (%)": "84.8", "Number of rRNAs": "3", "Number of tRNAs": "59", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Xanthomonas maliensis", "strain": "strain=LMG 27592", "accession": "GCA_009192945.1", "taxid": 1321368, "species_taxid": 1321368, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1664, 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"GCA_021474205.1", "taxid": 346, "species_taxid": 346, "relation_to_type": "pathovar", "validated": true, "ani": 83.709, "matched_fragments": 1178, "total_fragments": 1667, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas campestris", "strain": "strain=NCPPB 528", "accession": "GCA_020813135.1", "taxid": 339, "species_taxid": 339, "relation_to_type": "type", "validated": true, "ani": 83.6344, "matched_fragments": 1122, "total_fragments": 1667, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas nasturtii", "strain": "strain=WHRI 8853", "accession": "GCA_001660815.1", "taxid": 1843581, "species_taxid": 1843581, "relation_to_type": "type", "validated": true, "ani": 83.6281, "matched_fragments": 1094, "total_fragments": 1667, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas hortorum", "strain": "strain=CFBP2533", "accession": "GCA_012922215.1", "taxid": 56454, "species_taxid": 56454, "relation_to_type": "pathovar", "validated": true, "ani": 83.5565, "matched_fragments": 1122, "total_fragments": 1667, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas hortorum", "strain": "strain=CFBP 2533", "accession": "GCA_021353095.1", "taxid": 56454, "species_taxid": 56454, "relation_to_type": "pathovar", "validated": true, "ani": 83.4964, "matched_fragments": 1125, "total_fragments": 1667, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas indica", "strain": "strain=PPL560", "accession": "GCA_022669045.1", "taxid": 2912242, "species_taxid": 2912242, "relation_to_type": "type", "validated": true, "ani": 82.3082, "matched_fragments": 969, "total_fragments": 1667, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas sacchari", "strain": "strain=CFBP4641", "accession": "GCA_002940085.1", "taxid": 56458, "species_taxid": 56458, "relation_to_type": "suspected-type", "validated": true, 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"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_002940205.1", "gtdb_species": "s__Xanthomonas arboricola_C", "ani": 84.2025, "matched_fragments": 1132, "total_fragments": 1667, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002940015.1", "gtdb_species": "s__Xanthomonas melonis", "ani": 84.0616, "matched_fragments": 1122, "total_fragments": 1667, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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"96.72", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.89", "num_clustered_genomes": 246, "status": "-" }, { "accession": "GCF_003999565.1", "gtdb_species": "s__Xanthomonas phaseoli", "ani": 83.9275, "matched_fragments": 1172, "total_fragments": 1667, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.19", "min_intra_species_ani": "96.38", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 158, "status": "-" }, { "accession": "GCF_001642575.1", "gtdb_species": "s__Xanthomonas floridensis", "ani": 83.8614, "matched_fragments": 1190, "total_fragments": 1667, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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