{ "type": "genome", "identifier": "GCA_013001825.1", "organism": "Xanthomonadales bacterium", "title": "Xanthomonadales bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Monash University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013001825.1", "bioproject": "PRJNA609151", "biosample": "SAMN14260529", "wgs_master": "JABDLE000000000.1", "refseq_category": "na", "taxid": "2006849", "species_taxid": "2006849", "organism_name": "Xanthomonadales bacterium", "infraspecific_name": "", "isolate": "SS_bin_67", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/05/09", "asm_name": "ASM1300182v1", "submitter": "Monash University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/001/825/GCA_013001825.1_ASM1300182v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-05-09", "dateModified": "2020-05-09", "datePublished": "2020-05-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Xanthomonadales bacterium" ], "sample_taxid": [ "2006849" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Australia: Middle Park Beach, Port Phillip Bay" ], "sample_host_location_id": [], "data_size": "0.665 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 20.08, "strain_heterogeneity": 18.18, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2372863", "Number of Sequences": "295", "Longest Sequences (bp)": "39798", "N50 (bp)": "10555", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.9", "Number of CDSs": "1933", "Average Protein Length": "318.9", "Coding Ratio (%)": "77.9", "Number of rRNAs": "0", "Number of tRNAs": "28", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Wenzhouxiangella sediminis", "strain": "strain=XDB06", "accession": "GCA_003410055.1", "taxid": 1792836, "species_taxid": 1792836, "relation_to_type": "type", "validated": true, "ani": 77.0641, "matched_fragments": 84, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio sulfidiphilus", "strain": "strain=HL-EbGR7", "accession": "GCA_000021985.1", "taxid": 1033854, "species_taxid": 1033854, "relation_to_type": "type", "validated": true, "ani": 76.9241, "matched_fragments": 75, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella telluris", "strain": "strain=G9", "accession": "GCA_014297575.1", "taxid": 2763498, "species_taxid": 2763498, "relation_to_type": "type", "validated": true, "ani": 76.6749, "matched_fragments": 67, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Frateuria terrea", "strain": "strain=CGMCC 1.7053", "accession": "GCA_900115705.1", "taxid": 529704, "species_taxid": 529704, "relation_to_type": "type", "validated": true, "ani": 76.593, "matched_fragments": 81, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas helianthi", "strain": "strain=110414", "accession": "GCA_017939625.1", "taxid": 1453541, "species_taxid": 1453541, "relation_to_type": "type", "validated": true, "ani": 76.5907, "matched_fragments": 96, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas viscosa", "strain": "strain=XBU10", "accession": "GCA_008244685.1", "taxid": 1132694, "species_taxid": 1132694, "relation_to_type": "type", "validated": true, "ani": 76.5506, "matched_fragments": 100, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Frateuria terrea", "strain": "strain=DSM 26515", "accession": "GCA_900109025.1", "taxid": 529704, "species_taxid": 529704, "relation_to_type": "type", "validated": true, "ani": 76.5402, "matched_fragments": 81, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=LMG 19981", "accession": "GCA_006352285.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 76.528, "matched_fragments": 118, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tahibacter caeni", "strain": "strain=BUT-6", "accession": "GCA_024609805.1", "taxid": 1453545, "species_taxid": 1453545, "relation_to_type": "type", "validated": true, "ani": 76.4751, "matched_fragments": 98, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas citri", "strain": "strain=ICMP5732", "accession": "GCA_021474205.1", "taxid": 346, "species_taxid": 346, "relation_to_type": "pathovar", "validated": true, "ani": 76.4219, "matched_fragments": 71, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas citri", "strain": "strain=CFBP 2526", "accession": "GCA_000495275.1", "taxid": 346, "species_taxid": 346, "relation_to_type": "pathovar", "validated": true, "ani": 76.4077, "matched_fragments": 70, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rudaea cellulosilytica", "strain": "strain=DSM 22992", "accession": "GCA_000378125.1", "taxid": 540746, "species_taxid": 540746, "relation_to_type": "type", "validated": true, "ani": 76.3757, "matched_fragments": 64, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas phaseoli", "strain": "strain=CFBP2534", "accession": "GCA_017745345.1", "taxid": 1985254, "species_taxid": 1985254, "relation_to_type": "pathovar", "validated": true, "ani": 76.3418, "matched_fragments": 68, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteibacter pinisoli", "strain": "strain=MAH-14", "accession": "GCA_006385595.1", "taxid": 2589080, "species_taxid": 2589080, "relation_to_type": "type", "validated": true, "ani": 76.3075, "matched_fragments": 72, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio versutus", "strain": "strain=AL 2", "accession": "GCA_001999325.1", "taxid": 106634, "species_taxid": 106634, "relation_to_type": "type", "validated": true, "ani": 76.3025, "matched_fragments": 52, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquisalimonas asiatica", "strain": "strain=CGMCC 1.6291", "accession": "GCA_900110585.1", "taxid": 406100, "species_taxid": 406100, "relation_to_type": "type", "validated": true, "ani": 76.3018, "matched_fragments": 52, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas phaseoli", "strain": "strain=NCPPB 3035", "accession": "GCA_000774035.2", "taxid": 1985254, "species_taxid": 1985254, "relation_to_type": "pathovar", "validated": true, "ani": 76.29, "matched_fragments": 70, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Plasticicumulans lactativorans", "strain": "strain=DSM 25287", "accession": "GCA_004341245.1", "taxid": 1133106, "species_taxid": 1133106, "relation_to_type": "type", "validated": true, "ani": 76.2767, "matched_fragments": 85, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella solisilvae", "strain": "strain=DHG54", "accession": "GCA_003351225.1", "taxid": 1920168, "species_taxid": 1920168, "relation_to_type": "type", "validated": true, "ani": 76.2589, "matched_fragments": 78, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodanobacter thiooxydans", "strain": "strain=LCS2", "accession": "GCA_000264375.1", "taxid": 416169, "species_taxid": 416169, "relation_to_type": "type", "validated": true, "ani": 76.238, "matched_fragments": 89, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodanobacter denitrificans", "strain": "strain=2APBS1", "accession": "GCA_000230695.3", "taxid": 666685, "species_taxid": 666685, "relation_to_type": "type", "validated": true, "ani": 76.2296, "matched_fragments": 92, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella japonica", "strain": "strain=DSM 16301", "accession": "GCA_001010355.1", "taxid": 231455, "species_taxid": 231455, "relation_to_type": "type", "validated": true, "ani": 76.1955, "matched_fragments": 66, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella amyloliquefaciens", "strain": "strain=DHC06", "accession": "GCA_004296575.1", "taxid": 1770545, "species_taxid": 1770545, "relation_to_type": "type", "validated": true, "ani": 76.1702, "matched_fragments": 80, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteibacter jiangsuensis", "strain": "strain=CGMCC 1.10133", "accession": "GCA_011742555.1", "taxid": 637577, "species_taxid": 637577, "relation_to_type": "type", "validated": true, "ani": 76.0091, "matched_fragments": 76, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas tianxiuensis", "strain": "strain=BC-M4-5", "accession": "GCA_009834345.1", "taxid": 2497861, "species_taxid": 2497861, "relation_to_type": "type", "validated": true, "ani": 75.837, "matched_fragments": 57, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arhodomonas aquaeolei", "strain": "strain=DSM 8974", "accession": "GCA_000374645.1", "taxid": 2369, "species_taxid": 2369, "relation_to_type": "type", "validated": true, "ani": 75.8255, "matched_fragments": 60, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas caseinilytica", "strain": "strain=G-1-1-14", "accession": "GCA_012927045.1", "taxid": 2728836, "species_taxid": 2728836, "relation_to_type": "type", "validated": true, "ani": 75.5543, "matched_fragments": 79, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas tumuqii", "strain": "strain=LAMW06", "accession": "GCA_013184545.1", "taxid": 2715755, "species_taxid": 2715755, "relation_to_type": "type", "validated": true, "ani": 75.3877, "matched_fragments": 54, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas entomophila", "strain": "strain=L48", "accession": "GCA_000026105.1", "taxid": 312306, "species_taxid": 312306, "relation_to_type": "suspected-type", "validated": true, "ani": 75.379, "matched_fragments": 64, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas australica", "strain": "strain=DSM 1124", "accession": "GCA_000430725.1", "taxid": 364039, "species_taxid": 364039, "relation_to_type": "type", "validated": true, "ani": 75.354, "matched_fragments": 84, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bordetella hinzii", "strain": "strain=NCTC13199", "accession": "GCA_900637615.1", "taxid": 103855, "species_taxid": 103855, "relation_to_type": "type", "validated": true, "ani": 75.3417, "matched_fragments": 50, "total_fragments": 638, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 20.08, "strain_heterogeneity": 18.18 }, "gtdb_result": [ { "accession": "GCA_013002505.1", "gtdb_species": "s__JABDJL01 sp013002505", "ani": 78.2138, "matched_fragments": 185, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__SZUA-36;g__JABDJL01", "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_008725655.1", "gtdb_species": "s__W260 sp008725655", "ani": 77.9662, "matched_fragments": 192, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__SZUA-36;g__W260", "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_000377405.1", "gtdb_species": "s__Thioalkalivibrio sp000377405", "ani": 77.5573, "matched_fragments": 51, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Thioalkalivibrionaceae;g__Thioalkalivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "97.79", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_011773845.1", "gtdb_species": "s__WVWV01 sp011773845", "ani": 77.4537, "matched_fragments": 190, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__SZUA-36;g__WVWV01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", 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"status": "-" }, { "accession": "GCF_000381945.1", "gtdb_species": "s__Thioalkalivibrio sp000381945", "ani": 76.6036, "matched_fragments": 58, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Thioalkalivibrionaceae;g__Thioalkalivibrio", "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": "GCA_009937385.1", "gtdb_species": "s__QNFN01 sp009937385", "ani": 76.6021, "matched_fragments": 57, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__QNFN01;f__QNFN01;g__QNFN01", "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_011058255.1", "gtdb_species": "s__XN24 sp011058255", "ani": 76.557, "matched_fragments": 91, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__XN24;f__XN24;g__XN24", "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_011008905.1", "gtdb_species": "s__Wenzhouxiangella sp011008905", "ani": 76.5192, "matched_fragments": 79, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Wenzhouxiangellaceae;g__Wenzhouxiangella", "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_008801575.1", "gtdb_species": "s__Xanthomonas cissicola", "ani": 76.463, "matched_fragments": 66, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.71", "min_intra_species_ani": "95.83", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 247, "status": "-" }, { "accession": "GCF_003335105.1", "gtdb_species": "s__Rhodanobacter denitrificans_A", "ani": 76.3937, "matched_fragments": 98, "total_fragments": 638, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Rhodanobacter", "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_000378125.1", "gtdb_species": "s__Rudaea cellulosilytica", "ani": 76.3757, 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