{ "type": "genome", "identifier": "GCF_003350345.1", "organism": "Alkalilacustris brevis", "title": "Alkalilacustris brevis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "zhejiang university", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003350345.1", "bioproject": "PRJNA224116", "biosample": "SAMN09499834", "wgs_master": "QNVJ00000000.1", "refseq_category": "reference genome", "taxid": "2026338", "species_taxid": "2026338", "organism_name": "Alkalilacustris brevis", "infraspecific_name": "strain=34079", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/31", "asm_name": "ASM335034v1", "asm_submitter": "zhejiang university", "gbrs_paired_asm": "GCA_003350345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/350/345/GCF_003350345.1_ASM335034v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3480246", "genome_size_ungapped": "3480246", "gc_percent": "65.500000", "replicon_count": "0", "scaffold_count": "103", "contig_count": "103", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003350345.1-RS_2024_03_27", "annotation_date": "2024-03-27", "total_gene_count": "3263", "protein_coding_gene_count": "3163", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-31", "dateModified": "2018-07-31", "datePublished": "2018-07-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Alkalilacustris brevis" ], "sample_taxid": [ "2026338" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Jilin" ], "sample_host_location_id": [], "data_size": "0.963 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)": "3480246", "Number of Sequences": "103", "Longest Sequences (bp)": "368150", "N50 (bp)": "58978", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.6", "Number of CDSs": "3157", "Average Protein Length": "319.7", "Coding Ratio (%)": "87.0", "Number of rRNAs": "3", "Number of tRNAs": "44", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alkalilacustris brevis", "strain": "strain=34079", "accession": "GCA_003350345.1", "taxid": 2026338, "species_taxid": 2026338, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1106, "total_fragments": 1107, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rhodovulum strictum", "strain": "strain=DSM 11289", "accession": "GCA_009649175.1", "taxid": 58314, "species_taxid": 58314, "relation_to_type": "type", "validated": true, "ani": 79.0312, "matched_fragments": 430, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhabdonatronobacter sediminivivens", "strain": "strain=IM2376", "accession": "GCA_013415485.1", "taxid": 2743469, "species_taxid": 2743469, "relation_to_type": "type", "validated": true, "ani": 78.8857, "matched_fragments": 420, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum robiginosum", "strain": "strain=DSM 12329", "accession": "GCA_003944755.1", "taxid": 68292, "species_taxid": 68292, "relation_to_type": "type", "validated": true, "ani": 78.8495, "matched_fragments": 417, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum steppense", "strain": "strain=DSM 21153", "accession": "GCA_004339675.1", "taxid": 540251, "species_taxid": 540251, "relation_to_type": "type", "validated": true, "ani": 78.8109, "matched_fragments": 436, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum tesquicola", "strain": "strain=A-36s", "accession": "GCA_024128855.1", "taxid": 540254, "species_taxid": 540254, "relation_to_type": "type", "validated": true, "ani": 78.7564, "matched_fragments": 414, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allgaiera indica", "strain": "strain=CGMCC 1.10859", "accession": "GCA_014653075.1", "taxid": 765699, "species_taxid": 765699, "relation_to_type": "type", "validated": true, "ani": 78.5461, "matched_fragments": 398, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum sulfidophilum", "strain": "strain=DSM 1374", "accession": "GCA_001633165.1", "taxid": 35806, "species_taxid": 35806, "relation_to_type": "type", "validated": true, "ani": 78.5205, "matched_fragments": 397, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Antarcticimicrobium luteum", "strain": "strain=318-1", "accession": "GCA_004358185.1", "taxid": 2547397, "species_taxid": 2547397, "relation_to_type": "type", "validated": true, "ani": 78.5136, "matched_fragments": 384, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum sulfidophilum", "strain": "strain=DSM 1374", "accession": "GCA_000520135.2", "taxid": 35806, "species_taxid": 35806, "relation_to_type": "type", "validated": true, "ani": 78.503, "matched_fragments": 398, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevirhabdus pacifica", "strain": "strain=22DY15", "accession": "GCA_002094875.1", "taxid": 1267768, "species_taxid": 1267768, "relation_to_type": "type", "validated": true, "ani": 78.4335, "matched_fragments": 292, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevirhabdus pacifica", "strain": "strain=DSM 27767", "accession": "GCA_002797755.1", "taxid": 1267768, "species_taxid": 1267768, "relation_to_type": "type", "validated": true, "ani": 78.393, "matched_fragments": 315, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus pantotrophus", "strain": "strain=DSM 2944", "accession": "GCA_008824185.1", "taxid": 82367, "species_taxid": 82367, "relation_to_type": "type", "validated": true, "ani": 78.3391, "matched_fragments": 361, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus pantotrophus", "strain": "strain=DSM 2944", "accession": "GCA_003633525.1", "taxid": 82367, "species_taxid": 82367, "relation_to_type": "type", "validated": true, "ani": 78.2888, "matched_fragments": 372, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus versutus", "strain": "strain=DSM 582", "accession": "GCA_000763885.1", "taxid": 34007, "species_taxid": 34007, "relation_to_type": "type", "validated": true, "ani": 78.2784, "matched_fragments": 371, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseibacterium elongatum", "strain": "strain=DFL-43", "accession": "GCA_000590925.1", "taxid": 159346, "species_taxid": 159346, "relation_to_type": "type", "validated": true, "ani": 78.2433, "matched_fragments": 338, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter sediminicola", "strain": "strain=JA983", "accession": "GCA_007668225.1", "taxid": 2584941, "species_taxid": 2584941, "relation_to_type": "type", "validated": true, "ani": 78.1739, "matched_fragments": 363, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius litoreus", "strain": "strain=DSM 28249", "accession": "GCA_900142765.1", "taxid": 1155722, "species_taxid": 1155722, "relation_to_type": "type", "validated": true, "ani": 78.1014, "matched_fragments": 342, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter amnigenus", "strain": "strain=HSP-20", "accession": "GCA_019130055.1", "taxid": 2852097, "species_taxid": 2852097, "relation_to_type": "type", "validated": true, "ani": 77.9707, "matched_fragments": 355, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter amnigenus", "strain": "strain=HSP-20", "accession": "GCA_009908265.2", "taxid": 2852097, "species_taxid": 2852097, "relation_to_type": "type", "validated": true, "ani": 77.9702, "matched_fragments": 355, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tabrizicola algicola", "strain": "strain=ETT8", "accession": "GCA_010915705.1", "taxid": 2709381, "species_taxid": 2709381, "relation_to_type": "type", "validated": true, "ani": 77.8616, "matched_fragments": 330, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseicitreum antarcticum", "strain": "strain=ZS2-28", "accession": "GCA_014681765.1", "taxid": 564137, "species_taxid": 564137, "relation_to_type": "type", "validated": true, "ani": 77.7479, "matched_fragments": 356, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseicitreum antarcticum", "strain": "strain=CGMCC 1.8894", "accession": "GCA_900107025.1", "taxid": 564137, "species_taxid": 564137, "relation_to_type": "type", "validated": true, "ani": 77.7063, "matched_fragments": 344, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silicimonas algicola", "strain": "strain=DSM 103371", "accession": "GCA_003148765.1", "taxid": 1826607, "species_taxid": 1826607, "relation_to_type": "type", "validated": true, "ani": 77.4493, "matched_fragments": 248, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silicimonas algicola", "strain": "strain=KC90", "accession": "GCA_003970735.1", "taxid": 1826607, "species_taxid": 1826607, "relation_to_type": "type", "validated": true, "ani": 77.4228, "matched_fragments": 254, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003350345.1", "gtdb_species": "s__Rhodobaculum breve", "ani": 100.0, "matched_fragments": 1106, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "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": "GCA_003558415.1", "gtdb_species": "s__Rhodobaculum sp003558415", "ani": 80.1513, "matched_fragments": 312, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "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_002967695.1", "gtdb_species": "s__Rhodobaculum sp002967695", "ani": 79.2945, "matched_fragments": 455, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "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_016653255.1", "gtdb_species": "s__Rhodobaculum claviforme", "ani": 79.1488, "matched_fragments": 384, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "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_007129775.1", "gtdb_species": "s__Rhodobaculum sp007129775", "ani": 78.9535, "matched_fragments": 338, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "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_004339675.1", "gtdb_species": "s__Rhodovulum steppense", "ani": 78.8307, "matched_fragments": 434, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodovulum", "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_003564655.1", "gtdb_species": "s__Roseinatronobacter sp003564655", "ani": 78.7086, "matched_fragments": 321, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseinatronobacter", "ani_circumscription_radius": 95.0, 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"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_014196965.1", "gtdb_species": "s__Actibacterium_A naphthalenivorans", "ani": 78.5936, "matched_fragments": 368, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Actibacterium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "97.38", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900106675.1", "gtdb_species": "s__Acidimangrovimonas indica", "ani": 78.5697, "matched_fragments": 400, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Acidimangrovimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_007131685.1", "gtdb_species": "s__Rhodobaculum sp007131685", "ani": 78.5441, "matched_fragments": 331, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.44", "min_intra_species_ani": "99.41", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_014359745.1", "gtdb_species": "s__JACIYW01 sp014359745", "ani": 78.5035, "matched_fragments": 323, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__JACIYW01", "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_007128865.1", "gtdb_species": "s__Rhodobaculum sp007128865", "ani": 78.4228, "matched_fragments": 260, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobaculum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.54", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.66", "min_intra_species_af": "0.66", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002797755.1", "gtdb_species": "s__Brevirhabdus pacifica", "ani": 78.3802, "matched_fragments": 316, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Brevirhabdus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", 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