{ "type": "genome", "identifier": "GCF_008973755.1", "organism": "Nitrincola alkalilacustris", "title": "Nitrincola alkalilacustris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Oceanology, Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008973755.1", "bioproject": "PRJNA224116", "biosample": "SAMN12859421", "wgs_master": "WBOM00000000.1", "refseq_category": "reference genome", "taxid": "1571224", "species_taxid": "1571224", "organism_name": "Nitrincola alkalilacustris", "infraspecific_name": "strain=NCAIM B.02612", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/10/11", "asm_name": "ASM897375v1", "asm_submitter": "Institute of Oceanology, Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_008973755.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/973/755/GCF_008973755.1_ASM897375v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4063987", "genome_size_ungapped": "4063987", "gc_percent": "53.500000", "replicon_count": "0", "scaffold_count": "25", "contig_count": "25", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008973755.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3721", "protein_coding_gene_count": "3638", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-10-11", "dateModified": "2019-10-11", "datePublished": "2019-10-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Nitrincola alkalilacustris" ], "sample_taxid": [ "1571224" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Hungary: Kiskunsag National Park" ], "sample_host_location_id": [], "data_size": "1.153 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)": "4063987", "Number of Sequences": "25", "Longest Sequences (bp)": "620662", "N50 (bp)": "492090", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "53.5", "Number of CDSs": "3656", "Average Protein Length": "335.7", "Coding Ratio (%)": "90.6", "Number of rRNAs": "4", "Number of tRNAs": "58", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nitrincola alkalilacustris", "strain": "strain=NCAIM B.02612", "accession": "GCA_008973755.1", "taxid": 1571224, "species_taxid": 1571224, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1342, "total_fragments": 1342, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nitrincola schmidtii", "strain": "strain=NCAIM B.02626", "accession": "GCA_008973715.1", "taxid": 1730894, "species_taxid": 1730894, "relation_to_type": "type", "validated": true, "ani": 77.9794, "matched_fragments": 112, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrincola lacisaponensis", "strain": "strain=4CA", "accession": "GCA_000691225.1", "taxid": 267850, "species_taxid": 267850, "relation_to_type": "type", "validated": true, "ani": 77.7423, "matched_fragments": 204, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrincola iocasae", "strain": "strain=KXZD1103", "accession": "GCA_008727795.1", "taxid": 2614693, "species_taxid": 2614693, "relation_to_type": "type", "validated": true, "ani": 77.6642, "matched_fragments": 198, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium alkalitolerans", "strain": "strain=AK62", "accession": "GCA_017776525.1", "taxid": 1542925, "species_taxid": 1542925, "relation_to_type": "type", "validated": true, "ani": 77.6616, "matched_fragments": 179, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium georgiense", "strain": "strain=DSM 11526", "accession": "GCA_900107855.1", "taxid": 48076, "species_taxid": 48076, "relation_to_type": "type", "validated": true, "ani": 77.6283, "matched_fragments": 170, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium halophilum", "strain": "strain=DSM 17586", "accession": "GCA_003014615.1", "taxid": 267374, "species_taxid": 267374, "relation_to_type": "type", "validated": true, "ani": 77.5413, "matched_fragments": 187, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium stanieri", "strain": "strain=DSM 7027", "accession": "GCA_900155945.1", "taxid": 49186, "species_taxid": 49186, "relation_to_type": "type", "validated": true, "ani": 77.4832, "matched_fragments": 179, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium ramblicola", "strain": "strain=D7", "accession": "GCA_019084545.1", "taxid": 2849041, "species_taxid": 2849041, "relation_to_type": "type", "validated": true, "ani": 77.4829, "matched_fragments": 203, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium zhoushanense", "strain": "strain=CGMCC 1.15341", "accession": "GCA_014641945.1", "taxid": 1679163, "species_taxid": 1679163, "relation_to_type": "type", "validated": true, "ani": 77.4594, "matched_fragments": 197, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium litorale", "strain": "strain=DSM 23545", "accession": "GCA_000428985.1", "taxid": 404770, "species_taxid": 404770, "relation_to_type": "type", "validated": true, "ani": 77.4191, "matched_fragments": 135, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium lutimaris", "strain": "strain=DSM 22012", "accession": "GCA_900108065.1", "taxid": 568106, "species_taxid": 568106, "relation_to_type": "type", "validated": true, "ani": 77.4162, "matched_fragments": 170, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium mangrovicola", "strain": "strain=DSM 27697", "accession": "GCA_004339595.1", "taxid": 1476959, "species_taxid": 1476959, "relation_to_type": "type", "validated": true, "ani": 77.3598, "matched_fragments": 159, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neptuniibacter caesariensis", "strain": "strain=MED92", "accession": "GCA_000153345.1", "taxid": 207954, "species_taxid": 207954, "relation_to_type": "type", "validated": true, "ani": 76.9353, "matched_fragments": 57, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium jannaschii", "strain": "strain=DSM 6295", "accession": "GCA_000620085.1", "taxid": 64970, "species_taxid": 64970, "relation_to_type": "type", "validated": true, "ani": 76.8871, "matched_fragments": 135, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter guineae", "strain": "strain=M3B", "accession": "GCA_002744735.1", "taxid": 432303, "species_taxid": 432303, "relation_to_type": "type", "validated": true, "ani": 76.5363, "matched_fragments": 61, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter lipolyticus", "strain": "strain=SM19", "accession": "GCA_000397065.2", "taxid": 209639, "species_taxid": 209639, "relation_to_type": "type", "validated": true, "ani": 76.4752, "matched_fragments": 66, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter bohaiensis", "strain": "strain=T17", "accession": "GCA_003258515.1", "taxid": 2201898, "species_taxid": 2201898, "relation_to_type": "type", "validated": true, "ani": 76.3438, "matched_fragments": 68, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas urethralis", "strain": "strain=BML-PP042", "accession": "GCA_013373915.1", "taxid": 2740517, "species_taxid": 2740517, "relation_to_type": "suspected-type", "validated": true, "ani": 76.1821, "matched_fragments": 66, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas urethralis", "strain": "strain=BML-PP042", "accession": "GCA_021602465.1", "taxid": 2740517, "species_taxid": 2740517, "relation_to_type": "suspected-type", "validated": true, "ani": 76.16, "matched_fragments": 68, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas putida", "strain": "strain=ATCC 12633", "accession": "GCA_024508115.1", "taxid": 303, "species_taxid": 303, "relation_to_type": "suspected-type", "validated": true, "ani": 76.015, "matched_fragments": 59, "total_fragments": 1342, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_008973755.1", "gtdb_species": "s__Nitrincola alkalilacustris", "ani": 100.0, "matched_fragments": 1342, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Nitrincola", "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_000764495.1", "gtdb_species": "s__Nitrincola sp000764495", "ani": 78.202, "matched_fragments": 168, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Nitrincola", "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_008368715.1", "gtdb_species": "s__Nitrincola tapanii", "ani": 78.0255, "matched_fragments": 128, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Nitrincola", "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_000691225.1", "gtdb_species": "s__Nitrincola lacisaponensis", "ani": 77.7578, "matched_fragments": 203, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Nitrincola", "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_008727795.1", "gtdb_species": "s__Nitrincola sp008727795", "ani": 77.6643, "matched_fragments": 198, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Nitrincola", "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_019061305.1", "gtdb_species": "s__Marinobacterium sp019061305", "ani": 77.6542, "matched_fragments": 166, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_017776525.1", "gtdb_species": "s__Marinobacterium alkalitolerans", "ani": 77.6442, "matched_fragments": 180, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_003014615.1", "gtdb_species": "s__Marinobacterium halophilum", "ani": 77.5362, "matched_fragments": 185, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900155945.1", "gtdb_species": "s__Marinobacterium stanieri", "ani": 77.4832, "matched_fragments": 179, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.47", "min_intra_species_ani": "96.47", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_019084545.1", "gtdb_species": "s__Marinobacterium sp019084545", "ani": 77.4568, "matched_fragments": 203, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_014641945.1", "gtdb_species": "s__Marinobacterium zhoushanense", "ani": 77.4359, "matched_fragments": 197, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_000428985.1", "gtdb_species": "s__Marinobacterium litorale", "ani": 77.4302, "matched_fragments": 133, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.80", "min_intra_species_ani": "97.80", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900108065.1", "gtdb_species": "s__Marinobacterium lutimaris", "ani": 77.4069, "matched_fragments": 169, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_004339595.1", "gtdb_species": "s__Marinobacterium mangrovicola", "ani": 77.3598, "matched_fragments": 159, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_000705555.1", "gtdb_species": "s__Marinobacterium sp000705555", "ani": 77.2747, "matched_fragments": 176, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.11", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003250495.1", "gtdb_species": "s__Marinobacterium sp003250495", "ani": 77.1524, "matched_fragments": 137, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Marinobacterium", "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_015209595.1", "gtdb_species": "s__Pontibacterium sp015209595", "ani": 77.1263, "matched_fragments": 94, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Nitrincolaceae;g__Pontibacterium", "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_002744735.1", "gtdb_species": "s__Marinobacter guineae", "ani": 76.5363, "matched_fragments": 61, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "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_000686085.1", "gtdb_species": "s__Marinobacter sp000686085", "ani": 76.348, "matched_fragments": 70, "total_fragments": 1342, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Oleiphilaceae;g__Marinobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.302, "cell_length": 0.146, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 9.0, "genome_size": 3412133.0, "gc_content": 52.069, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Nitrincola", "alkalilacustris" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }