{ "type": "genome", "identifier": "GCF_003864255.1", "organism": "Aestuariirhabdus litorea", "title": "Aestuariirhabdus litorea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chung Ang University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003864255.1", "bioproject": "PRJNA224116", "biosample": "SAMN09873689", "wgs_master": "QWEZ00000000.1", "refseq_category": "reference genome", "taxid": "2528527", "species_taxid": "2528527", "organism_name": "Aestuariirhabdus litorea", "infraspecific_name": "strain=GTF13", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/05", "asm_name": "ASM386425v1", "asm_submitter": "Chung Ang University", "gbrs_paired_asm": "GCA_003864255.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/864/255/GCF_003864255.1_ASM386425v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3663152", "genome_size_ungapped": "3663152", "gc_percent": "60.000000", "replicon_count": "0", "scaffold_count": "7", "contig_count": "7", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003864255.1-RS_2024_04_17", "annotation_date": "2024-04-17", "total_gene_count": "3422", "protein_coding_gene_count": "3349", "non_coding_gene_count": "64", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-05", "dateModified": "2018-12-05", "datePublished": "2018-12-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Aestuariirhabdus litorea" ], "sample_taxid": [ "2528527" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Gangjin area" ], "sample_host_location_id": [], "data_size": "1.034 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3663152", "Number of Sequences": "7", "Longest Sequences (bp)": "2189692", "N50 (bp)": "2189692", "Gap Ratio (%)": "0.000082", "GCcontent (%)": "59.8", "Number of CDSs": "3415", "Average Protein Length": "324.2", "Coding Ratio (%)": "90.7", "Number of rRNAs": "3", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aestuariirhabdus litorea", "strain": "strain=GTF13", "accession": "GCA_003864255.1", "taxid": 2528527, "species_taxid": 2528527, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1218, "total_fragments": 1218, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas benzenivorans", "strain": "strain=DSM 8628", "accession": "GCA_900100495.1", "taxid": 556533, "species_taxid": 556533, "relation_to_type": "type", "validated": true, "ani": 76.9692, "matched_fragments": 173, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parahaliea aestuarii", "strain": "strain=S2-26", "accession": "GCA_008064635.1", "taxid": 1852021, "species_taxid": 1852021, "relation_to_type": "type", "validated": true, "ani": 76.943, "matched_fragments": 115, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 76.9374, "matched_fragments": 189, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas 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"accession": "GCA_900104805.1", "taxid": 1392877, "species_taxid": 1392877, "relation_to_type": "type", "validated": true, "ani": 76.8211, "matched_fragments": 187, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=DSM 50238", "accession": "GCA_002891015.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "type", "validated": true, "ani": 76.7656, "matched_fragments": 120, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas nicosulfuronedens", "strain": "strain=LAM1902", "accession": "GCA_005877905.1", "taxid": 2571105, "species_taxid": 2571105, "relation_to_type": "type", "validated": true, "ani": 76.7595, "matched_fragments": 136, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sagittaria", "strain": "strain=JCM 18195", "accession": "GCA_900115715.1", "taxid": 1135990, "species_taxid": 1135990, "relation_to_type": "type", "validated": true, "ani": 76.7434, "matched_fragments": 179, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas nitroreducens", "strain": "strain=DSM 14399", "accession": "GCA_012986245.1", "taxid": 46680, "species_taxid": 46680, "relation_to_type": "suspected-type", "validated": true, "ani": 76.7393, "matched_fragments": 139, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=DSM 50238", "accession": "GCA_024448505.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "type", "validated": true, "ani": 76.7356, "matched_fragments": 118, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas shengliensis", "strain": "strain=CGMCC 1.6444", "accession": "GCA_900104135.1", "taxid": 419597, "species_taxid": 419597, 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"total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas delhiensis", "strain": "strain=CCM 7361", "accession": "GCA_900099945.1", "taxid": 366289, "species_taxid": 366289, "relation_to_type": "type", "validated": true, "ani": 76.6405, "matched_fragments": 192, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", "taxid": 2320867, "species_taxid": 2320867, "relation_to_type": "type", "validated": true, "ani": 76.6228, "matched_fragments": 142, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter xestospongiae", "strain": "strain=JCM 17469", "accession": "GCA_023156385.1", "taxid": 994319, "species_taxid": 994319, "relation_to_type": "type", "validated": true, "ani": 76.5362, "matched_fragments": 134, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas yangonensis", "strain": "strain=MY50", "accession": "GCA_009932725.1", "taxid": 2579922, "species_taxid": 2579922, "relation_to_type": "type", "validated": true, "ani": 76.5145, "matched_fragments": 163, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas proteolytica", "strain": "strain=DSM 15321", "accession": "GCA_007858275.1", "taxid": 219574, "species_taxid": 219574, "relation_to_type": "type", "validated": true, "ani": 76.4935, "matched_fragments": 88, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guguanensis", "strain": "strain=JCM 18416", "accession": "GCA_900104265.1", "taxid": 1198456, "species_taxid": 1198456, "relation_to_type": "type", "validated": true, "ani": 76.481, "matched_fragments": 173, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas proteolytica", "strain": "strain=CCUG 51515T", "accession": "GCA_008692865.1", "taxid": 219574, "species_taxid": 219574, "relation_to_type": "type", "validated": true, "ani": 76.3049, "matched_fragments": 90, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacter vinifirmus", "strain": "strain=FB1", "accession": "GCA_002258215.1", "taxid": 355591, "species_taxid": 355591, "relation_to_type": "type", "validated": true, "ani": 76.2491, "matched_fragments": 102, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003864255.1", "gtdb_species": "s__Aestuariirhabdus litorea", "ani": 100.0, "matched_fragments": 1218, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Aestuariirhabdaceae;g__Aestuariirhabdus", "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": "conclusive" }, { "accession": "GCF_018398425.1", "gtdb_species": "s__Pseudomonas_E lalucatii", "ani": 76.9599, "matched_fragments": 187, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.68", "min_intra_species_ani": "99.28", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900100495.1", "gtdb_species": "s__Pseudomonas_E benzenivorans", "ani": 76.9434, "matched_fragments": 173, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", 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"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_009763245.1", "gtdb_species": "s__Pseudomonas_E sp009763245", "ani": 76.7624, "matched_fragments": 160, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_005877905.1", "gtdb_species": "s__Pseudomonas nicosulfuronedens", "ani": 76.7595, "matched_fragments": 136, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas", 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95.0, "mean_intra_species_ani": "97.11", "min_intra_species_ani": "96.74", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.81", "num_clustered_genomes": 25, "status": "-" }, { "accession": "GCF_014219065.1", "gtdb_species": "s__Pseudomonas_D xiamenensis", "ani": 76.6803, "matched_fragments": 136, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_D", "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_017491605.1", "gtdb_species": "s__Pseudomonas sp017491605", "ani": 76.6489, "matched_fragments": 161, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas", "ani_circumscription_radius": 95.0, 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