{ "type": "genome", "identifier": "GCF_023555005.1", "organism": "Halomonas llamarensis", "title": "Halomonas llamarensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Helmholtz Zentrum Dresden-Rossendorf", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023555005.1", "bioproject": "PRJNA224116", "biosample": "SAMN28522377", "wgs_master": "JAMJPJ000000000.1", "refseq_category": "reference genome", "taxid": "2945104", "species_taxid": "2945104", "organism_name": "Halomonas llamarensis", "infraspecific_name": "strain=ATCHA", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/25", "asm_name": "ASM2355500v1", "asm_submitter": "Helmholtz Zentrum Dresden-Rossendorf", "gbrs_paired_asm": "GCA_023555005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/555/005/GCF_023555005.1_ASM2355500v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3760217", "genome_size_ungapped": "3760217", "gc_percent": "55.500000", "replicon_count": "0", "scaffold_count": "176", "contig_count": "176", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023555005.1-RS_2024_05_29", "annotation_date": "2024-05-29", "total_gene_count": "3622", "protein_coding_gene_count": "3458", "non_coding_gene_count": "83", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-05-25", "dateModified": "2022-05-25", "datePublished": "2022-05-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Halomonas llamarensis" ], "sample_taxid": [ "2945104" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Chile: Salar of Llamara" ], "sample_host_location_id": [], "data_size": "1.078 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)": "3760217", "Number of Sequences": "176", "Longest Sequences (bp)": "440984", "N50 (bp)": "96443", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.7", "Number of CDSs": "3450", "Average Protein Length": "319.5", "Coding Ratio (%)": "87.9", "Number of rRNAs": "2", "Number of tRNAs": "59", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halomonas salicampi", "strain": "strain=BH103", "accession": "GCA_013415105.1", "taxid": 1449798, "species_taxid": 1449798, "relation_to_type": "type", "validated": true, "ani": 88.3711, "matched_fragments": 857, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas massiliensis", "strain": "strain=Marseille-P2426", "accession": "GCA_900155385.1", "taxid": 1816686, "species_taxid": 1816686, "relation_to_type": "type", "validated": true, "ani": 81.8481, "matched_fragments": 674, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas arcis", "strain": "strain=CGMCC 1.6494", "accession": "GCA_900103865.1", "taxid": 416873, "species_taxid": 416873, "relation_to_type": "type", "validated": true, "ani": 79.8735, "matched_fragments": 414, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas glaciei", "strain": "strain=DD39", "accession": "GCA_013415125.1", "taxid": 186761, "species_taxid": 186761, "relation_to_type": "type", "validated": true, "ani": 79.1243, "matched_fragments": 390, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas aquamarina", "strain": "strain=558", "accession": "GCA_900110265.1", "taxid": 77097, "species_taxid": 77097, "relation_to_type": "type", "validated": true, "ani": 78.993, "matched_fragments": 365, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas hydrothermalis", "strain": "strain=Slthf2", "accession": "GCA_011399095.1", "taxid": 115561, "species_taxid": 115561, "relation_to_type": "type", "validated": true, "ani": 78.9792, "matched_fragments": 336, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas meridiana", "strain": "strain=ACAM 246", "accession": "GCA_900129255.1", "taxid": 29570, "species_taxid": 29570, "relation_to_type": "type", "validated": true, "ani": 78.9383, "matched_fragments": 353, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas meridiana", "strain": "strain=NBRC 15608", "accession": "GCA_006540125.1", "taxid": 29570, "species_taxid": 29570, "relation_to_type": "type", "validated": true, "ani": 78.8595, "matched_fragments": 341, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas maris", "strain": "strain=QX-1", "accession": "GCA_013371085.1", "taxid": 2729617, "species_taxid": 2729617, "relation_to_type": "type", "validated": true, "ani": 78.7388, "matched_fragments": 380, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lutescens", "strain": "strain=CGMCC 1.15122", "accession": "GCA_014640815.1", "taxid": 1602943, "species_taxid": 1602943, "relation_to_type": "type", "validated": true, "ani": 78.7132, "matched_fragments": 364, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas songnenensis", "strain": "strain=CGMCC 1.12152", "accession": "GCA_003002925.1", "taxid": 1176243, "species_taxid": 1176243, "relation_to_type": "type", "validated": true, "ani": 78.5337, "matched_fragments": 331, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas profundi", "strain": "strain=MT13", "accession": "GCA_019504685.1", "taxid": 2852117, "species_taxid": 2852117, "relation_to_type": "type", "validated": true, "ani": 78.4153, "matched_fragments": 294, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas populi", "strain": "strain=MC", "accession": "GCA_003989825.1", "taxid": 2498858, "species_taxid": 2498858, "relation_to_type": "type", "validated": true, "ani": 78.4152, "matched_fragments": 290, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas profundi", "strain": "strain=MT13", "accession": "GCA_019722725.1", "taxid": 2852117, "species_taxid": 2852117, "relation_to_type": "type", "validated": true, "ani": 78.3884, "matched_fragments": 301, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas jeotgali", "strain": "strain=Hwa", "accession": "GCA_000334215.1", "taxid": 553386, "species_taxid": 553386, "relation_to_type": "type", "validated": true, "ani": 77.6966, "matched_fragments": 264, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lysinitropha", "strain": "strain=3(2)", "accession": "GCA_902500215.1", "taxid": 2607506, "species_taxid": 2607506, "relation_to_type": "type", "validated": true, "ani": 77.5597, "matched_fragments": 205, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas zhangzhouensis", "strain": "strain=MCCC 1A11036", "accession": "GCA_021404465.1", "taxid": 2733481, "species_taxid": 2733481, "relation_to_type": "type", "validated": true, "ani": 77.4417, "matched_fragments": 197, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas cupida", "strain": "strain=NBRC 102219", "accession": "GCA_007991155.1", "taxid": 44933, "species_taxid": 44933, "relation_to_type": "type", "validated": true, "ani": 77.2206, "matched_fragments": 152, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas cupida", "strain": "strain=DSM 4740", "accession": "GCA_900142755.1", "taxid": 44933, "species_taxid": 44933, "relation_to_type": "type", "validated": true, "ani": 77.1058, "matched_fragments": 153, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas panipatensis", "strain": "strain=CCM 7469", "accession": "GCA_900099785.1", "taxid": 428992, "species_taxid": 428992, "relation_to_type": "type", "validated": true, "ani": 75.9885, "matched_fragments": 65, "total_fragments": 1199, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013415105.1", "gtdb_species": "s__Halomonas salicampi", "ani": 88.4149, "matched_fragments": 854, "total_fragments": 1199, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_900155385.1", "gtdb_species": "s__Halomonas massiliensis", "ani": 81.8554, "matched_fragments": 673, "total_fragments": 1199, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.38", "min_intra_species_ani": "98.38", 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