{ "type": "genome", "identifier": "GCF_001640105.1", "organism": "Hydrogenophaga crassostreae", "title": "Hydrogenophaga crassostreae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001640105.1", "bioproject": "PRJNA224116", "biosample": "SAMN04390147", "wgs_master": "LVWD00000000.1", "refseq_category": "na", "taxid": "1763535", "species_taxid": "1763535", "organism_name": "Hydrogenophaga crassostreae", "infraspecific_name": "strain=LPB0072", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/06", "asm_name": "ASM164010v1", "asm_submitter": "Korea University", "gbrs_paired_asm": "GCA_001640105.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/640/105/GCF_001640105.1_ASM164010v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4926551", "genome_size_ungapped": "4926551", "gc_percent": "61.500000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001640105.1-RS_2024_05_12", "annotation_date": "2024-05-12", "total_gene_count": "4616", "protein_coding_gene_count": "4526", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-06", "dateModified": "2016-05-06", "datePublished": "2016-05-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Hydrogenophaga crassostreae" ], "sample_taxid": [ "1763535" ], "sample_host_organism": [ "Magallana gigas" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.377 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)": "4926551", "Number of Sequences": "45", "Longest Sequences (bp)": "607956", "N50 (bp)": "376931", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.3", "Number of CDSs": "4537", "Average Protein Length": "320.1", "Coding Ratio (%)": "88.4", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Hydrogenophaga crassostreae", "strain": "strain=LPB0072", "accession": "GCA_001640105.1", "taxid": 1763535, "species_taxid": 1763535, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1621, "total_fragments": 1623, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Hydrogenophaga crassostreae", "strain": "strain=LPB0072", "accession": "GCA_001761385.1", "taxid": 1763535, "species_taxid": 1763535, "relation_to_type": "type", "validated": true, "ani": 99.9973, "matched_fragments": 1622, "total_fragments": 1623, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Hydrogenophaga aromaticivorans", "strain": "strain=D2P1", "accession": "GCA_013387465.1", "taxid": 2610898, "species_taxid": 2610898, "relation_to_type": "type", "validated": true, "ani": 80.3544, "matched_fragments": 760, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga taeniospiralis", "strain": "strain=NBRC 102512", "accession": "GCA_001592305.1", "taxid": 65656, "species_taxid": 65656, "relation_to_type": "type", "validated": true, "ani": 80.2618, "matched_fragments": 743, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga pseudoflava", "strain": "strain=NBRC 102511", "accession": "GCA_001592285.1", "taxid": 47421, "species_taxid": 47421, "relation_to_type": "type", "validated": true, "ani": 79.7787, "matched_fragments": 689, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga palleronii", "strain": "strain=NBRC 102513", "accession": "GCA_001571225.1", "taxid": 65655, "species_taxid": 65655, "relation_to_type": "type", "validated": true, "ani": 79.6309, "matched_fragments": 586, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga flava", "strain": "strain=NBRC 102514", "accession": "GCA_001571145.1", "taxid": 65657, "species_taxid": 65657, "relation_to_type": "type", "validated": true, "ani": 79.4967, "matched_fragments": 720, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga crocea", "strain": "strain=BA0156", "accession": "GCA_011388215.1", "taxid": 2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 79.109, "matched_fragments": 518, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Limnohabitans radicicola", "strain": "strain=JUR4", "accession": "GCA_014837235.1", "taxid": 2771427, "species_taxid": 2771427, "relation_to_type": "type", "validated": true, "ani": 78.6047, "matched_fragments": 343, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Simplicispira metamorpha", "strain": "strain=DSM 1837", "accession": "GCA_004341365.1", "taxid": 80881, "species_taxid": 80881, "relation_to_type": "type", "validated": true, "ani": 78.3706, "matched_fragments": 353, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Simplicispira metamorpha", "strain": "strain=NBRC 13960", "accession": "GCA_003568725.1", "taxid": 80881, "species_taxid": 80881, "relation_to_type": "type", "validated": true, "ani": 78.321, "matched_fragments": 346, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Curvibacter gracilis", "strain": "strain=ATCC BAA-807", "accession": "GCA_000518645.1", "taxid": 230310, "species_taxid": 230310, "relation_to_type": "type", "validated": true, "ani": 78.3034, "matched_fragments": 461, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax facilis", "strain": "strain=DSM 649", "accession": "GCA_023913775.1", "taxid": 12917, "species_taxid": 12917, "relation_to_type": "type", "validated": true, "ani": 78.2692, "matched_fragments": 449, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Diaphorobacter caeni", "strain": "strain=NR2-3-3-1", "accession": "GCA_015354245.1", "taxid": 2784387, "species_taxid": 2784387, "relation_to_type": "type", "validated": true, "ani": 78.034, "matched_fragments": 312, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variovorax guangxiensis", "strain": "strain=DSM 27352", "accession": "GCA_003952165.1", "taxid": 1775474, "species_taxid": 1775474, "relation_to_type": "type", "validated": true, "ani": 77.6839, "matched_fragments": 405, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter agri", "strain": "strain=G-1-2-2", "accession": "GCA_012927085.1", "taxid": 2728837, "species_taxid": 2728837, "relation_to_type": "type", "validated": true, "ani": 77.6821, "matched_fragments": 387, "total_fragments": 1623, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001761385.1", "gtdb_species": "s__Hydrogenophaga crassostreae", 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