{ "type": "genome", "identifier": "GCF_004323635.1", "organism": "Lichenihabitans psoromatis", "title": "Lichenihabitans psoromatis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "KOREA POLAR RESEARCH INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004323635.1", "bioproject": "PRJNA224116", "biosample": "SAMN10908461", "wgs_master": "na", "refseq_category": "na", "taxid": "2528642", "species_taxid": "2528642", "organism_name": "Lichenihabitans psoromatis", "infraspecific_name": "strain=PAMC 29148", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/04", "asm_name": "ASM432363v1", "asm_submitter": "KOREA POLAR RESEARCH INSTITUTE", "gbrs_paired_asm": "GCA_004323635.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/323/635/GCF_004323635.1_ASM432363v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4836481", "genome_size_ungapped": "4836481", "gc_percent": "63.000000", "replicon_count": "3", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004323635.1-RS_2024_05_01", "annotation_date": "2024-05-01", "total_gene_count": "4559", "protein_coding_gene_count": "4396", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-04", "dateModified": "2019-03-04", "datePublished": "2019-03-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Lichenihabitans psoromatis" ], "sample_taxid": [ "2528642" ], "sample_host_organism": [ "Psoroma sp." ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica" ], "sample_host_location_id": [], "data_size": "1.344 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)": "4836481", "Number of Sequences": "3", "Longest Sequences (bp)": "4645778", "N50 (bp)": "4645778", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.1", "Number of CDSs": "4612", "Average Protein Length": "310.3", "Coding Ratio (%)": "88.8", "Number of rRNAs": "9", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lichenihabitans psoromatis", "strain": "strain=PAMC 29148", "accession": "GCA_004323635.1", "taxid": 2528642, "species_taxid": 2528642, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1609, 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"below_threshold" }, { "organism_name": "Methylovirgula ligni", "strain": "strain=BW863", "accession": "GCA_004135935.1", "taxid": 569860, "species_taxid": 569860, "relation_to_type": "type", "validated": true, "ani": 76.9393, "matched_fragments": 156, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylovirgula ligni", "strain": "strain=BW863", "accession": "GCA_003387225.1", "taxid": 569860, "species_taxid": 569860, "relation_to_type": "type", "validated": true, "ani": 76.9074, "matched_fragments": 152, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methyloferula stellata", "strain": "strain=AR4T", "accession": "GCA_000385335.1", "taxid": 876270, "species_taxid": 876270, "relation_to_type": "type", "validated": true, "ani": 76.8199, "matched_fragments": 157, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocapsa palsarum", "strain": "strain=NE2", "accession": "GCA_900114285.1", "taxid": 1612308, "species_taxid": 1612308, "relation_to_type": "type", "validated": true, "ani": 76.809, "matched_fragments": 139, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga mediterraneensis", "strain": "strain=Marseille-Q2068", "accession": "GCA_013520865.1", "taxid": 2754695, "species_taxid": 2754695, "relation_to_type": "type", "validated": true, "ani": 76.7485, "matched_fragments": 176, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodoblastus acidophilus", "strain": "strain=DSM 137", "accession": "GCA_002937135.1", "taxid": 1074, "species_taxid": 1074, "relation_to_type": "suspected-type", "validated": true, "ani": 76.6788, "matched_fragments": 184, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocystis rosea", "strain": "strain=SV97", "accession": "GCA_000372845.1", "taxid": 173366, "species_taxid": 173366, "relation_to_type": "type", "validated": true, "ani": 76.657, "matched_fragments": 135, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylosinus trichosporium", "strain": "strain=OB3b", "accession": "GCA_000178815.2", "taxid": 426, "species_taxid": 426, "relation_to_type": "type", "validated": true, "ani": 76.6301, "matched_fragments": 218, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylosinus trichosporium", "strain": "strain=OB3b", "accession": "GCA_002752655.1", "taxid": 426, "species_taxid": 426, "relation_to_type": "type", "validated": true, "ani": 76.5856, "matched_fragments": 214, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocystis silviterrae", "strain": "strain=FS", "accession": "GCA_013350005.1", "taxid": 2743612, "species_taxid": 2743612, 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"matched_fragments": 226, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium jeotgali", "strain": "strain=LMG 23639", "accession": "GCA_022179345.1", "taxid": 381630, "species_taxid": 381630, "relation_to_type": "type", "validated": true, "ani": 76.3631, "matched_fragments": 155, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylosinus sporium", "strain": "strain=DSM 17706", "accession": "GCA_009811675.1", "taxid": 428, "species_taxid": 428, "relation_to_type": "type", "validated": true, "ani": 76.3548, "matched_fragments": 178, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga calopogonii", "strain": "strain=CCBAU 65841", "accession": "GCA_003347665.1", "taxid": 2078013, "species_taxid": 2078013, "relation_to_type": "type", "validated": true, "ani": 76.3497, "matched_fragments": 169, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylosinus sporium", "strain": "strain=DSM 17706", "accession": "GCA_003113265.1", "taxid": 428, "species_taxid": 428, "relation_to_type": "type", "validated": true, "ani": 76.3155, "matched_fragments": 166, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium nonmethylotrophicum", "strain": "strain=6HR-1", "accession": "GCA_004745635.1", "taxid": 1141884, "species_taxid": 1141884, "relation_to_type": "type", "validated": true, "ani": 76.3008, "matched_fragments": 255, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium oryzihabitans", "strain": "strain=TER-1", "accession": "GCA_004004555.2", "taxid": 2499852, "species_taxid": 2499852, "relation_to_type": "type", "validated": true, "ani": 76.2798, "matched_fragments": 241, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium gnaphalii", "strain": "strain=DSM 24027", "accession": "GCA_022179205.1", "taxid": 1010610, "species_taxid": 1010610, "relation_to_type": "type", "validated": true, "ani": 76.2435, "matched_fragments": 144, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium bullatum", "strain": "strain=LMG 24788", "accession": "GCA_014845095.1", "taxid": 570505, "species_taxid": 570505, "relation_to_type": "type", "validated": true, "ani": 76.2053, "matched_fragments": 164, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium bullatum", "strain": "strain=DSM 21893", "accession": "GCA_022179105.1", "taxid": 570505, "species_taxid": 570505, "relation_to_type": "type", "validated": true, "ani": 76.1789, "matched_fragments": 175, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium indicum", "strain": "strain=SE2.11", "accession": "GCA_001043895.1", "taxid": 1775910, "species_taxid": 1775910, "relation_to_type": "type", "validated": true, "ani": 76.1168, "matched_fragments": 234, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium hispanicum", "strain": "strain=DSM 16372", "accession": "GCA_022179285.1", "taxid": 270350, "species_taxid": 270350, "relation_to_type": "type", "validated": true, "ani": 75.8917, "matched_fragments": 197, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tistlia consotensis", "strain": "strain=DSM 21585", "accession": "GCA_900188055.1", "taxid": 1321365, "species_taxid": 1321365, "relation_to_type": "type", "validated": true, "ani": 75.6048, "matched_fragments": 161, "total_fragments": 1610, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004323635.1", "gtdb_species": "s__Lichenihabitans psoromatis", "ani": 100.0, "matched_fragments": 1608, "total_fragments": 1610, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Lichenihabitans", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.95", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_004137085.1", "gtdb_species": "s__Lichenihabitans ramalinae", "ani": 77.2257, "matched_fragments": 385, "total_fragments": 1610, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Lichenihabitans", "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", 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1610, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_000188155.2", "gtdb_species": "s__Methylocystis sp000188155", "ani": 76.6942, "matched_fragments": 167, "total_fragments": 1610, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocystis", "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_903916165.1", "gtdb_species": "s__28-YEA-48 sp903916165", "ani": 76.5743, "matched_fragments": 108, "total_fragments": 1610, "gtdb_taxonomy": 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