{ "type": "genome", "identifier": "GCA_020442165.1", "organism": "Hyphomicrobiaceae bacterium", "title": "Hyphomicrobiaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "The University Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020442165.1", "bioproject": "PRJNA432264", "biosample": "SAMN14564358", "wgs_master": "JAGRKV000000000.1", "refseq_category": "na", "taxid": "2015799", "species_taxid": "2015799", "organism_name": "Hyphomicrobiaceae bacterium", "infraspecific_name": "", "isolate": "HKST-UBA48", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/10/12", "asm_name": "ASM2044216v1", "submitter": "The University Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/442/165/GCA_020442165.1_ASM2044216v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-10-12", "dateModified": "2021-10-12", "datePublished": "2021-10-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Hyphomicrobiaceae bacterium" ], "sample_taxid": [ "2015799" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Hong Kong SAR, Shatin waste water treatment plant" ], "sample_host_location_id": [], "data_size": "1.220 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 83.33, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4315788", "Number of Sequences": "89", "Longest Sequences (bp)": "727304", "N50 (bp)": "131099", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.9", "Number of CDSs": "3887", "Average Protein Length": "305.7", "Coding Ratio (%)": "82.6", "Number of rRNAs": "0", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Hyphomicrobium album", "strain": "strain=XQ2", "accession": "GCA_009708035.1", "taxid": 2665159, "species_taxid": 2665159, "relation_to_type": "type", "validated": true, "ani": 77.4917, "matched_fragments": 215, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyphomicrobium facile", "strain": "strain=DSM 1565", "accession": "GCA_900116175.1", "taxid": 51670, "species_taxid": 51670, "relation_to_type": "type", "validated": true, "ani": 77.2032, "matched_fragments": 133, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyphomicrobium nitrativorans", "strain": "strain=NL23", "accession": "GCA_000503895.1", "taxid": 1427356, "species_taxid": 1427356, "relation_to_type": "type", "validated": true, "ani": 77.1359, "matched_fragments": 184, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyphomicrobium zavarzinii", "strain": "strain=ZV-622", "accession": "GCA_000383415.1", "taxid": 48292, "species_taxid": 48292, "relation_to_type": "type", "validated": true, "ani": 77.0516, "matched_fragments": 224, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyphomicrobium sulfonivorans", "strain": "strain=S1", "accession": "GCA_013306565.1", "taxid": 121290, "species_taxid": 121290, "relation_to_type": "type", "validated": true, "ani": 76.9979, "matched_fragments": 166, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyphomicrobium sulfonivorans", "strain": "strain=S1", "accession": "GCA_016125985.1", "taxid": 121290, "species_taxid": 121290, "relation_to_type": "type", "validated": true, "ani": 76.9881, "matched_fragments": 168, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oharaeibacter diazotrophicus", "strain": "strain=SM30", "accession": "GCA_011317485.1", "taxid": 1920512, "species_taxid": 1920512, "relation_to_type": "type", "validated": true, "ani": 76.9201, "matched_fragments": 117, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastochloris tepida", "strain": "strain=GI", "accession": "GCA_003966715.1", "taxid": 2233851, "species_taxid": 2233851, "relation_to_type": "type", "validated": true, "ani": 76.9103, "matched_fragments": 132, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oharaeibacter diazotrophicus", "strain": "strain=DSM 102969", "accession": "GCA_004362745.1", "taxid": 1920512, "species_taxid": 1920512, "relation_to_type": "type", "validated": true, "ani": 76.8187, "matched_fragments": 134, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastochloris sulfoviridis", "strain": "strain=DSM 729", "accession": "GCA_008630065.1", "taxid": 50712, "species_taxid": 50712, "relation_to_type": "type", "validated": true, "ani": 76.7785, "matched_fragments": 144, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyphomicrobium denitrificans", "strain": "strain=ATCC 51888", "accession": "GCA_000143145.1", "taxid": 53399, "species_taxid": 53399, "relation_to_type": "type", "validated": true, "ani": 76.7421, "matched_fragments": 144, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella oryzae", "strain": "strain=Z-25", "accession": "GCA_023038235.1", "taxid": 2871820, "species_taxid": 2871820, "relation_to_type": "type", "validated": true, "ani": 76.7169, "matched_fragments": 98, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthobacter tagetidis", "strain": "strain=DSM 11105", "accession": "GCA_014206845.1", "taxid": 60216, "species_taxid": 60216, "relation_to_type": "type", "validated": true, "ani": 76.6601, "matched_fragments": 128, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthobacter tagetidis", "strain": "strain=ATCC 700314", "accession": "GCA_003667445.1", "taxid": 60216, "species_taxid": 60216, "relation_to_type": "type", "validated": true, "ani": 76.6543, "matched_fragments": 127, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kaistia adipata", "strain": "strain=DSM 17808", "accession": "GCA_000423225.1", "taxid": 166954, "species_taxid": 166954, "relation_to_type": "type", "validated": true, "ani": 76.5914, "matched_fragments": 125, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium elkanii", "strain": "strain=USDA 76", "accession": "GCA_023278185.1", "taxid": 29448, "species_taxid": 29448, "relation_to_type": "type", "validated": true, "ani": 76.4076, "matched_fragments": 149, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Filomicrobium insigne", "strain": "strain=CGMCC 1.6497", "accession": "GCA_900104305.1", "taxid": 418854, "species_taxid": 418854, "relation_to_type": "type", "validated": true, "ani": 76.3645, "matched_fragments": 93, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kaistia hirudinis", "strain": "strain=DSM 25966", "accession": "GCA_014196455.1", "taxid": 1293440, "species_taxid": 1293440, "relation_to_type": "type", "validated": true, "ani": 76.3527, "matched_fragments": 110, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Albimonas pacifica", "strain": "strain=CGMCC 1.11030", "accession": "GCA_900113695.1", "taxid": 1114924, "species_taxid": 1114924, "relation_to_type": "type", "validated": true, "ani": 76.3213, "matched_fragments": 98, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium redzepovicii", "strain": "strain=18T", "accession": "GCA_019793435.1", "taxid": 2867518, "species_taxid": 2867518, "relation_to_type": "type", "validated": true, "ani": 76.1206, "matched_fragments": 85, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium croatiense", "strain": "strain=13T", "accession": "GCA_019793465.1", "taxid": 2867516, "species_taxid": 2867516, "relation_to_type": "type", "validated": true, "ani": 76.017, "matched_fragments": 98, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parvibaculum indicum", "strain": "strain=DSM 25305", "accession": "GCA_011762095.1", "taxid": 562969, "species_taxid": 562969, "relation_to_type": "type", "validated": true, "ani": 75.9845, "matched_fragments": 89, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jannaschia formosa", "strain": "strain=12N15", "accession": "GCA_003340555.1", "taxid": 2259592, "species_taxid": 2259592, "relation_to_type": "type", "validated": true, "ani": 75.8182, "matched_fragments": 62, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseococcus pinisoli", "strain": "strain=XZZS9", "accession": "GCA_018413645.1", "taxid": 2835040, "species_taxid": 2835040, "relation_to_type": "type", "validated": true, "ani": 75.6182, "matched_fragments": 59, "total_fragments": 1392, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 83.33, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { 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77.0649, "matched_fragments": 204, "total_fragments": 1392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium", "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_902826555.1", "gtdb_species": "s__Hyphomicrobium sp902826555", "ani": 77.0515, "matched_fragments": 187, "total_fragments": 1392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium", "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_000383415.1", "gtdb_species": "s__Hyphomicrobium zavarzinii", "ani": 77.0406, "matched_fragments": 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