{ "type": "genome", "identifier": "GCF_002213415.1", "organism": "Herbaspirillum robiniae", "title": "Herbaspirillum robiniae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Northwest A&F University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002213415.1", "bioproject": "PRJNA224116", "biosample": "SAMN07251781", "wgs_master": "NJGU00000000.1", "refseq_category": "na", "taxid": "2014887", "species_taxid": "2014887", "organism_name": "Herbaspirillum robiniae", "infraspecific_name": "strain=HZ10", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/06/30", "asm_name": "ASM221341v1", "asm_submitter": "Northwest A&F University", "gbrs_paired_asm": "GCA_002213415.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/213/415/GCF_002213415.1_ASM221341v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5534556", "genome_size_ungapped": "5534556", "gc_percent": "65.000000", "replicon_count": "0", "scaffold_count": "31", "contig_count": "31", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002213415.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "4978", "protein_coding_gene_count": "4891", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-06-30", "dateModified": "2017-06-30", "datePublished": "2017-06-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Herbaspirillum robiniae" ], "sample_taxid": [ "2014887" ], "sample_host_organism": [ "Robinia pseudoacacia" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.514 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)": "5534556", "Number of Sequences": "31", "Longest Sequences (bp)": "1144856", "N50 (bp)": "361862", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.9", "Number of CDSs": "4861", "Average Protein Length": "328.8", "Coding Ratio (%)": "86.6", "Number of rRNAs": "1", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Herbaspirillum robiniae", "strain": "strain=HZ10", "accession": "GCA_002213415.1", "taxid": 2014887, "species_taxid": 2014887, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1828, "total_fragments": 1830, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Herbaspirillum chlorophenolicum", "strain": "strain=NBRC 102525", "accession": "GCA_001571165.1", "taxid": 211589, "species_taxid": 211589, "relation_to_type": "type", "validated": true, "ani": 87.4512, "matched_fragments": 1211, "total_fragments": 1830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum chlorophenolicum", "strain": "strain=CPW301", "accession": "GCA_001189955.1", "taxid": 211589, "species_taxid": 211589, "relation_to_type": "type", "validated": true, "ani": 87.4291, "matched_fragments": 1204, "total_fragments": 1830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum seropedicae", "strain": "strain=Z67", "accession": "GCA_001040945.1", "taxid": 964, "species_taxid": 964, "relation_to_type": "type", "validated": true, "ani": 85.9241, "matched_fragments": 1237, "total_fragments": 1830, "ani_threshold": 95, "status": "below_threshold" 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"strain=IEH 4430", "accession": "GCA_002213425.1", "taxid": 568783, "species_taxid": 568783, "relation_to_type": "type", "validated": true, "ani": 85.5791, "matched_fragments": 1242, "total_fragments": 1830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum huttiense subsp. putei", "strain": "strain=IAM 15032", "accession": "GCA_000478365.1", "taxid": 230311, "species_taxid": 863372, "relation_to_type": "type", "validated": true, "ani": 85.5597, "matched_fragments": 1249, "total_fragments": 1830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rubrisubalbicans", "strain": "strain=NBRC 102523", "accession": "GCA_001591225.1", "taxid": 80842, "species_taxid": 80842, "relation_to_type": "type", "validated": true, "ani": 85.1055, "matched_fragments": 1144, "total_fragments": 1830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rubrisubalbicans", "strain": "strain=DSM 11543", 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"mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 8, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.303, "cell_length": 0.262, "doubling_h": null, "growth_tmp": 29.383, "optimum_tmp": 29.75, "optimum_ph": 6.666, "genome_size": 5407104.538, "gc_content": 61.351, "coding_genes": 4626.541, "rRNA16S_genes": 2.75, "tRNA_genes": 55.562, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.888, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.625, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.125, "spiral_cell_shape": 0.25 }, "_genome_taxon": [ "Herbaspirillum", "robiniae" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }