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oai:repisalud.isciii.es:20.500.12105/227842024-11-28T22:09:58Zcom_20.500.12105_15322com_20.500.12105_2051col_20.500.12105_16967
Repisalud author Paez-Espino, David author Roux, Simon author Chen, I-Min A author Palaniappan, Krishna author Ratner, Anna author Chu, Ken author Huntemann, Marcel author Reddy, TBK author Pons, Joan Carles author Llabres, Merce author Eloe-Fadrosh, Emiley A author Ivanova, Natalia N author Kyrpides, Nikos C 2024-09-10T13:09:51Z 2024-09-10T13:09:51Z 2019-01-08 Paez-Espino D, Roux S, Chen IMA, Palaniappan K, Ratner A, Chu K, et al. IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes. Nucleic Acids Res. 2019 Jan 08;47(D1):D678-86. 10.1093/nar/gky1127 1362-4962 0305-1048 Nucleic Acids Research http://hdl.handle.net/20.500.13003/8906 30407573 L626499767 2-s2.0-85059798211 https://hdl.handle.net/20.500.12105/22784 462587400093 The Integrated Microbial Genome/Virus (IMG/VR) system v.2.0 (https://img.jgi.doe.gov/vr/) is the largest publicly available data management and analysis platform dedicated to viral genomics. Since the last report published in the 2016, NAR Database Issue, the data has tripled in size and currently contains genomes of 8389 cultivated reference viruses, 12 498 previously published curated prophages derived from cultivated microbial isolates, and 735112 viral genomic fragments computationally predicted from assembled shotgun metagenomes. Nearly 60% of the viral genomes and genome fragments are clustered into 110384 viral Operational Taxonomic Units (vOTUs) with two or more members. To improve data quality and predictions of host specificity, IMG/VR v.2.0 now separates prokaryotic and eukaryotic viruses, utilizes known prophage sequences to improve taxonomic assignments, and provides viral genome quality scores based on the estimated genome completeness. New features also include enhanced BLAST search capabilities for external queries. Finally, geographic map visualization to locate user-selected viral genomes or genome fragments has been implemented and download options have been extended. All of these features make IMG/VR v.2.0 a key resource for the study of viruses. eng IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes research article