Author: Schlub, Timothy E; Buchmann, Jan P; Holmes, Edward C
Title: A Simple Method to Detect Candidate Overlapping Genes in Viruses Using Single Genome Sequences Document date: 2018_8_7
ID: yiqdsf9z_30
Snippet: Overlapping genes play an important role in viral evolution (Simon-Loriere et al. 2013) , and are particularly prevalent in RNA viruses with small genomes. However, the study of overlapping genes is limited by detection methods that either have high laboratory costs, or require enough sequences to make reliable substitution rate comparisons. Our simple, but powerful, permutation and synonymous mutation method requires only a single genome sequenc.....
Document: Overlapping genes play an important role in viral evolution (Simon-Loriere et al. 2013) , and are particularly prevalent in RNA viruses with small genomes. However, the study of overlapping genes is limited by detection methods that either have high laboratory costs, or require enough sequences to make reliable substitution rate comparisons. Our simple, but powerful, permutation and synonymous mutation method requires only a single genome sequence and is computationally quick to run. These properties make it an ideal choice for identifying candidate ORFs in screening situations such as metagenomics viral discovery projects, or applied to large genome databases such as we have done here.
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