Probing the unfolded protein response to mouse hepatitis coronavirus infection through RNA sequencing and ribosome profiling

Georgia M. Cook; Katherine Brown; Krzysztof Franaszek; Nathan A. Moore; Stuart G. Siddell; Ian Brierley; Andrew E. Firth; Nerea Irigoyen

RNASeq read distribution allows visualisation of the changes in TE. These results, consistent with 180 . CC-BY-NC-ND 4.0 International license is made available under a The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. It . https://doi.org/10.1101/292979 doi: bioRxiv preprint eIF2α phosphorylation (leading to inhibited translation initiation), could indicate a major cause of 181 host translational shut-off during MHV infection. This will be further explored below. Rpl19 can be seen at 8 and 10 h p.i. but this is likely due to the fact that RT reactions were carried 226 out using a consistent amount of total RNA as starting material but, at these timepoints, viral RNA 227 comprises approximately 80% of the total RNA in the cell [16] . In order to analyse translation of 228