SARS-CoV-2 infection evokes transcriptional changes in Calu-3 cells and cultured primary mouse trigeminal ganglia cells

SARS-CoV-2, the virus responsible for COVID-19, infects both human airway epithelial cells and trigeminal ganglia. We assessed the consequences of SARS-CoV-2 infection on gene expression in Calu-3 cells and in primary Mus musculus trigeminal ganglia cells (mmTG). Here, we provide datasets that include raw reads and mapped reads for the following: 1) mock infected mmTG 48 hrs post infection; 2) SARS-CoV-2 infected mmTG 48 hrs post infection; 3) mock infected Calu-3 cells 24 hrs post infection; 4) SARS-CoV-2 infected Calu-3 cells 24 hrs post infection; 5) mock infected Calu-3 cells 48 hrs post infection; 6) SARS-CoV-2 infected Calu-3 cells 48 hrs post infection. All mice were housed in standard conditions in accordance with standards approved by the Animal Care and Use Committee of the University of California Berkeley (14 hour light: 10 hour dark cycle, 21 °C). C57BL/6N mice were obtained from Charles River. Mouse trigeminal ganglia were cultured as previously described (Hill et al. 2018 J. Neurosci, PMID: 30082422; Wilson et al. 2011, Nature Neuro, PMID: 21460831) and plated in a 96-well plate. Eight trigeminal ganglia from 4 animals were combined and plated across 8 wells. TG cultures were infected with 500,000 SARS-CoV-2 (WA1) virions in medium (10% heat-inactivated FBS, sodium pyruvate, HEPES, L-glutamine, penicillin/streptomycin) or medium (mock infection) for 48 hours. Human adenocarcinoma lung epithelial (Calu-3) cells (ATCC, HTB-55) were maintained with RPMI (Fisher Scientific) supplemented with fetal bovine serum (FBS), L-glutamine, penicillin/streptomycin. Approximately 500,000 Calu-3 cells were incubated with SARS-CoV-2 (WA1) virions in medium (10% heat-inactivated FBS, sodium pyruvate, HEPES, L-glutamine, penicillin/streptomycin) diluted in phenol-red free RPMI to an MOI of 1 for 24 or 48 hours. After removing supernatant from infected cells, RNA was isolated with DNA/RNA Shield (Zymo Research) according to the manufacturer’s instructions.