Virus Expression Database
Submitted by Catherine Elizabeth Campbell (George Mason University, USA) on Aug 10 2017
Platform: ngs – Illumina HiSeq 2500 (Homo sapiens)
Pubmed: None listed
Summary Rift Valley fever virus (RVFV) causes major outbreaks among livestock, characterized by “abortion storms” in which spontaneous abortion occurs in almost 100% of pregnant ruminants. Humans can also become infected with mild symptoms that can progress to more severe symptoms, such as hepatitis, encephalitis, and hemorrhagic fever. The goal of this study was to use RNA-sequencing (RNA-seq) to analyze the host transcriptome in response to RVFV infection. G2/M DNA damage checkpoint, ATM signaling, mitochondrial dysfunction, regulation of the antiviral response, and integrin-linked kinase (ILK) signaling were among the top altered canonical pathways with both the attenuated MP12 strain and the fully virulent ZH548 strain. Although several mRNA transcripts were highly upregulated, an increase at the protein level was not observed for the selected genes, which was at least partially due to the NSs dependent block in mRNA export. Inhibition of ILK signaling, which is involved in cell motility and cytoskeletal reorganization, resulted in reduced RVFV replication, indicating that this pathway is important for viral replication. Overall, this is the first global transcriptomic analysis of the human host response following RVFV infection, which could give insight into novel host responses that have not yet been explored.
| ID | Title | Cell Type | Timepoint | Reported Virus | Virus Species | Exclusion Reason |
|---|---|---|---|---|---|---|
| GSM2738598 | 3H RVFV MP12 Replicate 1 | SAEC cell  |
3 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738599 | 3H RVFV MP12 Replicate 2 | SAEC cell |
3 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738600 | 3H RVFV MP12 Replicate 3 | SAEC cell |
3 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738601 | 9H RVFV MP12 Replicate 1 | SAEC cell |
9 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738602 | 9H RVFV MP12 Replicate 2 | SAEC cell |
9 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738603 | 9H RVFV MP12 Replicate 3 | SAEC cell |
9 hrs | RVFV MP12 | Rift Valley fever phlebovirus | Data failed QCpseudoaligned_reads is 1113666 (low number of usable reads) |
| GSM2738604 | 18H RVFV MP12 Replicate 1 | SAEC cell |
18 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738605 | 18H RVFV MP12 Replicate 2 | SAEC cell |
18 hrs | RVFV MP12 | Rift Valley fever phlebovirus | |
| GSM2738606 | 18H RVFV MP12 Replicate 3 | SAEC cell |
18 hrs | RVFV MP12 | Rift Valley fever phlebovirus | Data failed QCpseudoaligned_reads is 645808 (low number of usable reads) |
| GSM2738607 | 3H RVFV ZH548 Replicate 1 | SAEC cell |
3 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738608 | 3H RVFV ZH548 Replicate 2 | SAEC cell |
3 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738609 | 3H RVFV ZH548 Replicate 3 | SAEC cell |
3 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738610 | 9H RVFV ZH548 Replicate 1 | SAEC cell |
9 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738611 | 9H RVFV ZH548 Replicate 2 | SAEC cell |
9 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738612 | 9H RVFV ZH548 Replicate 3 | SAEC cell |
9 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738613 | 18H RVFV ZH548 Replicate 1 | SAEC cell |
18 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738614 | 18H RVFV ZH548 Replicate 2 | SAEC cell |
18 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | |
| GSM2738615 | 18H RVFV ZH548 Replicate 3 | SAEC cell |
18 hrs | RVFV ZH548 | Rift Valley fever phlebovirus | Data failed QCpseudoaligned_reads is 953120 (low number of usable reads) |
| GSM2738616 | 3H RVFV Mock Replicate 1 | SAEC cell |
3 hrs | Mock | Uninfected | |
| GSM2738617 | 3H RVFV Mock Replicate 2 | SAEC cell |
3 hrs | Mock | Uninfected | |
| GSM2738618 | 3H RVFV Mock Replicate 3 | SAEC cell |
3 hrs | Mock | Uninfected | |
| GSM2738619 | 9H RVFV Mock Replicate 1 | SAEC cell |
9 hrs | Mock | Uninfected | |
| GSM2738620 | 9H RVFV Mock Replicate 2 | SAEC cell |
9 hrs | Mock | Uninfected | |
| GSM2738621 | 9H RVFV Mock Replicate 3 | SAEC cell |
9 hrs | Mock | Uninfected | |
| GSM2738622 | 18H RVFV Mock Replicate 1 | SAEC cell |
18 hrs | Mock | Uninfected | |
| GSM2738623 | 18H RVFV Mock Replicate 2 | SAEC cell |
18 hrs | Mock | Uninfected | |
| GSM2738624 | 18H RVFV Mock Replicate 3 | SAEC cell |
18 hrs | Mock | Uninfected |