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Series GSE162040 Query DataSets for GSE162040
Status Public on Nov 24, 2020
Title TMEM41B is a pan-flavivirus host factor
Organisms Homo sapiens; synthetic construct
Experiment type Other
Summary Flaviviruses pose a constant threat to human health. These RNA viruses are transmitted by the bite of infected mosquitoes and ticks and regularly cause outbreaks. To identify host factors required for flavivirus infection we performed full-genome loss of function CRISPR-Cas9 screens. Based on these results we focused our efforts on characterizing the roles that TMEM41B and VMP1 play in the virus replication cycle. Our mechanistic studies on TMEM41B revealed that all members of the Flaviviridae family that we tested require TMEM41B. We tested 12 additional virus families and found that SARS-CoV-2 of the Coronaviridae also required TMEM41B for infection. Remarkably, single nucleotide polymorphisms (SNPs) present at nearly twenty percent in East Asian populations reduce flavivirus infection. Based on our mechanistic studies we propose that TMEM41B is recruited to flavivirus RNA replication complexes to facilitate membrane curvature, which creates a protected environment for viral genome replication.
Overall design Genome-scale CRISPR screens targeting were performed for ZIKV (PRVABC59 strain) and YFV (Asibi strain).
Contributor(s) Hoffmann H, Schneider WM, Rozen-Gagnon K, Miles LA, Schuster F, Razooky B, Jacobson E, Wu X, Yi S, Rudin CM, MacDonald MR, McMullan LK, Poirier JT, Rice CM
Citation(s) 33338421
Submission date Nov 23, 2020
Last update date Dec 20, 2021
Contact name John Poirier
Organization name NYU Langone Health
Street address 550 1st Ave
City New York
ZIP/Postal code 10016
Country USA
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL19604 Illumina HiSeq 2500 (synthetic construct)
Samples (40)
GSM4932076 RU2Ma_IGO_06937_11_S2_L001
GSM4932077 RU2Ma_IGO_06937_11_S2_L002
GSM4932078 RU2Mb_IGO_06937_12_S4_L001
BioProject PRJNA680347
SRA SRP293864

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Supplementary file Size Download File type/resource
GSE162040_all.count.txt.gz 2.0 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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