Transcriptome sequencing and development of an expression microarray platform for liver infection in adenovirus type 5-infected Syrian golden hamsters

Virology
Baoling YingWilliam S M Wold

Abstract

The Syrian golden hamster is an attractive animal for research on infectious diseases and other diseases. We report here the sequencing, assembly, and annotation of the Syrian hamster transcriptome. We include transcripts from ten pooled tissues from a naïve hamster and one stimulated with lipopolysaccharide. Our data set identified 42,707 non-redundant transcripts, representing 34,191 unique genes. Based on the transcriptome data, we generated a custom microarray and used this new platform to investigate the transcriptional response in the Syrian hamster liver following intravenous adenovirus type 5 (Ad5) infection. We found that Ad5 infection caused a massive change in regulation of liver transcripts, with robust up-regulation of genes involved in the antiviral response, indicating that the innate immune response functions in the host defense against Ad5 infection of the liver. The data and novel platforms developed in this study will facilitate further development of this important animal model.

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Citations

May 18, 2016·Journal of Molecular Biology·Logan BanadygaHideki Ebihara
Dec 8, 2019·FEBS Letters·Hongxing ZhaoUlf Pettersson
Mar 28, 2019·FEMS Microbiology Reviews·William S M WoldKaroly Toth
Feb 20, 2018·ACS Infectious Diseases·Logan BanadygaXiangguo Qiu

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Datasets Mentioned

BETA
PRJNA285471

Methods Mentioned

BETA
PCR
RNA-Seq
aminoacylation
flow cytometry
immunoprecipitation
RNAseq
FACS

Software Mentioned

BLASTP
BLASTN
Primer
custom scripts
Trinity
InterProScan
ESTscan

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