Transcriptional profiling of the host cell response to feline immunodeficiency virus infection

被引:16
作者
Ertl, Reinhard [1 ]
Klein, Dieter [1 ]
机构
[1] Univ Vet Med Vienna, VetCore Facil Res, Vienna, Austria
来源
VIROLOGY JOURNAL | 2014年 / 11卷
关键词
Feline immunodeficiency virus; Host cell response; Virus-host interactions; Transcriptome sequencing; POLYMERASE-CHAIN-REACTION; GENE-EXPRESSION; HIV-1; VPR; TISSUE TRANSGLUTAMINASE; LOAD DETERMINATION; DENDRITIC CELLS; T-CELLS; RNA-SEQ; MACROPHAGES; CYCLE;
D O I
10.1186/1743-422X-11-52
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Background: Feline immunodeficiency virus (FIV) is a widespread pathogen of the domestic cat and an important animal model for human immunodeficiency virus (HIV) research. In contrast to HIV, only limited information is available on the transcriptional host cell response to FIV infections. This study aims to identify FIV-induced gene expression changes in feline T-cells during the early phase of the infection. Illumina RNA-sequencing (RNA-seq) was used identify differentially expressed genes (DEGs) at 24 h after FIV infection. Results: After removal of low-quality reads, the remaining sequencing data were mapped against the cat genome and the numbers of mapping reads were counted for each gene. Regulated genes were identified through the comparison of FIV and mock-infected data sets. After statistical analysis and the removal of genes with insufficient coverage, we detected a total of 69 significantly DEGs (44 up-and 25 down-regulated genes) upon FIV infection. The results obtained by RNA-seq were validated by reverse transcription qPCR analysis for 10 genes. Discussion and conclusion: Out of the most distinct DEGs identified in this study, several genes are already known to interact with HIV in humans, indicating comparable effects of both viruses on the host cell gene expression and furthermore, highlighting the importance of FIV as a model system for HIV. In addition, a set of new genes not previously linked to virus infections could be identified. The provided list of virus-induced genes may represent useful information for future studies focusing on the molecular mechanisms of virus-host interactions in FIV pathogenesis.
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相关论文
共 46 条
[1]   Genetic Characterization of HIV Type 1 Nef-Induced Vesicle Secretion [J].
Ali, Syed A. ;
Huang, Ming-Bo ;
Campbell, Patrick E. ;
Roth, William W. ;
Campbell, Tamika ;
Khan, Mahfuz ;
Newman, Gale ;
Villinger, Francois ;
Powell, Michael D. ;
Bond, Vincent C. .
AIDS RESEARCH AND HUMAN RETROVIRUSES, 2010, 26 (02) :173-192
[2]   Identification of cellular factors binding to acetylated HIV-1 integrase [J].
Allouch, Awatef ;
Cereseto, Anna .
AMINO ACIDS, 2011, 41 (05) :1137-1145
[3]   Induction of ''tissue'' transglutaminase in HIV pathogenesis: Evidence for high rate of apoptosis of CD4(+) T lymphocytes and accessory cells in lymphoid tissues [J].
Amendola, A ;
Gougeon, ML ;
Poccia, F ;
Bondurand, A ;
Fesus, L ;
Piacentini, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (20) :11057-11062
[4]   Tissue transglutaminase expression in HIV-Infected cells - An enzyme with an antiviral effect? [J].
Amendola, A ;
Rodolfo, C ;
Di Caro, A ;
Ciccosanti, F ;
Falasca, L ;
Piacentini, M .
HIV-ASSOCIATED CARDIOVASCULAR DISEASE: CLINICAL AND BIOLOGICAL INSIGHTS, 2001, 946 :108-120
[5]   Effect of HIV-1 Vpr on cell cycle regulators [J].
Amini, S ;
Khalili, K ;
Sawaya, BE .
DNA AND CELL BIOLOGY, 2004, 23 (04) :249-260
[6]   High-throughput DNA methylation datasets for evaluating false discovery rate methodologies [J].
Asomaning, N. ;
Archer, K. J. .
COMPUTATIONAL STATISTICS & DATA ANALYSIS, 2012, 56 (06) :1748-1756
[7]   STRUCTURE AND TRANSCRIPTION OF A HUMAN-GENE FOR H1 RNA, THE RNA COMPONENT OF HUMAN RNASE-P [J].
BAER, M ;
NILSEN, TW ;
COSTIGAN, C ;
ALTMAN, S .
NUCLEIC ACIDS RESEARCH, 1990, 18 (01) :97-103
[8]  
Baron BW, 1997, GENE CHROMOSOME CANC, V19, P14, DOI 10.1002/(SICI)1098-2264(199705)19:1<14::AID-GCC3>3.0.CO
[9]  
2-3
[10]   CONTROLLING THE FALSE DISCOVERY RATE - A PRACTICAL AND POWERFUL APPROACH TO MULTIPLE TESTING [J].
BENJAMINI, Y ;
HOCHBERG, Y .
JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY, 1995, 57 (01) :289-300