High frequency of alternative splicing of human genes participating in the HIV-1 life cycle: a model using TSG101, betaTrCP, PPIA, INI1, NAF1, and PML.

Details

Serval ID
serval:BIB_17E9989AF012
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
High frequency of alternative splicing of human genes participating in the HIV-1 life cycle: a model using TSG101, betaTrCP, PPIA, INI1, NAF1, and PML.
Journal
Journal of Acquired Immune Deficiency Syndromes
Author(s)
Favre M., Butticaz C., Stevenson B., Jongeneel C.V., Telenti A.
ISSN
1525-4135[print], 1525-4135[linking]
Publication state
Published
Issued date
2003
Volume
34
Number
2
Pages
127-133
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: ppublish
Abstract
Alternative splicing may generate splice forms with different biologic roles or missing protein domains implicated in the interaction with HIV-1. To address this issue, 6 human genes were investigated-tumor suppressor gene 101 (TSG101), beta-transducin repeats containing protein (betaTrCP), peptidyl-proly cis-trans isomerase, cyclophilin A (PPIA), integrase interactor 1 protein (INI1), Nef-associated factor 1 (NAF1), and promyelacytic leukemia (PML)-involved in the viral life cycle and HIV-1 pathogenesis. All 6 genes presented alternative splicing, and a combined bioinformatic and reverse transcription polymerase chain reaction (RT-PCR) analysis identified 27 new variants for a total of 53 splice forms (an average of 9 variants per gene). The predicted frequency of the various splice forms based on expressed sequence tags (EST) analysis corresponded to the semiquantitative findings on RT-PCR analysis for the cell culture systems and for native CD4 cells investigated. Interindividual variation in the frequencies of various splice forms in CD4 T cells from blood donors was observed for INI1. Cell type-specific variation of splice pattern was observed for NAF1. Eight splice forms lacked or modified motifs implicated in the interaction with HIV-1, underscoring the potential interest of assessing alternative splicing when investigating viral cell biology and pathogenesis.
Keywords
Alternative Splicing, Base Sequence, Chromosomal Proteins, Non-Histone, Computational Biology, Cyclophilin A/genetics, DNA-Binding Proteins/genetics, Endosomal Sorting Complexes Required for Transport, GTP-Binding Proteins/genetics, Gene Frequency, HIV-1/physiology, Humans, Molecular Sequence Data, Neoplasm Proteins/genetics, Nuclear Proteins, Reverse Transcriptase Polymerase Chain Reaction, Transcription Factors/genetics, Tumor Suppressor Proteins, beta-Transducin Repeat-Containing Proteins
Pubmed
Web of science
Create date
24/01/2008 15:39
Last modification date
20/08/2019 12:48
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