Document Detail

Identification of new and unusual rev and nef transcripts expressed by an HIV type 1 primary isolate.
MedLine Citation:
PMID:  23540799     Owner:  NLM     Status:  MEDLINE    
We analyzed RNA splice site usage in three HIV-1 subtype B primary isolates through reverse transcriptase polymerase chain reaction (RT-PCR) amplification of spliced RNAs using a fluorescently labeled primer, with computerized size determination and quantification of PCR products, which were also identified by clone sequencing. In one isolate, P2149-3, unusual and unreported spliced transcripts were detected. This isolate preferentially used for rev RNA generation a 3' splice site (3'ss) located five nucleotides upstream of A4a, previously identified only in a T cell line-adapted virus and in a group O isolate, and designated A4d. P2149-3 also used an unreported 3'ss for rev RNA generation, designated A4h, located 20 nucleotides upstream of 3'ss A4c. Additionally, unusual nef RNAs using 3'ss A5a and A7a and with exon composition 1.3.7 were identified. The identification of several unusual and unreported spliced transcripts in an HIV-1 primary isolate suggests a greater diversity of splice site usage in HIV-1 than previously appreciated.
Yolanda Vega; Elena Delgado; Cristina Carrera; Paloma Nebreda; Aurora Fernández-García; María Teresa Cuevas; Lucía Pérez-Álvarez; Michael M Thomson
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2013-05-08
Journal Detail:
Title:  AIDS research and human retroviruses     Volume:  29     ISSN:  1931-8405     ISO Abbreviation:  AIDS Res. Hum. Retroviruses     Publication Date:  2013 Jul 
Date Detail:
Created Date:  2013-06-14     Completed Date:  2013-09-10     Revised Date:  2014-07-01    
Medline Journal Info:
Nlm Unique ID:  8709376     Medline TA:  AIDS Res Hum Retroviruses     Country:  United States    
Other Details:
Languages:  eng     Pagination:  1075-8     Citation Subset:  IM; X    
Data Bank Information
Bank Name/Acc. No.:
GENBANK/JF808039;  JF808040;  JF808041;  JF808042;  JF808043;  JF808044;  JF808045;  JF808046;  JF808047;  JF808048;  JF808049;  JF808050;  JF808051;  JF808052;  JF808053;  JF808054;  JF808055;  JF808056;  JF808057;  JF808058;  JF808059;  JF808060;  JF808061;  JF808062;  JF808063;  JF808064;  JF808065;  JF808066;  JF808067;  JF808068;  JF808069;  JF808070;  JF808071;  JF808072;  JF808073;  JF808074;  JF808075;  JF808076;  JF808077;  JF808078
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MeSH Terms
Base Sequence
Genes, nef*
Genes, rev*
Genetic Variation
HIV-1 / classification,  genetics*,  isolation & purification
Leukocytes, Mononuclear / virology
Molecular Sequence Data
RNA Splice Sites / genetics*
RNA, Viral / genetics*
Reg. No./Substance:
0/RNA Splice Sites; 0/RNA, Viral

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine

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