Recombination analysis and structure prediction show correlation between breakpoint clusters and RNA hairpins in the pol gene of human immunodeficiency virus type 1 unique recombinant forms
Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
Standard
Recombination analysis and structure prediction show correlation between breakpoint clusters and RNA hairpins in the pol gene of human immunodeficiency virus type 1 unique recombinant forms. / Galli, Andrea; Lai, Alessia; Corvasce, Stefano; Saladini, Francesco; Riva, Chiara; Dehò, Lorenzo; Caramma, Ilaria; Franzetti, Marco; Romano, Laura; Galli, Massimo; Zazzi, Maurizio; Balotta, Claudia.
I: Journal of General Virology, Bind 89, Nr. 12, 2008, s. 3119-3125.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
Harvard
APA
Vancouver
Author
Bibtex
}
RIS
TY - JOUR
T1 - Recombination analysis and structure prediction show correlation between breakpoint clusters and RNA hairpins in the pol gene of human immunodeficiency virus type 1 unique recombinant forms
AU - Galli, Andrea
AU - Lai, Alessia
AU - Corvasce, Stefano
AU - Saladini, Francesco
AU - Riva, Chiara
AU - Dehò, Lorenzo
AU - Caramma, Ilaria
AU - Franzetti, Marco
AU - Romano, Laura
AU - Galli, Massimo
AU - Zazzi, Maurizio
AU - Balotta, Claudia
PY - 2008
Y1 - 2008
N2 - Recombination is recognized as a primary force in human immunodeficiency virus type 1 (HIV-1) evolution, increasing viral diversity through reshuffling of genomic portions. The strand-switching activity of reverse transcriptase is required to complete HIV-1 replication and can occur randomly throughout the genome, leading to viral recombination. Some recombination hotspots have been identified and found to correlate with RNA structure or sequence features. The aim of this study was to evaluate the presence of recombination hotspots in the pol gene of HIV-1 and to assess their correlation with the underlying RNA structure. Analysis of the recombination pattern and breakpoint distribution in a group of unique recombinant forms (URFs) detected two recombination hotspots in the pol region. Two stable and conserved hairpins were consistently predicted corresponding to the identified hotspots using six different RNA-folding algorithms on the URF parental strains. These findings suggest that such hairpins may play a role in the higher recombination rates detected at these positions.
AB - Recombination is recognized as a primary force in human immunodeficiency virus type 1 (HIV-1) evolution, increasing viral diversity through reshuffling of genomic portions. The strand-switching activity of reverse transcriptase is required to complete HIV-1 replication and can occur randomly throughout the genome, leading to viral recombination. Some recombination hotspots have been identified and found to correlate with RNA structure or sequence features. The aim of this study was to evaluate the presence of recombination hotspots in the pol gene of HIV-1 and to assess their correlation with the underlying RNA structure. Analysis of the recombination pattern and breakpoint distribution in a group of unique recombinant forms (URFs) detected two recombination hotspots in the pol region. Two stable and conserved hairpins were consistently predicted corresponding to the identified hotspots using six different RNA-folding algorithms on the URF parental strains. These findings suggest that such hairpins may play a role in the higher recombination rates detected at these positions.
UR - http://www.scopus.com/inward/record.url?scp=58149390387&partnerID=8YFLogxK
U2 - 10.1099/vir.0.2008/003418-0
DO - 10.1099/vir.0.2008/003418-0
M3 - Journal article
C2 - 19008401
AN - SCOPUS:58149390387
VL - 89
SP - 3119
EP - 3125
JO - Journal of General Virology
JF - Journal of General Virology
SN - 0022-1317
IS - 12
ER -
ID: 379292201