Evidence of multiple recombination events between two RNA sequence variants within a Citrus tristeza virus isolate.
Analysis of sequence variants of a natural Citrus tristeza virus (CTV) isolate (SY568) revealed that its population was composed of three sequence types: (I) the most frequent type had > or =97.9% nucleotide identity with the sequence predominant in severe CTV isolates from different origins; (II) a second variant, genetically close to the major component of several mild isolates, had < or =85% identity with the first; and (III) several variants (less than 4%) resulted from homologous recombination at one or more sites between sequences I and II. Recombination sites had an AU-rich stretch of 8-89 nucleotides shared by both parental sequences, flanked by GC- and AU-rich regions upstream and downstream, respectively. This context has been suggested as a hot-spot for homologous recombination in other RNA viruses.
Vives
María C
MC
Instituto Valenciano de Investigaciones Agrarias, Ctra. Moncada-Náquera Km. 4.5, 46113 Moncada, Valencia, Spain.
Rubio
Luis
L
Sambade
Adrián
A
Mirkov
T Erik
TE
Moreno
Pedro
P
Guerri
José
J
D002957:Citrus / Q000821:virology; D014644:Genetic Variation; D016679:Genome, Viral; D008969:Molecular Sequence Data; D018807:Polymorphism, Single-Stranded Conformational; D012330:RNA, Double-Stranded / Q000235:genetics; D012367:RNA, Viral / Q000032:analysis / Q000235:genetics*; D011995:Recombination, Genetic; D017422:Sequence Analysis, DNA
D012330:RNA, Double-Stranded; D012367:RNA, Viral