Evidence of recombination in the Banana bunchy top virus genome

► Sequences of DNA-U3 were analyzed for first time from BBTV population in Pakistan. ► Sequence divergence in DNA-U3 was higher compared to other genomic components. ► Higher variability seems due to be recombination in BBTV genomes. ► Recombination events were detected among and between the isolate...

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Published in:Infection, genetics and evolution genetics and evolution, 2011-08, Vol.11 (6), p.1293-1300
Main Authors: Hyder, Muhammad Zeeshan, Shah, Shahzad Hussain, Hameed, Shahid, Naqvi, Syed Muhammad Saqlan
Format: Article
Language:English
Subjects:
Babuvirus - genetics
Banana bunchy top virus
BBTV
Biological and medical sciences
DNA-U3
Epidemiology. Vaccinations
Evolution
Evolution, Molecular
General aspects
Genetic Variation
genome
Genome, Viral
Infectious diseases
Intergenomic recombination
Intragenomic recombination
Inverted Repeat Sequences - genetics
Medical sciences
Pakistan
Phylogeny
Plants - virology
Recombination, Genetic
sequence analysis
Sequence Analysis, DNA
single-stranded DNA
viruses
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Summary:► Sequences of DNA-U3 were analyzed for first time from BBTV population in Pakistan. ► Sequence divergence in DNA-U3 was higher compared to other genomic components. ► Higher variability seems due to be recombination in BBTV genomes. ► Recombination events were detected among and between the isolates of two sub-groups. ► A novel intragenomic recombination mechanism is playing role in BBTV evolution. Viruses serve as good model for evolutionary studies, owing to their short generation times and small genomes. Banana bunchy top virus (BBTV) is a significant subject being multicomponent circular single stranded DNA virus. BBTV belongs to family Nanoviridae and contains DNA-R, -U3, -S, -M, -C, and -N as integral genomic components. Evolutionary studies have shown genetic re-assortment of components among its isolates and revealed a concerted type evolution in non-coding regions of its genome. The DNA U3 having been shown as the most diverse component in our previous studies, was subjected to sequencing from some Pakistani isolates for the first time. Sequence analysis revealed intergenomic recombination in DNA-U3 among the isolates of two sub-groups and a very rare intragenomic recombination in Pakistani BBTV population. This indicates that like other evolutionary processes including intergenomic recombination, intragenomic recombination among the genomic components of the same isolate may also have a significant contribution in the evolution of BBTV genome. Intragenomic recombination therefore appears to be a unique way to generate genetic diversity in the multicomponent ssDNA viruses.
ISSN:1567-1348
1567-7257
DOI:10.1016/j.meegid.2011.04.015