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Journal of Virology, February 2007, p. 1746-1761, Vol. 81, No. 4
0022-538X/07/$08.00+0     doi:10.1128/JVI.01390-06
Copyright © 2007, American Society for Microbiology. All Rights Reserved.

Reassortment and Concerted Evolution in Banana Bunchy Top Virus Genomes{triangledown}

Jer-Ming Hu,1* Hui-Chuan Fu,2 Chia-Hua Lin,2 Hong-Ji Su,2 and Hsin-Hung Yeh2*

Institute of Ecology and Evolutionary Biology, National Taiwan University,1 Department of Plant Pathology and Microbiology, National Taiwan University, Taipei 106, Taiwan2

Received 3 July 2006/ Accepted 16 November 2006

The nanovirus Banana bunchy top virus (BBTV) has six standard components in its genome and occasionally contains components encoding additional Rep (replication initiation protein) genes. Phylogenetic network analysis of coding sequences of DNA 1 and 3 confirmed the two major groups of BBTV, a Pacific and an Asian group, but show evidence of web-like phylogenies for some genes. Phylogenetic analysis of 102 major common regions (CR-Ms) from all six components showed a possible concerted evolution within the Pacific group, which is likely due to recombination in this region. The CR-M of additional Rep genes is close to that of DNA 1 and 2. Comparison of tree topologies constructed with DNA 1 and DNA 3 coding sequences of 14 BBTV isolates showed distinct phylogenetic histories based on Kishino-Hasegawa and Shimodaira-Hasegawa tests. The results of principal component analysis of amino acid and codon usages indicate that DNA 1 and 3 have a codon bias different from that of all other genes of nanoviruses, including all currently known additional Rep genes of BBTV, which suggests a possible ancient genome reassortment event between distinctive nanoviruses.

* Corresponding author. Mailing address for Jer-Ming Hu: Institute of Ecology and Evolutionary Biology, National Taiwan University, 1, Sec. 4, Roosevelt Road, Taipei 106, Taiwan. Phone: 886 2 3366 2472. Fax: 886 2 2368 6750. E-mail: jmhu{at}ntu.edu.tw. Mailing address for Hsin-Hung Yeh: Department of Plant Pathology and Microbiology, National Taiwan University, 1, Sec. 4, Roosevelt Road Taipei 106, Taiwan. Phone: 886 2 3366 4601. Fax: 886 2 2363 6490. E-mail: hyeh{at}ntu.edu.tw.

{triangledown} Published ahead of print on 29 November 2006.

Journal of Virology, February 2007, p. 1746-1761, Vol. 81, No. 4
0022-538X/07/$08.00+0     doi:10.1128/JVI.01390-06
Copyright © 2007, American Society for Microbiology. All Rights Reserved.



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