Recombination structure and genetic relatedness among members of the family Bromoviridae based on their RNAs 1 and 2 sequence analyses

In determining putative recombination events and their evolution rates in the RNAs 1 and 2 of currently the known members of the family Bromoviridae, a detailed study comprising 107 accessions retrieved from the international databases, has been carried out by using RECCO and RDP v3.31β algorithms....

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Bibliographic Details
Published in:Virus genes 2009-06, Vol.38 (3), p.435-444
Main Author: Boulila, Moncef
Format: Article
Language:English
Subjects:
Alfalfa mosaic virus
Alfamovirus
Biomedical and Life Sciences
Biomedicine
Bromoviridae
Bromoviridae - classification
Bromoviridae - genetics
Cluster Analysis
Computational Biology - methods
Ilarvirus
Medical Microbiology
Olea
Pelargonium
Phylogeny
Plant Sciences
Plants - virology
Recombination, Genetic
RNA, Viral - genetics
Sequence Analysis, DNA
Sequence Homology, Nucleic Acid
Virology
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Summary:In determining putative recombination events and their evolution rates in the RNAs 1 and 2 of currently the known members of the family Bromoviridae, a detailed study comprising 107 accessions retrieved from the international databases, has been carried out by using RECCO and RDP v3.31β algorithms. These programs allowed the detection of potential recombination sites in all the five virus genera composing the family Bromoviridae with various degrees of consistency. The RNAs 1 and 2 showed inferred phylogenies fully congruent and clearly delineated five clusters representing the five studied virus genera. In this respect, we proposed to classify the Ilarviruses in three distinct subgroups instead of 10 as mentioned in several reports of the International Committee on Taxonomy of Viruses where its suggestions were based on antigenic differences. Moreover, we confirmed that Alfalfa mosaic virus should be considered as a component of the Ilarvirus genus instead of being the unique representative of Alfamovirus genus. In addition, Pelargonium zonate spot and Olive latent 2 viruses fully deserve their affiliation to the family Bromoviridae.
ISSN:0920-8569
1572-994X
DOI:10.1007/s11262-009-0340-7