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. 2014 Apr 5;11:66. doi: 10.1186/1743-422X-11-66

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Copyright © 2014 Silva et al.; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Maximum likelihood (ML) phylogenetic relationships of ToRMV-[BR:Ub1:96], ToSRV-[BR:PG1:Pep:03] and some closely related begomoviruses. A. ML tree based on the non-recombinant region between ToRMV and ToSRV in the DNA-A. B. ML tree based on the recombinant region between the two viruses in the DNA-A. C. ML tree based on full-length DNA-B sequences. Phylogenetic reconstruction was performed using PAUP* 4.0 [58] under the evolutionary models TVM + I + Γ (non-recombinant block), GTR + I + Γ (recombinant block), TIM + I + Γ (DNA-B). Supports for the nodes are presented as filled circles (bootstrap values from 95 to 100), semi-filled circles (bootstrap values from 85 to 94) and open circles (boostrap values from 70 to 84). ToRMV and ToSRV are indicated in blue and red, respectively. ToCMoV is indicated in green.