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Members of Ectocarpus siliculosus F-box Family Are Subjected to Differential Selective Forces
Niaz Mahmood1, Mahdi Muhammad Moosa1,3, S. Abdul Matin2 and Haseena Khan1,*
1Molecular Biology Laboratory, Department of Biochemistry and Molecular Biology, University of Dhaka, Ramna, Dhaka 1000, Bangladesh
2DataSoft Systems Bangladesh Limited, Monipuripara, Dhaka 1215, Bangladesh
3Current address: Graduate Program in Biological Sciences, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
*Corresponding author
  Received : January 11, 2012
  Accepted : February 06, 2012
  Published : February 07, 2012
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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Synopsis

Background: The F-box proteins represent one of the largest families of proteins in eukaryotes. Apart from being a component of the ubiquitin (Ub)/26 S proteasome pathways, their regulatory roles in other cellular and developmental pathways have also been reported. One interesting feature of the genes encoding the proteins of this particular family is their variable selection patterns across different lineages. This resulted in the presence of lineage specific F-box proteins across different species.
Findings: In this study, 48 non-redundant F-box proteins in E. siliculosus have been identified by a homology based approach and classified into three classes based on their variable C-terminal domains. A greater number of the F-box proteins have domains similar to the ones identified in other species. On the other hand, when the proteins having unknown or no C-terminal domain (as predicted by InterProScan) were analyzed, it was found that some of them have the polyglutamine repeats. To gain evolutionary insights on the genes encoding the F-box proteins, their selection patterns were analyzed and a strong positive selection was observed which indicated the adaptation potential of the members of this family. Moreover, four lineage specific F-box genes were found in E. siliculosus with no identified homolog in any other species.
Conclusion: This study describes a genome wide in silico analysis of the F-box proteins in E. siliculosus which sheds light on their evolutionary patterns. The results presented in this study provide a strong foundation to select candidate sequences for future functional analysis.

Keyword: Ectocarpus siliculosus, heterokont lineage, brown algae , F-box, ubiquitinylation, evolutionary analyses
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