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Comparative evaluation of Giardia duodenalis sequence data

Published online by Cambridge University Press:  19 June 2007

C. M. WIELINGA  and
R. C. A. THOMPSON
C. M. WIELINGA
Affiliation:
WHO Collaborating Centre for the Molecular Epidemiology of Parasitic Infections and the State Agricultural Biotechnology Centre, School of Veterinary and Biomedical Sciences, Murdoch University, South Street, Murdoch, Western Australia 6150, Australia
R. C. A. THOMPSON*
Affiliation:
WHO Collaborating Centre for the Molecular Epidemiology of Parasitic Infections and the State Agricultural Biotechnology Centre, School of Veterinary and Biomedical Sciences, Murdoch University, South Street, Murdoch, Western Australia 6150, Australia
*
*Corresponding author. Tel: +61 08 9360 2466. Fax: +61 08 9310 4144. E-mail: [email protected]
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Summary

A review of the Giardia duodenalis sequences currently available on the GenBank database was completed to compare the different genotyping loci (small subunit ribosomal DNA, glutamate dehydrogenase, triose-phosphate isomerase and beta giardin) for their ability to discern assemblage and subassemblage groups and infer phylogenetic relationships. In total, 405 Giardia duodenalis sequences were sorted and aligned to examine the substitutions within and between the assemblages – A and B (zoonotic), C and D (dogs), E (livestock), F (cats) and G (rodents). It was found that all of the genes could reproducibly group isolates into their assemblages and that the AI/AII subassemblage groups were robust and identifiable at all loci. However, the assemblage B subgroups were not reproducible at half of the loci (small subunit ribosomal DNA and beta giardin), not due to their conserved nature, but because there was insufficient sequence data of reference isolates available for comparison. It is anticipated that further investigation of these loci may reveal the core subgroups of this medically important and zoonotic assemblage and also those of others. The closer, more recent, phylogenetic relationships amongst the assemblages appear to be resolved; however, more sequence data from the current loci, and possibly new loci, will be required to establish the remaining relationships.

Keywords

GiardiagenotypingSSU rDNAgdhtpiβ giardinef1αconsensus sequencesphylogenetics
Type
Research Article
Information
Parasitology , Volume 134 , Issue 12 , November 2007 , pp. 1795 - 1821
Copyright
Copyright © Cambridge University Press 2007

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