New oligonucleotide primers for P-typing of rotavirus strains: Strategies for typing previously untypeable strains

Mirjam Kühne Simmonds, George Armah, Richard Asmah, Indrani Banerjee, Susan Damanka, Mathew Esona, Jon R. Gentsch, James Gray, Carl Kirkwood, Nicola Page, Miren Iturriza-Go'Mara*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

127 Citations (Scopus)

Abstract

Background: The use of molecular methods for rotavirus characterisation provides increased sensitivity for typing, and allows the identification of putative reassortant strains. However, due to the constant accumulation of point mutations through genetic drift; and to the emergence of novel genotypes; and possibly zoonotic transmission and subsequent reassortment, the reagents and methods used for genotyping require close monitoring and updating. Objectives: To design and evaluate a new VP4 consensus oligonucleotide primer pair that provides increased sensitivity and allows typing of strains that were untypeable using available methods. Study design: A total of 489 rotavirus-positive faecal specimens from studies conducted between 1996 and 2006 were used for the evaluation of the new VP4 primers which was performed in the WHO Rotavirus Collaborating and Reference centres in the US, Australia, South Africa and the UK. Results: The new primer pair allowed P-typing of rotavirus strains and provided increased sensitivity, allowing typing of a significant number of strains that previously could not be P-typed. Conclusions: This study highlights the importance of a constant reconsideration of primer sequences employed for the molecular typing of rotaviruses.

Original languageEnglish
Pages (from-to)368-373
Number of pages6
JournalJournal of Clinical Virology
Volume42
Issue number4
DOIs
Publication statusPublished - Aug 2008

Bibliographical note

Copyright:
Copyright 2008 Elsevier B.V., All rights reserved.

Keywords

  • Genotyping
  • P-type
  • Rotavirus

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