Parasitology Research

, Volume 112, Issue 11, pp 3807–3816 | Cite as

Genotyping and phylogenetic analysis of Acanthamoeba isolates associated with keratitis

  • Arnaud Risler
  • Bénédicte Coupat-Goutaland
  • Michel Pélandakis
Original Paper

Abstract

We examined a partial SSU-rDNA sequence from 20 Acanthamoeba isolates associated with keratitis infections. The phylogenetic tree inferred from this partial sequence allowed to assign isolates to genotypes. Among the 20 isolates examined, 16 were found to be of the T4 genotype, 2 were T3, 1 was a T5, and 1 was a T2, confirming the predominance of T4 in infections. However, the study highlighted other genotypes more rarely associated with infections, particularly the T2 genotype. Our study is the second one to detect that this genotype is associated with keratitis. Additionally, the phylogenetic analyses showed five main emerging clusters, T4/T3/T11, T2/T6, T10/T12/T14, T13/T16, and T7/T8/T9/T17, regularly obtained whichever method was used. A similar branching pattern was found when the full rDNA sequence was investigated.

Supplementary material

436_2013_3572_MOESM1_ESM.pdf (139 kb)
Supplementary data 1The 73 Acanthamoeba T4 sub-genotypes based on the alignment of the variable region of DF3. Gaps are represented by dashes. (PDF 138 kb)
436_2013_3572_MOESM2_ESM.docx (17 kb)
Supplementary data 2Table 2 (b) Sequence AF019051 is associated in GenBank with strain “OX-1; CCAP:1501/3c”. However, two different sequences were linked to this strain although they belonged to the T2 genotype: the full sequence AF019051 (Stothard et al. 1998) and the partial sequence AF239298 deposited by Khan et al. (2002). (c) AF019064 and AY026242 sequences correspond to the strains ATCC 30137 and 30901, respectively. However, they are both referenced in the ATCC as “A. astronyxis (Ray & Hayes) Page.”; the strain ATCC30901 (T9) was identified as strain “Res20” (cf. ATCC website) to avoid any confusion. (d) In Stothard et al. (1998), the strain associated with the accession number U07417 is A. rhysodes Singh ATCC 30973 whereas the correct accession number of A. rhysodes Singh is AY351644. (DOCX 16 kb)

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Copyright information

© Springer-Verlag Berlin Heidelberg 2013

Authors and Affiliations

  • Arnaud Risler
    • 1
  • Bénédicte Coupat-Goutaland
    • 1
  • Michel Pélandakis
    • 1
  1. 1.Université de LyonCNRS UMR 5240, Université Lyon 1VilleurbanneFrance

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