DNA extraction from amoebal isolates and genotype determination of Acanthamoeba from tap water in Latvia

Gavarāne, Inese; Trofimova, Jūlija; Mališevs, Artjoms; Valciņa, Olga; Kirjušina, Muza; Rubeniņa, Ilze; Bērziņš, Aivars

doi:10.1007/s00436-018-5997-1

Short Communication
Published: 05 July 2018

DNA extraction from amoebal isolates and genotype determination of Acanthamoeba from tap water in Latvia

Inese Gavarāne ORCID: orcid.org/0000-0003-4927-0776^1,2^na1,
Jūlija Trofimova¹^na1,
Artjoms Mališevs¹,
Olga Valciņa¹,
Muza Kirjušina^1,2,
Ilze Rubeniņa^1,2 &
Aivars Bērziņš¹

Parasitology Research volume 117, pages 3299–3303 (2018)Cite this article

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Abstract

Acanthamoeba are free-living amoebae found in various ecological environments, and they are major microbial predators. Some Acanthamoeba species can cause keratitis, granulomatous amoebic encephalitis, and infections of the organs. This is the first study in Latvia describing Acanthamoeba detection by molecular techniques and genotyping using tap water from different sources. An 18S rRNA gene investigation of the 20 Acanthamoeba isolates suggested that 19 belonged to the hazardous T4 genotype and one sample was T12. The results indicate that tap water in Latvia may be a source of Acanthamoeba that is potentially pathogenic to humans. All obtained sequences were submitted to the GenBank database under the following accession numbers: MG386295–MG386314.

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References

Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215(3):403–410. https://doi.org/10.1016/S0022-2836(05)80360-2
Article PubMed CAS Google Scholar
Booton GC, Visvesvara GS, Byers T, Kelly DJ, Fuerst PA (2005) Identification and distribution of Acanthamoeba species genotypes associated with nonkeratitis infections. J Clin Microbiol 43(4):1689–1169. https://doi.org/10.1128/JCM.43.4.1689-1693.2005
Article PubMed PubMed Central CAS Google Scholar
Buse HY, Lu J, Struewing IT, Ashbolt NJ (2013) Eukaryotic diversity in premise drinking water using 18S rDNA sequencing: implications for health risks. Environ Sci Pollut Res Int 20(9):6351–6366. https://doi.org/10.1007/s11356-013-1646-5
Article PubMed CAS Google Scholar
Corsaro D, Walochnik J, Köhsler M, Rott MB (2015) Acanthamoeba misidentification and multiple labels: redefining genotypes T16, T19, and T20 and proposal for Acanthamoeba micheli sp. nov. (genotype T19). Parasitol Res 114(7):2481–2490. https://doi.org/10.1007/s00436-015-4445-8
Article PubMed Google Scholar
Corsaro D, Köhsler M, Montalbano Di Filippo M, Venditti D, Monno R, Di Cave D, Berrilli F, Walochnik J (2017) Update on Acanthamoeba jacobsi genotype T15, including full-length 18S rDNA molecular phylogeny. Parasitol Res 116(4):1273–1284. https://doi.org/10.1007/s00436-017-5406-1
Article PubMed Google Scholar
Durham KA (2012) Molecular studies of the pathogenic free-living amoeba, Acanthamoeba. PhD Thesis, University of Leicester, Leicester, United Kingdom
Gianinazzi C, Schild M, Zumkehr B, Wüthrich F, Nüesch I, Ryter R, Schürch N, Gottstein B, Müller N (2010) Screening of Swiss hot spring resorts for potentially pathogenic free-living amoebae. Exp Parasitol 126(1):45–53. https://doi.org/10.1016/j.exppara.2009.12.008
Article PubMed Google Scholar
Kao PM, Chou MY, Tao CW, Huang WC, Hsu BM, Shen SM, Fan CW, Chiu YC (2013) Diversity and seasonal impact of Acanthamoeba species in a subtropical rivershed. Biomed Res Int 2013(ID405794:8. https://doi.org/10.1155/2013/405794
Article Google Scholar
Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30(4):772–780. https://doi.org/10.1093/molbev/mst010
Article PubMed PubMed Central CAS Google Scholar
Khan NA (2006) Acanthamoeba: biology and increasing importance in human health. FEMS Microbiol Rev 30(4):564–595. https://doi.org/10.1111/j.1574-6976.2006.00023.x
Article PubMed CAS Google Scholar
Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870–1874. https://doi.org/10.1093/molbev/msw054
Article CAS Google Scholar
Marciano-Cabral F, Jamerson M, Kaneshiro ES (2010) Free-living amoebae, Legionella and Mycobacterium in tap water supplied by a municipal drinking water utility in the USA. J Water Health 8(1):71–82. https://doi.org/10.2166/wh.2009.129
Article PubMed CAS Google Scholar
Matsui T, Maeda T, Kusakabe S, Arita H, Yagita K, Morii E, Kanakura Y (2018) A case report of granulomatous amoebic encephalitis by Group 1 Acanthamoeba genotype T18 diagnosed by the combination of morphological examination and genetic analysis. Diagn Pathol 13(1):27. https://doi.org/10.1186/s13000-018-0706-z
Article PubMed PubMed Central Google Scholar
Moura H, Wallace S, Visvesvara GS (1992) Acanthamoeba healyi n. sp. and the isoenzyme and immunoblot profiles of Acanthamoeba spp., groups 1 and 3. J Protozool 39(5):573–583. https://doi.org/10.1111/j.1550-7408.1992.tb04853.x
Article PubMed CAS Google Scholar
Mukherjee C, Graham CG, Lohia A (2008) Entamoeba shows reversible variation in ploidy under different growth conditions and between life cycle phases. PLoS Negl Trop Dis 2(8):e281. https://doi.org/10.1371/journal.pntd.0000281
Article PubMed PubMed Central CAS Google Scholar
Page FC (1976) A revised classification of the Gymnamoebia (Protozoa: Sarcodina). Zool J Linnean Soc 58:61–77
Article Google Scholar
Page FC (1988) A new key to freshwater and soil Gymnamoebae: with instructions for culture. Freshwater biological association scientific publications, Ambleside, Cambria, UK 92–97
Pussard M, Pons R (1977) Morphologie de la paroi kystique et taxonomie du genre Acanthamoeba (Protozoa, Amoebida). Protistologica 13:557–610
Google Scholar
Schroeder JM, Booton GC, Hay J, Niszl I, Seal DV, Markus MB, Fuerst P, Byers TJ (2001) Use of subgenic 18S ribosomal DNA PCR and sequencing for genus and genotype identification of Acanthamoebae from humans with keratitis and from sewage sludge. J Clin Microbiol 39(5):1903–1911. https://doi.org/10.1128/JCM.39.5.1903-1911.2001
Article PubMed PubMed Central CAS Google Scholar
Shoff ME, Rogerson A, Kessler K, Schatz S, Seal V (2008) Prevalence of Acanthamoeba and other naked amoebae in South Florida domestic water. J Water Health 6(1):99–104. https://doi.org/10.2166/wh.2007.014
Article PubMed CAS Google Scholar
Shuster FL, Visvesvara GS (2004) Free-living amoebae as opportunistic and non-opportunistic pathogens of humans and animals. Int J Parasitol 34(9):1001–1027. https://doi.org/10.1016/j.ijpara.2004.06.004
Article Google Scholar
Stapleton F, Keay LJ, Sanfilippo PG, Katiyar S, Edwards KP, Naduvilath T (2007) Relationship between climate, disease severity, and causative organism for contact lens-associated microbial keratitis in Australia. Am J Ophthalmol 144(5):690–698. https://doi.org/10.1016/j.ajo.2007.06.037
Article PubMed Google Scholar
Trabelsi H, Dendana F, Sellami A, Sellami H, Cheikhrouhou F, Neji S, Makni F, Ayadi A (2012) Pathogenic free-living amoebae: epidemiology and clinical review. Pathol Biol 60:399–405. https://doi.org/10.1016/j.patbio.2012.03.002
Article CAS PubMed Google Scholar
Walochnik J, Scheikl U, Haller-Schober E (2015) Twenty years of Acanthamoeba diagnostics in Austria. J Eukaryot Microbiol 62(1):3–11. https://doi.org/10.1111/jeu.12149
Article PubMed Google Scholar
Yu HS, Hwang MY, Kim TO, Yun HC, Kim TH, Kong HH, Chung DI (1999) Phylogenetic relationships among Acanthamoeba spp. based on PCR-RFLP analyses of mitochondrial small subunit rRNA gene. Korean J Parasitol 37(3):181–188. https://doi.org/10.3347/kjp.1999.37.3.181
Article PubMed PubMed Central CAS Google Scholar

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Funding

This study was funded by National Research Programme No. 7, Agricultural Resources for Sustainable Production of Qualitative and Healthy Foods in Latvia project No. 5 “Resistance of microorganisms and other biological and chemical risks: research procedure development and application in the food chain.”

Author information

Inese Gavarāne and Jūlija Trofimova contributed equally to this work.

Affiliations

Institute of Food Safety, Animal Health and Environment BIOR, Lejupes Street 3, Riga, LV-1076, Latvia
Inese Gavarāne, Jūlija Trofimova, Artjoms Mališevs, Olga Valciņa, Muza Kirjušina, Ilze Rubeniņa & Aivars Bērziņš
Institute of Life Sciences and Technology, Daugavpils University, Parādes Street 1A, Daugavpils, LV-5401, Latvia
Inese Gavarāne, Muza Kirjušina & Ilze Rubeniņa

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Inese Gavarāne
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Jūlija Trofimova
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Artjoms Mališevs
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Olga Valciņa
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Muza Kirjušina
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Ilze Rubeniņa
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Aivars Bērziņš
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Correspondence to Inese Gavarāne.

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Gavarāne, I., Trofimova, J., Mališevs, A. et al. DNA extraction from amoebal isolates and genotype determination of Acanthamoeba from tap water in Latvia. Parasitol Res 117, 3299–3303 (2018). https://doi.org/10.1007/s00436-018-5997-1

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Received: 28 February 2018
Accepted: 29 June 2018
Published: 05 July 2018
Issue Date: October 2018
DOI: https://doi.org/10.1007/s00436-018-5997-1

Keywords

Acanthamoeba
Tap water
18S rDNA
Latvia