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Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny

The identification and classification of strains of Acanthamoeba, a potentially pathogenic ubiquitous free-living amoeba, are largely based on the analysis of 18S rDNA sequences, currently delineating 23 genotypes, T1 to T23. In this study, the sequences of the ITS region, i.e., the 5.8S rDNA and th...

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Autor principal: Corsaro, Daniele
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9502406/
https://www.ncbi.nlm.nih.gov/pubmed/36144378
http://dx.doi.org/10.3390/microorganisms10091776
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author Corsaro, Daniele
author_facet Corsaro, Daniele
author_sort Corsaro, Daniele
collection PubMed
description The identification and classification of strains of Acanthamoeba, a potentially pathogenic ubiquitous free-living amoeba, are largely based on the analysis of 18S rDNA sequences, currently delineating 23 genotypes, T1 to T23. In this study, the sequences of the ITS region, i.e., the 5.8S rDNA and the two internal transcribed spacers (ITS-1 and ITS-2), and those of the large subunit (LSU) rDNA of Acanthamoeba were recovered from amoeba genomes; the sequences are available in GenBank. The complete ITS–LSU sequences could be obtained for 15 strains belonging to 7 distinct lineages (T4A, T4D, T4F, T4G, T2, T5, and T18), and the site of the hidden break producing the 26Sα and 26Sβ was identified. For the other lines, either the LSU is partial (T2/T6, T7) or the ITS is fragmentary (T7, T10, T22). It is noteworthy that a number of sequences assigned to fungi turned out to actually be Acanthamoeba, only some of which could be affiliated with known genotypes. Analysis of the obtained sequences indicates that both ITS and LSU are promising for diagnostic and phylogenetic purposes.
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spelling pubmed-95024062022-09-24 Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny Corsaro, Daniele Microorganisms Article The identification and classification of strains of Acanthamoeba, a potentially pathogenic ubiquitous free-living amoeba, are largely based on the analysis of 18S rDNA sequences, currently delineating 23 genotypes, T1 to T23. In this study, the sequences of the ITS region, i.e., the 5.8S rDNA and the two internal transcribed spacers (ITS-1 and ITS-2), and those of the large subunit (LSU) rDNA of Acanthamoeba were recovered from amoeba genomes; the sequences are available in GenBank. The complete ITS–LSU sequences could be obtained for 15 strains belonging to 7 distinct lineages (T4A, T4D, T4F, T4G, T2, T5, and T18), and the site of the hidden break producing the 26Sα and 26Sβ was identified. For the other lines, either the LSU is partial (T2/T6, T7) or the ITS is fragmentary (T7, T10, T22). It is noteworthy that a number of sequences assigned to fungi turned out to actually be Acanthamoeba, only some of which could be affiliated with known genotypes. Analysis of the obtained sequences indicates that both ITS and LSU are promising for diagnostic and phylogenetic purposes. MDPI 2022-09-03 /pmc/articles/PMC9502406/ /pubmed/36144378 http://dx.doi.org/10.3390/microorganisms10091776 Text en © 2022 by the author. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Corsaro, Daniele
Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny
title Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny
title_full Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny
title_fullStr Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny
title_full_unstemmed Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny
title_short Exploring LSU and ITS rDNA Sequences for Acanthamoeba Identification and Phylogeny
title_sort exploring lsu and its rdna sequences for acanthamoeba identification and phylogeny
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9502406/
https://www.ncbi.nlm.nih.gov/pubmed/36144378
http://dx.doi.org/10.3390/microorganisms10091776
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