Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18

Toxoplasma gondii consists of three genotypes, namely genotype I, II and III. Based on its virulence, T. gondii can be divided into virulent and avirulent strains. This study intends to evaluate an alternative method for predicting T. gondii virulence using hierarchical cluster analysis based on com...

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Autores principales: Subekti, Didik T, Ekawasti, Fitrine, Desem, Muhammad Ibrahim, Azmi, Zul
Formato: Online Artículo Texto
Lenguaje:English
Publicado: The Korean Society of Veterinary Science 2021
Materias:
Rapid Communication
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8636655/
https://www.ncbi.nlm.nih.gov/pubmed/34854270
http://dx.doi.org/10.4142/jvs.2021.22.e88
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author Subekti, Didik T
Ekawasti, Fitrine
Desem, Muhammad Ibrahim
Azmi, Zul
author_facet Subekti, Didik T
Ekawasti, Fitrine
Desem, Muhammad Ibrahim
Azmi, Zul
author_sort Subekti, Didik T
collection PubMed
description Toxoplasma gondii consists of three genotypes, namely genotype I, II and III. Based on its virulence, T. gondii can be divided into virulent and avirulent strains. This study intends to evaluate an alternative method for predicting T. gondii virulence using hierarchical cluster analysis based on complete coding sequences (CDS) of sag1, gra7 and rop18 genes. Dendrogram was constructed using UPGMA with a Kimura 80 nucleotide distance measurement. The results showed that the prediction errors of T. gondii virulence using sag1, gra7 and rop18 were 7.41%, 6.89% and 9.1%, respectively. Analysis based on CDS of gra7 and rop18 was able to differentiate avirulent strains into genotypes II and III, whereas sag1 failed to differentiate.
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spelling pubmed-86366552021-12-13 Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18 Subekti, Didik T Ekawasti, Fitrine Desem, Muhammad Ibrahim Azmi, Zul J Vet Sci Rapid Communication Toxoplasma gondii consists of three genotypes, namely genotype I, II and III. Based on its virulence, T. gondii can be divided into virulent and avirulent strains. This study intends to evaluate an alternative method for predicting T. gondii virulence using hierarchical cluster analysis based on complete coding sequences (CDS) of sag1, gra7 and rop18 genes. Dendrogram was constructed using UPGMA with a Kimura 80 nucleotide distance measurement. The results showed that the prediction errors of T. gondii virulence using sag1, gra7 and rop18 were 7.41%, 6.89% and 9.1%, respectively. Analysis based on CDS of gra7 and rop18 was able to differentiate avirulent strains into genotypes II and III, whereas sag1 failed to differentiate. The Korean Society of Veterinary Science 2021-11 2021-10-01 /pmc/articles/PMC8636655/ /pubmed/34854270 http://dx.doi.org/10.4142/jvs.2021.22.e88 Text en © 2021 The Korean Society of Veterinary Science https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0 (https://creativecommons.org/licenses/by-nc/4.0/) ) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Rapid Communication
Subekti, Didik T
Ekawasti, Fitrine
Desem, Muhammad Ibrahim
Azmi, Zul
Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18
title Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18
title_full Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18
title_fullStr Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18
title_full_unstemmed Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18
title_short Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18
title_sort toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (cds) of sag1, gra7 and rop18
topic Rapid Communication
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8636655/
https://www.ncbi.nlm.nih.gov/pubmed/34854270
http://dx.doi.org/10.4142/jvs.2021.22.e88
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