Single nucleotide polymorphisms identification in expressed genes of Schistosoma mansoni

Single nucleotide polymorphism (SNP) markers have been shown to be useful in genetic investigations of medically important parasites and their hosts. In this paper, we describe the prediction and validation of SNPs in ESTs of Schistosoma mansoni. We used 107,417 public sequences of S. mansoni and id...

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Veröffentlicht in:Molecular and biochemical parasitology 2007-08, Vol.154 (2), p.134-140
Hauptverfasser: Simões, Mariana, Bahia, Diana, Zerlotini, Adhemar, Torres, Kleider, Artiguenave, François, Neshich, Goran, Kuser, Paula, Oliveira, Guilherme
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container_end_page 140
container_issue 2
container_start_page 134
container_title Molecular and biochemical parasitology
container_volume 154
creator Simões, Mariana
Bahia, Diana
Zerlotini, Adhemar
Torres, Kleider
Artiguenave, François
Neshich, Goran
Kuser, Paula
Oliveira, Guilherme
description Single nucleotide polymorphism (SNP) markers have been shown to be useful in genetic investigations of medically important parasites and their hosts. In this paper, we describe the prediction and validation of SNPs in ESTs of Schistosoma mansoni. We used 107,417 public sequences of S. mansoni and identified 15,614 high-quality candidate SNPs in 12,184 contigs. The presence of predicted SNPs was observed in well characterized antigens and vaccine candidates such as those coding for myosin; Sm14 and Sm23; cathepsin B and triosephosphate isomerase (TPI). Additionally, SNPs were experimentally validated for the cathepsin B. A comparative model of the S. mansoni cathepsin B was built for predicting the possible consequences of amino acid substitutions on the protein structure. An analysis of the substitutions indicated that the amino acids were mostly located on the surface of the molecule, and we found no evidence for a significant conformational change of the enzyme. However, at least one of the substitutions could result in a structural modification of an epitope.
doi_str_mv 10.1016/j.molbiopara.2007.04.003
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subjects Animals
Antigens, Helminth - genetics
Cathepsin B
Cathepsin B - chemistry
Cathepsin B - genetics
Comparative modeling
Computational biology
Fatty Acid Transport Proteins - genetics
Genes, Helminth - genetics
Helminth Proteins - genetics
Models, Molecular
Myosins - genetics
Polymorphism, Single Nucleotide
Schistosoma mansoni
Schistosoma mansoni - genetics
Single nucleotide polymorphism
Triose-Phosphate Isomerase - genetics
title Single nucleotide polymorphisms identification in expressed genes of Schistosoma mansoni
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