Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1

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The development of high-throughput technologies in the last decade produced an exponential increase in the amount of biological data available. The case of redox biology and apoptosis is not an exception, and nowadays there is a need to integrate information from multiple “omics” studies. Therefore,...

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Autores principales: Falomir Lockhart, Agustín Horacio, Villegas Castagnasso, Egle Etel, Giovambattista, Guillermo, Rogberg Muñoz, Andrés
Formato: Articulo
Lenguaje:Inglés
Publicado: 2018
Materias:
Biología
In silico study
NsSNPs
Protein
GSTP1
Apoptosis
Oxidative stress
Acceso en línea:http://sedici.unlp.edu.ar/handle/10915/124807
Aporte de:
SEDICI (UNLP) de Universidad Nacional de La Plata
id I19-R120-10915-124807
record_format dspace
institution Universidad Nacional de La Plata
institution_str I-19
repository_str R-120
collection SEDICI (UNLP)
language Inglés
topic Biología
In silico study
NsSNPs
Protein
GSTP1
Apoptosis
Oxidative stress
spellingShingle Biología
In silico study
NsSNPs
Protein
GSTP1
Apoptosis
Oxidative stress
Falomir Lockhart, Agustín Horacio
Villegas Castagnasso, Egle Etel
Giovambattista, Guillermo
Rogberg Muñoz, Andrés
Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1
topic_facet Biología
In silico study
NsSNPs
Protein
GSTP1
Apoptosis
Oxidative stress
description The development of high-throughput technologies in the last decade produced an exponential increase in the amount of biological data available. The case of redox biology and apoptosis is not an exception, and nowadays there is a need to integrate information from multiple “omics” studies. Therefore, validation of proposed discoveries is essential. However, the study in biological systems of the effect of the massive amounts of sequence variation data generated with next-generation sequencing (NGS) technologies can be a very difficult and expensive process. In this context, the present study aimed to demonstrate the advantages of a computational methodology to systematically analyze the structural and functional effects of protein variants, in order to prioritize further studies. This approach stands out for its easy implementation, low costs and low time consumed. First, the possible impact of mutations on protein structure and function was tested by a combination of tools based on evolutionary and structural information. Next, homology modeling was performed to predict and compare the 3D protein structures of unresolved amino acid sequences obtained from genomic resequencing. This analysis applied to the bovine GSTP1 allowed to determine that some of amino acid substitutions may generate important changes in protein structure and function. Moreover, the haplotype analysis highlighted three structure variants worthwhile studying through in vitro or in vivo experiments.
format Articulo
Articulo
author Falomir Lockhart, Agustín Horacio
Villegas Castagnasso, Egle Etel
Giovambattista, Guillermo
Rogberg Muñoz, Andrés
author_facet Falomir Lockhart, Agustín Horacio
Villegas Castagnasso, Egle Etel
Giovambattista, Guillermo
Rogberg Muñoz, Andrés
author_sort Falomir Lockhart, Agustín Horacio
title Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1
title_short Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1
title_full Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1
title_fullStr Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1
title_full_unstemmed Computational prediction of nsSNPs effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine GSTP1
title_sort computational prediction of nssnps effects on protein function and structure, a prioritization approach for further in vitro studies applied to bovine gstp1
publishDate 2018
url http://sedici.unlp.edu.ar/handle/10915/124807
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AT giovambattistaguillermo computationalpredictionofnssnpseffectsonproteinfunctionandstructureaprioritizationapproachforfurtherinvitrostudiesappliedtobovinegstp1
AT rogbergmunozandres computationalpredictionofnssnpseffectsonproteinfunctionandstructureaprioritizationapproachforfurtherinvitrostudiesappliedtobovinegstp1
bdutipo_str Repositorios
_version_ 1764820451160227841

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