Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal
The GASH/Sal (Genetic Audiogenic Seizure Hamster, Salamanca) is a model of audiogenic seizures with the epileptogenic focus localized in the inferior colliculus (IC). The sound-induced seizures exhibit a short latency (7–9 s), which implies innate protein disturbances in the IC as a basis for seizur...
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MDPI AG
2023-03-01
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| Series: | Diagnostics |
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| Online Access: | https://www.mdpi.com/2075-4418/13/6/1048 |
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| author | Carlos García-Peral Martín M. Ledesma M. Javier Herrero-Turrión Ricardo Gómez-Nieto Orlando Castellano Dolores E. López |
| author_facet | Carlos García-Peral Martín M. Ledesma M. Javier Herrero-Turrión Ricardo Gómez-Nieto Orlando Castellano Dolores E. López |
| author_sort | Carlos García-Peral |
| collection | DOAJ |
| description | The GASH/Sal (Genetic Audiogenic Seizure Hamster, Salamanca) is a model of audiogenic seizures with the epileptogenic focus localized in the inferior colliculus (IC). The sound-induced seizures exhibit a short latency (7–9 s), which implies innate protein disturbances in the IC as a basis for seizure susceptibility and generation. Here, we aim to study the protein profile in the GASH/Sal IC in comparison to controls. Protein samples from the IC were processed for enzymatic digestion and then analyzed by mass spectrometry in Data-Independent Acquisition mode. After identifying the proteins using the UniProt database, we selected those with differential expression and performed ontological analyses, as well as gene-protein interaction studies using bioinformatics tools. We identified 5254 proteins; among them, 184 were differentially expressed proteins (DEPs), with 126 upregulated and 58 downregulated proteins, and 10 of the DEPs directly related to epilepsy. Moreover, 12 and 7 proteins were uniquely found in the GASH/Sal or the control. The results indicated a protein profile alteration in the epileptogenic nucleus that might underlie the inborn occurring audiogenic seizures in the GASH/Sal model. In summary, this study supports the use of bioinformatics methods in proteomics to delve into the relationship between molecular-level protein mechanisms and the pathobiology of rodent models of audiogenic seizures. |
| first_indexed | 2024-03-11T06:42:15Z |
| format | Article |
| id | doaj.art-dd59085757334fe1882c14e1dfefebde |
| institution | Directory Open Access Journal |
| issn | 2075-4418 |
| language | English |
| last_indexed | 2024-03-11T06:42:15Z |
| publishDate | 2023-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Diagnostics |
| spelling | doaj.art-dd59085757334fe1882c14e1dfefebde2023-11-17T10:33:37ZengMDPI AGDiagnostics2075-44182023-03-01136104810.3390/diagnostics13061048Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/SalCarlos García-Peral0Martín M. Ledesma1M. Javier Herrero-Turrión2Ricardo Gómez-Nieto3Orlando Castellano4Dolores E. López5Instituto de Neurociencias de Castilla y León (INCYL), Universidad de Salamanca, 37007 Salamanca, SpainUnidad de Conocimiento Traslacional, Hospital de Alta Complejidad del Bicentenario Esteban Echeverría, Monte Grande B1842, ArgentinaInstituto de Neurociencias de Castilla y León (INCYL), Universidad de Salamanca, 37007 Salamanca, SpainInstituto de Neurociencias de Castilla y León (INCYL), Universidad de Salamanca, 37007 Salamanca, SpainInstituto de Neurociencias de Castilla y León (INCYL), Universidad de Salamanca, 37007 Salamanca, SpainInstituto de Neurociencias de Castilla y León (INCYL), Universidad de Salamanca, 37007 Salamanca, SpainThe GASH/Sal (Genetic Audiogenic Seizure Hamster, Salamanca) is a model of audiogenic seizures with the epileptogenic focus localized in the inferior colliculus (IC). The sound-induced seizures exhibit a short latency (7–9 s), which implies innate protein disturbances in the IC as a basis for seizure susceptibility and generation. Here, we aim to study the protein profile in the GASH/Sal IC in comparison to controls. Protein samples from the IC were processed for enzymatic digestion and then analyzed by mass spectrometry in Data-Independent Acquisition mode. After identifying the proteins using the UniProt database, we selected those with differential expression and performed ontological analyses, as well as gene-protein interaction studies using bioinformatics tools. We identified 5254 proteins; among them, 184 were differentially expressed proteins (DEPs), with 126 upregulated and 58 downregulated proteins, and 10 of the DEPs directly related to epilepsy. Moreover, 12 and 7 proteins were uniquely found in the GASH/Sal or the control. The results indicated a protein profile alteration in the epileptogenic nucleus that might underlie the inborn occurring audiogenic seizures in the GASH/Sal model. In summary, this study supports the use of bioinformatics methods in proteomics to delve into the relationship between molecular-level protein mechanisms and the pathobiology of rodent models of audiogenic seizures.https://www.mdpi.com/2075-4418/13/6/1048epileptogenesisepileptogenic nucleusGASH/Sal hamster straingenetic epilepsy modelsproteomic profile |
| spellingShingle | Carlos García-Peral Martín M. Ledesma M. Javier Herrero-Turrión Ricardo Gómez-Nieto Orlando Castellano Dolores E. López Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal Diagnostics epileptogenesis epileptogenic nucleus GASH/Sal hamster strain genetic epilepsy models proteomic profile |
| title | Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal |
| title_full | Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal |
| title_fullStr | Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal |
| title_full_unstemmed | Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal |
| title_short | Proteomic and Bioinformatic Tools to Identify Potential Hub Proteins in the Audiogenic Seizure-Prone Hamster GASH/Sal |
| title_sort | proteomic and bioinformatic tools to identify potential hub proteins in the audiogenic seizure prone hamster gash sal |
| topic | epileptogenesis epileptogenic nucleus GASH/Sal hamster strain genetic epilepsy models proteomic profile |
| url | https://www.mdpi.com/2075-4418/13/6/1048 |
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