Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model
In dentistry, various animal models are used to evaluate adhesive systems, dental caries and periodontal diseases. Metalloproteinases (MMPs) are enzymes that degrade collagen in the dentin matrix and are categorized in over 20 different classes. Collagenases and gelatinases are intrinsic constituent...
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MDPI AG
2023-11-01
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| Series: | Biomedicines |
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| Online Access: | https://www.mdpi.com/2227-9059/11/11/3042 |
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| author | Simone Gomes de Oliveira Nelson Kotowski Helio Rodrigues Sampaio-Filho Flávio Henrique Baggio Aguiar Alberto Martín Rivera Dávila Rodrigo Jardim |
| author_facet | Simone Gomes de Oliveira Nelson Kotowski Helio Rodrigues Sampaio-Filho Flávio Henrique Baggio Aguiar Alberto Martín Rivera Dávila Rodrigo Jardim |
| author_sort | Simone Gomes de Oliveira |
| collection | DOAJ |
| description | In dentistry, various animal models are used to evaluate adhesive systems, dental caries and periodontal diseases. Metalloproteinases (MMPs) are enzymes that degrade collagen in the dentin matrix and are categorized in over 20 different classes. Collagenases and gelatinases are intrinsic constituents of the human dentin organic matrix fibrillar network and are the most abundant MMPs in this tissue. Understanding such enzymes’ action on dentin is important in the development of approaches that could reduce dentin degradation and provide restorative procedures with extended longevity. This in silico study is based on dentistry’s most used animal models and intends to search for the most suitable, evolutionarily close to <i>Homo sapiens</i>. We were able to retrieve 176,077 mammalian MMP sequences from the UniProt database. These sequences were manually curated through a three-step process. After such, the remaining 3178 sequences were aligned in a multifasta file and phylogenetically reconstructed using the maximum likelihood method. Our study inferred that the animal models most evolutionarily related to <i>Homo sapiens</i> were <i>Orcytolagus cuniculus</i> (MMP-1 and MMP-8), <i>Canis lupus</i> (MMP-13), <i>Rattus norvegicus</i> (MMP-2) and <i>Orcytolagus cuniculus</i> (MMP-9). Further research will be needed for the biological validation of our findings. |
| first_indexed | 2024-03-09T16:59:16Z |
| format | Article |
| id | doaj.art-1e5b2a94d5ad41e982a3d3ff5dc08d15 |
| institution | Directory Open Access Journal |
| issn | 2227-9059 |
| language | English |
| last_indexed | 2024-03-09T16:59:16Z |
| publishDate | 2023-11-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Biomedicines |
| spelling | doaj.art-1e5b2a94d5ad41e982a3d3ff5dc08d152023-11-24T14:31:16ZengMDPI AGBiomedicines2227-90592023-11-011111304210.3390/biomedicines11113042Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal ModelSimone Gomes de Oliveira0Nelson Kotowski1Helio Rodrigues Sampaio-Filho2Flávio Henrique Baggio Aguiar3Alberto Martín Rivera Dávila4Rodrigo Jardim5Piracicaba School of Dentistry, Campinas State University, Piracicaba 13414-903, SP, BrazilComputational and Systems Biology Laboratory, Oswaldo Cruz Institute, Oswaldo Cruz Foundation, Rio de Janeiro 21040-900, RJ, BrazilSchool of Dentistry, State University of Rio de Janeiro, Rio de Janeiro 20551-030, RJ, BrazilPiracicaba School of Dentistry, Campinas State University, Piracicaba 13414-903, SP, BrazilComputational and Systems Biology Laboratory, Oswaldo Cruz Institute, Oswaldo Cruz Foundation, Rio de Janeiro 21040-900, RJ, BrazilComputational and Systems Biology Laboratory, Oswaldo Cruz Institute, Oswaldo Cruz Foundation, Rio de Janeiro 21040-900, RJ, BrazilIn dentistry, various animal models are used to evaluate adhesive systems, dental caries and periodontal diseases. Metalloproteinases (MMPs) are enzymes that degrade collagen in the dentin matrix and are categorized in over 20 different classes. Collagenases and gelatinases are intrinsic constituents of the human dentin organic matrix fibrillar network and are the most abundant MMPs in this tissue. Understanding such enzymes’ action on dentin is important in the development of approaches that could reduce dentin degradation and provide restorative procedures with extended longevity. This in silico study is based on dentistry’s most used animal models and intends to search for the most suitable, evolutionarily close to <i>Homo sapiens</i>. We were able to retrieve 176,077 mammalian MMP sequences from the UniProt database. These sequences were manually curated through a three-step process. After such, the remaining 3178 sequences were aligned in a multifasta file and phylogenetically reconstructed using the maximum likelihood method. Our study inferred that the animal models most evolutionarily related to <i>Homo sapiens</i> were <i>Orcytolagus cuniculus</i> (MMP-1 and MMP-8), <i>Canis lupus</i> (MMP-13), <i>Rattus norvegicus</i> (MMP-2) and <i>Orcytolagus cuniculus</i> (MMP-9). Further research will be needed for the biological validation of our findings.https://www.mdpi.com/2227-9059/11/11/3042animal modelphylogenyrestorative dentistry |
| spellingShingle | Simone Gomes de Oliveira Nelson Kotowski Helio Rodrigues Sampaio-Filho Flávio Henrique Baggio Aguiar Alberto Martín Rivera Dávila Rodrigo Jardim Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model Biomedicines animal model phylogeny restorative dentistry |
| title | Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model |
| title_full | Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model |
| title_fullStr | Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model |
| title_full_unstemmed | Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model |
| title_short | Metalloproteinases in Restorative Dentistry: An In Silico Study toward an Ideal Animal Model |
| title_sort | metalloproteinases in restorative dentistry an in silico study toward an ideal animal model |
| topic | animal model phylogeny restorative dentistry |
| url | https://www.mdpi.com/2227-9059/11/11/3042 |
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