Evolutionary Study of Protein Short Tandem Repeats in Protein Families
Tandem repeats in proteins are patterns of residues repeated directly adjacent to each other. The evolution of these repeats can be assessed by using groups of homologous sequences, which can help pointing to events of unit duplication or deletion. High pressure in a protein family for variation of...
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| Format: | Article |
| Language: | English |
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MDPI AG
2023-07-01
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| Series: | Biomolecules |
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| Online Access: | https://www.mdpi.com/2218-273X/13/7/1116 |
| _version_ | 1797590117897994240 |
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| author | Pablo Mier Miguel A. Andrade-Navarro |
| author_facet | Pablo Mier Miguel A. Andrade-Navarro |
| author_sort | Pablo Mier |
| collection | DOAJ |
| description | Tandem repeats in proteins are patterns of residues repeated directly adjacent to each other. The evolution of these repeats can be assessed by using groups of homologous sequences, which can help pointing to events of unit duplication or deletion. High pressure in a protein family for variation of a given type of repeat might point to their function. Here, we propose the analysis of protein families to calculate protein short tandem repeats (pSTRs) in each protein sequence and assess their variability within the family in terms of number of units. To facilitate this analysis, we developed the pSTR tool, a method to analyze the evolution of protein short tandem repeats in a given protein family by pairwise comparisons between evolutionarily related protein sequences. We evaluated pSTR unit number variation in protein families of 12 complete metazoan proteomes. We hypothesize that families with more dynamic ensembles of repeats could reflect particular roles of these repeats in processes that require more adaptability. |
| first_indexed | 2024-03-11T01:15:52Z |
| format | Article |
| id | doaj.art-ab54e017a0264d1ea453123d0e3da6d0 |
| institution | Directory Open Access Journal |
| issn | 2218-273X |
| language | English |
| last_indexed | 2024-03-11T01:15:52Z |
| publishDate | 2023-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Biomolecules |
| spelling | doaj.art-ab54e017a0264d1ea453123d0e3da6d02023-11-18T18:31:39ZengMDPI AGBiomolecules2218-273X2023-07-01137111610.3390/biom13071116Evolutionary Study of Protein Short Tandem Repeats in Protein FamiliesPablo Mier0Miguel A. Andrade-Navarro1Faculty of Biology, Institute of Organismic and Molecular Evolution, Johannes Gutenberg University Mainz, 55128 Mainz, GermanyFaculty of Biology, Institute of Organismic and Molecular Evolution, Johannes Gutenberg University Mainz, 55128 Mainz, GermanyTandem repeats in proteins are patterns of residues repeated directly adjacent to each other. The evolution of these repeats can be assessed by using groups of homologous sequences, which can help pointing to events of unit duplication or deletion. High pressure in a protein family for variation of a given type of repeat might point to their function. Here, we propose the analysis of protein families to calculate protein short tandem repeats (pSTRs) in each protein sequence and assess their variability within the family in terms of number of units. To facilitate this analysis, we developed the pSTR tool, a method to analyze the evolution of protein short tandem repeats in a given protein family by pairwise comparisons between evolutionarily related protein sequences. We evaluated pSTR unit number variation in protein families of 12 complete metazoan proteomes. We hypothesize that families with more dynamic ensembles of repeats could reflect particular roles of these repeats in processes that require more adaptability.https://www.mdpi.com/2218-273X/13/7/1116low complexity regionsrepeatsprotein sequence analysis |
| spellingShingle | Pablo Mier Miguel A. Andrade-Navarro Evolutionary Study of Protein Short Tandem Repeats in Protein Families Biomolecules low complexity regions repeats protein sequence analysis |
| title | Evolutionary Study of Protein Short Tandem Repeats in Protein Families |
| title_full | Evolutionary Study of Protein Short Tandem Repeats in Protein Families |
| title_fullStr | Evolutionary Study of Protein Short Tandem Repeats in Protein Families |
| title_full_unstemmed | Evolutionary Study of Protein Short Tandem Repeats in Protein Families |
| title_short | Evolutionary Study of Protein Short Tandem Repeats in Protein Families |
| title_sort | evolutionary study of protein short tandem repeats in protein families |
| topic | low complexity regions repeats protein sequence analysis |
| url | https://www.mdpi.com/2218-273X/13/7/1116 |
| work_keys_str_mv | AT pablomier evolutionarystudyofproteinshorttandemrepeatsinproteinfamilies AT miguelaandradenavarro evolutionarystudyofproteinshorttandemrepeatsinproteinfamilies |