Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination
Saccharomyces cerevisiae (baker´s yeast) has yielded relevant in-sights into some of the basic mechanisms of organismal aging. Among these are genomic instability, oxidative stress, caloric restriction and mitochondrial dysfunction. Several genes are known to have an impact on the aging process, wit...
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| Format: | Article |
| Language: | English |
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Shared Science Publishers OG
2024-02-01
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| Series: | Microbial Cell |
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| Online Access: | http://microbialcell.com/researcharticles/2024a-gomez-montalvo-microbial-cell/ |
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| author | Jesús Gómez-Montalvo Alvaro de Obeso Fernández del Valle Luis Fernando De la Cruz Gutiérrez Jose Mario Gonzalez-Meljem Christian Quintus Scheckhuber |
| author_facet | Jesús Gómez-Montalvo Alvaro de Obeso Fernández del Valle Luis Fernando De la Cruz Gutiérrez Jose Mario Gonzalez-Meljem Christian Quintus Scheckhuber |
| author_sort | Jesús Gómez-Montalvo |
| collection | DOAJ |
| description | Saccharomyces cerevisiae (baker´s yeast) has yielded relevant in-sights into some of the basic mechanisms of organismal aging. Among these are genomic instability, oxidative stress, caloric restriction and mitochondrial dysfunction. Several genes are known to have an impact on the aging process, with corresponding mutants exhibiting short- or long-lived phenotypes. Re-search dedicated to unraveling the underlying cellular mechanisms can sup-port the identification of conserved mechanisms of aging in other species. One of the hitherto less studied fields in yeast aging is how the organism regulates its gene expression at the transcriptional level. To our knowledge, we present the first investigation into alternative splicing, particularly intron retention, during replicative aging of S. cerevisiae. This was achieved by utiliz-ing the IRFinder algorithm on a previously published RNA-seq data set by Janssens et al. (2015). In the present work, 44 differentially retained introns in 43 genes were identified during replicative aging. We found that genes with altered intron retention do not display significant changes in overall transcript levels. It was possible to functionally assign distinct groups of these genes to the cellular processes of mRNA processing and export (e.g., YRA1) in early and middle-aged yeast, and protein ubiquitination (e.g., UBC5) in older cells. In summary, our work uncovers a previously unexplored layer of the transcrip-tional program of yeast aging and, more generally, expands the knowledge on the occurrence of alternative splicing in baker´s yeast. |
| first_indexed | 2024-03-07T23:28:45Z |
| format | Article |
| id | doaj.art-86040678d8b44a8680a2c7fdd8f4a84a |
| institution | Directory Open Access Journal |
| issn | 2311-2638 |
| language | English |
| last_indexed | 2024-03-07T23:28:45Z |
| publishDate | 2024-02-01 |
| publisher | Shared Science Publishers OG |
| record_format | Article |
| series | Microbial Cell |
| spelling | doaj.art-86040678d8b44a8680a2c7fdd8f4a84a2024-02-20T20:18:13ZengShared Science Publishers OGMicrobial Cell2311-26382024-02-0111697810.15698/mic2024.02.816Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitinationJesús Gómez-Montalvo0Alvaro de Obeso Fernández del Valle1Luis Fernando De la Cruz Gutiérrez2Jose Mario Gonzalez-Meljem3Christian Quintus Scheckhuber4Tecnologico de Monterrey, Escuela de Ingeniería y Ciencias, Ave. Eugenio Garza Sada 2501, Monterrey, N.L., México.Tecnologico de Monterrey, Escuela de Ingeniería y Ciencias, Ave. Eugenio Garza Sada 2501, Monterrey, N.L., México.Tecnologico de Monterrey, Escuela de Ingeniería y Ciencias, Ave. Eugenio Garza Sada 2501, Monterrey, N.L., México.Tecnologico de Monterrey, Escuela de Ingeniería y Ciencias, Ave. Eugenio Garza Sada 2501, Monterrey, N.L., México.Tecnologico de Monterrey, Escuela de Ingeniería y Ciencias, Ave. Eugenio Garza Sada 2501, Monterrey, N.L., México.Saccharomyces cerevisiae (baker´s yeast) has yielded relevant in-sights into some of the basic mechanisms of organismal aging. Among these are genomic instability, oxidative stress, caloric restriction and mitochondrial dysfunction. Several genes are known to have an impact on the aging process, with corresponding mutants exhibiting short- or long-lived phenotypes. Re-search dedicated to unraveling the underlying cellular mechanisms can sup-port the identification of conserved mechanisms of aging in other species. One of the hitherto less studied fields in yeast aging is how the organism regulates its gene expression at the transcriptional level. To our knowledge, we present the first investigation into alternative splicing, particularly intron retention, during replicative aging of S. cerevisiae. This was achieved by utiliz-ing the IRFinder algorithm on a previously published RNA-seq data set by Janssens et al. (2015). In the present work, 44 differentially retained introns in 43 genes were identified during replicative aging. We found that genes with altered intron retention do not display significant changes in overall transcript levels. It was possible to functionally assign distinct groups of these genes to the cellular processes of mRNA processing and export (e.g., YRA1) in early and middle-aged yeast, and protein ubiquitination (e.g., UBC5) in older cells. In summary, our work uncovers a previously unexplored layer of the transcrip-tional program of yeast aging and, more generally, expands the knowledge on the occurrence of alternative splicing in baker´s yeast.http://microbialcell.com/researcharticles/2024a-gomez-montalvo-microbial-cell/saccharomyces cerevisiaeintron retentionreplicative agingmrna processingmrna exportubiquitinationtranscription regulation |
| spellingShingle | Jesús Gómez-Montalvo Alvaro de Obeso Fernández del Valle Luis Fernando De la Cruz Gutiérrez Jose Mario Gonzalez-Meljem Christian Quintus Scheckhuber Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination Microbial Cell saccharomyces cerevisiae intron retention replicative aging mrna processing mrna export ubiquitination transcription regulation |
| title | Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination |
| title_full | Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination |
| title_fullStr | Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination |
| title_full_unstemmed | Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination |
| title_short | Replicative aging in yeast involves dynamic intron retention patterns associated with mRNA processing/export and protein ubiquitination |
| title_sort | replicative aging in yeast involves dynamic intron retention patterns associated with mrna processing export and protein ubiquitination |
| topic | saccharomyces cerevisiae intron retention replicative aging mrna processing mrna export ubiquitination transcription regulation |
| url | http://microbialcell.com/researcharticles/2024a-gomez-montalvo-microbial-cell/ |
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