1
|
Schnitzer B, Welkenhuysen N, Leake MC, Shashkova S, Cvijovic M. The effect of stress on biophysical characteristics of misfolded protein aggregates in living Saccharomyces cerevisiae cells. Exp Gerontol 2022; 162:111755. [PMID: 35240259 DOI: 10.1016/j.exger.2022.111755] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 02/11/2022] [Accepted: 02/24/2022] [Indexed: 11/28/2022]
Abstract
Aggregation of misfolded or damaged proteins is often attributed to numerous metabolic and neurodegenerative disorders. To reveal underlying mechanisms and cellular responses, it is crucial to investigate protein aggregate dynamics in cells. Here, we used super-resolution single-molecule microscopy to obtain biophysical characteristics of individual aggregates of a model misfolded protein ∆ssCPY* labelled with GFP. We demonstrated that oxidative and hyperosmotic stress lead to increased aggregate stoichiometries but not necessarily the total number of aggregates. Moreover, our data suggest the importance of the thioredoxin peroxidase Tsa1 for the controlled sequestering and clearance of aggregates upon both conditions. Our work provides novel insights into the understanding of the cellular response to stress via revealing the dynamical properties of stress-induced protein aggregates.
Collapse
Affiliation(s)
- Barbara Schnitzer
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden
| | - Niek Welkenhuysen
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden
| | - Mark C Leake
- Department of Physics, University of York, YO10 5DD York, UK; Department of Biology, University of York, YO10 5DD York, UK
| | - Sviatlana Shashkova
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden; Department of Physics, University of York, YO10 5DD York, UK.
| | - Marija Cvijovic
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden.
| |
Collapse
|
2
|
Santiago E, Moreno DF, Acar M. Modeling aging and its impact on cellular function and organismal behavior. Exp Gerontol 2021; 155:111577. [PMID: 34582969 PMCID: PMC8560568 DOI: 10.1016/j.exger.2021.111577] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 09/18/2021] [Accepted: 09/22/2021] [Indexed: 01/22/2023]
Abstract
Aging is a complex phenomenon of functional decay in a biological organism. Although the effects of aging are readily recognizable in a wide range of organisms, the cause(s) of aging are ill defined and poorly understood. Experimental methods on model organisms have driven significant insight into aging as a process, but have not provided a complete model of aging. Computational biology offers a unique opportunity to resolve this gap in our knowledge by generating extensive and testable models that can help us understand the fundamental nature of aging, identify the presence and characteristics of unaccounted aging factor(s), demonstrate the mechanics of particular factor(s) in driving aging, and understand the secondary effects of aging on biological function. In this review, we will address each of the above roles for computational biology in aging research. Concurrently, we will explore the different applications of computational biology to aging in single-celled versus multicellular organisms. Given the long history of computational biogerontological research on lower eukaryotes, we emphasize the key future goals of gradually integrating prior models into a holistic map of aging and translating successful models to higher-complexity organisms.
Collapse
Affiliation(s)
- Emerson Santiago
- Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT 06511, USA
| | - David F Moreno
- Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT 06511, USA; Systems Biology Institute, Yale University, 850 West Campus Drive, West Haven, CT 06516, USA
| | - Murat Acar
- Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT 06511, USA; Systems Biology Institute, Yale University, 850 West Campus Drive, West Haven, CT 06516, USA.
| |
Collapse
|
3
|
Schnitzer B, Borgqvist J, Cvijovic M. The synergy of damage repair and retention promotes rejuvenation and prolongs healthy lifespans in cell lineages. PLoS Comput Biol 2020; 16:e1008314. [PMID: 33044956 PMCID: PMC7598927 DOI: 10.1371/journal.pcbi.1008314] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Revised: 10/30/2020] [Accepted: 09/04/2020] [Indexed: 01/29/2023] Open
Abstract
Damaged proteins are inherited asymmetrically during cell division in the yeast Saccharomyces cerevisiae, such that most damage is retained within the mother cell. The consequence is an ageing mother and a rejuvenated daughter cell with full replicative potential. Daughters of old and damaged mothers are however born with increasing levels of damage resulting in lowered replicative lifespans. Remarkably, these prematurely old daughters can give rise to rejuvenated cells with low damage levels and recovered lifespans, called second-degree rejuvenation. We aimed to investigate how damage repair and retention together can promote rejuvenation and at the same time ensure low damage levels in mother cells, reflected in longer health spans. We developed a dynamic model for damage accumulation over successive divisions in individual cells as part of a dynamically growing cell lineage. With detailed knowledge about single-cell dynamics and relationships between all cells in the lineage, we can infer how individual damage repair and retention strategies affect the propagation of damage in the population. We show that damage retention lowers damage levels in the population by reducing the variability across the lineage, and results in larger population sizes. Repairing damage efficiently in early life, as opposed to investing in repair when damage has already accumulated, counteracts accelerated ageing caused by damage retention. It prolongs the health span of individual cells which are moreover less prone to stress. In combination, damage retention and early investment in repair are beneficial for healthy ageing in yeast cell populations.
Collapse
Affiliation(s)
- Barbara Schnitzer
- Department of Mathematical Sciences, Chalmers University of Technology and University of Gothenburg, Gothenburg, Sweden
| | - Johannes Borgqvist
- Department of Mathematical Sciences, Chalmers University of Technology and University of Gothenburg, Gothenburg, Sweden
| | - Marija Cvijovic
- Department of Mathematical Sciences, Chalmers University of Technology and University of Gothenburg, Gothenburg, Sweden
| |
Collapse
|
4
|
Morita A, Hamoh T, Perona Martinez FP, Chipaux M, Sigaeva A, Mignon C, van der Laan KJ, Hochstetter A, Schirhagl R. The Fate of Lipid-Coated and Uncoated Fluorescent Nanodiamonds during Cell Division in Yeast. NANOMATERIALS 2020; 10:nano10030516. [PMID: 32178407 PMCID: PMC7153471 DOI: 10.3390/nano10030516] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/20/2020] [Revised: 03/05/2020] [Accepted: 03/09/2020] [Indexed: 11/18/2022]
Abstract
Fluorescent nanodiamonds are frequently used as biolabels. They have also recently been established for magnetic resonance and temperature sensing at the nanoscale level. To properly use them in cell biology, we first have to understand their intracellular fate. Here, we investigated, for the first time, what happens to diamond particles during and after cell division in yeast (Saccharomyces cerevisiae) cells. More concretely, our goal was to answer the question of whether nanodiamonds remain in the mother cells or end up in the daughter cells. Yeast cells are widely used as a model organism in aging and biotechnology research, and they are particularly interesting because their asymmetric cell division leads to morphologically different mother and daughter cells. Although yeast cells have a mechanism to prevent potentially harmful substances from entering the daughter cells, we found an increased number of diamond particles in daughter cells. Additionally, we found substantial excretion of particles, which has not been reported for mammalian cells. We also investigated what types of movement diamond particles undergo in the cells. Finally, we also compared bare nanodiamonds with lipid-coated diamonds, and there were no significant differences in respect to either movement or intracellular fate.
Collapse
Affiliation(s)
- Aryan Morita
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
- Department of Dental Biomedical Sciences, Faculty of Dentistry, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
| | - Thamir Hamoh
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
| | - Felipe P. Perona Martinez
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
| | - Mayeul Chipaux
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
| | - Alina Sigaeva
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
| | - Charles Mignon
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
| | - Kiran J. van der Laan
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
| | - Axel Hochstetter
- Division of Biomedical Engineering, School of Engineering, University of Glasgow, Glasgow G12 8LT, UK;
| | - Romana Schirhagl
- Department of Biomedical Engineering, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands; (A.M.); (T.H.); (F.P.P.M.); (M.C.); (A.S.); (C.M.); (K.J.v.d.L.)
- Correspondence:
| |
Collapse
|
5
|
He C, Zhou C, Kennedy BK. The yeast replicative aging model. Biochim Biophys Acta Mol Basis Dis 2018; 1864:2690-2696. [PMID: 29524633 DOI: 10.1016/j.bbadis.2018.02.023] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2018] [Revised: 02/26/2018] [Accepted: 02/26/2018] [Indexed: 11/22/2022]
Abstract
It has been nearly three decades since the budding yeast Saccharomyces cerevisiae became a significant model organism for aging research and it has emerged as both simple and powerful. The replicative aging assay, which interrogates the number of times a "mother" cell can divide and produce "daughters", has been a stalwart in these studies, and genetic approaches have led to the identification of hundreds of genes impacting lifespan. More recently, cell biological and biochemical approaches have been developed to determine how cellular processes become altered with age. Together, the tools are in place to develop a holistic view of aging in this single-celled organism. Here, we summarize the current state of understanding of yeast replicative aging with a focus on the recent studies that shed new light on how aging pathways interact to modulate lifespan in yeast.
Collapse
Affiliation(s)
- Chong He
- Buck Institute for Research on Aging, 8001 Redwood Blvd., Novato, CA 94945, USA
| | - Chuankai Zhou
- Buck Institute for Research on Aging, 8001 Redwood Blvd., Novato, CA 94945, USA
| | - Brian K Kennedy
- Buck Institute for Research on Aging, 8001 Redwood Blvd., Novato, CA 94945, USA; Departments of Biochemistry and Physiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore.
| |
Collapse
|