Model Organisms: The holy grail of longevity research
A new technology to study physiology and cognition elevates African turquoise killifish as a model organism for studies of aging in vertebrates.
- Yale-NUS College, Singapore
- The Institute for Digital Medicine (WisDM), Yong Loo Lin School of Medicine, National University of Singapore, Singapore
- Department of Physiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore
- Institute of Molecular and Cell Biology, A*STAR, Singapore
Aging is a major risk factor for numerous chronic diseases, such as dementia, metabolic syndromes, and cancers, (Hou et al., 2019; Kennedy et al., 2014; Niccoli and Partridge, 2012), and age-related declines in health are poised to become significant economic and clinical challenges (European Commission, 2014). As a consequence, researchers, governments and drug companies have been trying to identify how aging is influenced by lifestyle choices and by biological, environmental and socio-economic factors (Crane et al., 2022). A key challenge is to develop innovative approaches that can help us to better understand the biology of aging and to accurately quantify age-dependent changes in physiology and cognition. The latter is necessary to evaluate the costs and benefits of potential interventions. Now, in eLife, Anne Brunnet (Stanford University) and colleagues – including Andrew McKay, Emma Costa and Jingxun Chen as joint first authors – report a fresh dimension to this quest (McKay et al., 2022).
Finding appropriate animal models is crucial in biomedicine, but it is rare for a single species (such as mice) to have all the characteristics required and also capture all the aspects of a target species (such as humans). The observation that “all models are wrong, but some are useful” captures this concept succinctly (even if it was first made about statistical models, not animal models; Box, 1976). However, it is possible to overcome this limitation by having a diverse pool of animal models that can help uncover fundamentally conserved phenomena and fuel innovative thinking (Mathuru et al., 2020). This is particularly relevant for aging studies, where longevity can be affected by species-specific adaptations and dramatically divergent evolutionary trajectories.
McKay et al. showcase new technologies and resources for the African turquoise killifish, Nothobranchius furzeri (Figure 1A). Compared to other vertebrate model organisms, killifish have an extremely short life cycle, during which they go through all the stages of life – from a larva to a senile adult – within a few weeks (Harel et al., 2015; Reichard and Polačik, 2019; Terzibasi Tozzini and Cellerino, 2020; Valenzano et al., 2015).
Figure 1
Killifish as a model organism to study aging.
(A) Of the various model organisms used to study aging and longevity in vertebrates, killifish (left) have the shortest lifespans. Other model organisms used to study aging and longevity in vertebrates include (in order of increasing lifespan) mice, zebrafish, dogs, macaques, naked mole rats and humans. (B) In the wild, killifish produce desiccation-resistant eggs and can pause egg development if environmental conditions are unfavorable. Once development resumes, killifish complete their lifecycle within six months. McKay et al. demonstrate that a restricted diet can extend the lifespan of male killifish (DR males) by up to three months.
Image created with BioRender.com.
For the experiments, adult fish were housed in individual transparent tanks. McKay et al. designed an automated feeding system, which has several advantages over the conventional, manual handling systems: it is less invasive; it is more precise and flexible; and it can be deployed across a large number of individual tanks. It is also designed to be open-source, easily transferable, and built from only 25 widely available components.
In a proof-of-concept study, McKay et al. used their design to compare the impact of a favorable diet and a restricted diet on aging. Their results suggest that males (but not females) raised on a restricted diet live longer, and that this change is accompanied by changes in the transcriptional profiles of liver cells (Figure 1B). Sex-specific effects of diet have also been seen in mammals, which suggest that this phenomenon may be widespread among vertebrates. The sex-specific gene expression and their potential connection to lifespan differences raises many interesting questions for future research.
A critical factor in longevity studies is to study the impact of interventions on cognition. Towards this goal, McKay et al. included a red LED light in the design of their automated feeding system: this light switched on a few seconds before the fish were fed, so they can learn to associate the red light with food delivery. After a few repetitions, if the fish learned this association, they would react to the red light switching on as if they expected to be fed. This assay allowed McKay et al. to test the learning abilities and memory retention of the killifish in their home tanks, and how these were affected by age. Even though the design of the associative learning paradigm was simple, McKay et al. were able to demonstrate that killifish rapidly learned such associations in five to eight repetitions.
Overall, the study of McKay et al. opens up a number of exciting possibilities for future studies using killifish. For instance, experiments could focus on investigating how exactly dietary restriction, drug interventions, and sex-specific effects in gene expression intersect with cognitive fitness. The automated feeder should also be useful for studies looking at the effect of specific diet schedules, nutrients and circadian rhythms on longevity. Finally, as new technologies for killifish mature further (Platzer and Englert, 2016), comparative multi-species studies with other species – notably medaka and zebrafish – will become more realistic and offer the promise of even deeper insights into the biology of aging in vertebrates.
References
-
Science and statisticsJournal of the American Statistical Association 71:791–799.https://doi.org/10.1080/01621459.1976.10480949
-
Ageing as a risk factor for neurodegenerative diseaseNature Reviews. Neurology 15:565–581.https://doi.org/10.1038/s41582-019-0244-7
-
Why behavioral neuroscience still needs diversity?: A curious case of a persistent needNeuroscience and Biobehavioral Reviews 116:130–141.https://doi.org/10.1016/j.neubiorev.2020.06.021
-
Ageing as a risk factor for diseaseCurrent Biology 22:R741–R752.https://doi.org/10.1016/j.cub.2012.07.024
-
Nothobranchius furzeri: a model for aging research and moreTrends in Genetics 32:543–552.https://doi.org/10.1016/j.tig.2016.06.006
Article and author information
Author details
Publication history
Copyright
© 2022, Mathuru
This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.
Metrics
-
- 1,540
- views
-
- 95
- downloads
-
- 0
- citations
Views, downloads and citations are aggregated across all versions of this paper published by eLife.
Download links
A two-part list of links to download the article, or parts of the article, in various formats.
Downloads (link to download the article as PDF)
Open citations (links to open the citations from this article in various online reference manager services)
Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)
Model Organisms: The holy grail of longevity research
eLife 11:e85001.
https://doi.org/10.7554/eLife.85001
Further reading
-
- Genetics and Genomics
An unprecedented amount of SARS-CoV-2 data has been accumulated compared with previous infectious diseases, enabling insights into its evolutionary process and more thorough analyses. This study investigates SARS-CoV-2 features as it evolved to evaluate its infectivity. We examined viral sequences and identified the polarity of amino acids in the receptor binding motif (RBM) region. We detected an increased frequency of amino acid substitutions to lysine (K) and arginine (R) in variants of concern (VOCs). As the virus evolved to Omicron, commonly occurring mutations became fixed components of the new viral sequence. Furthermore, at specific positions of VOCs, only one type of amino acid substitution and a notable absence of mutations at D467 were detected. We found that the binding affinity of SARS-CoV-2 lineages to the ACE2 receptor was impacted by amino acid substitutions. Based on our discoveries, we developed APESS, an evaluation model evaluating infectivity from biochemical and mutational properties. In silico evaluation using real-world sequences and in vitro viral entry assays validated the accuracy of APESS and our discoveries. Using Machine Learning, we predicted mutations that had the potential to become more prominent. We created AIVE, a web-based system, accessible at https://ai-ve.org to provide infectivity measurements of mutations entered by users. Ultimately, we established a clear link between specific viral properties and increased infectivity, enhancing our understanding of SARS-CoV-2 and enabling more accurate predictions of the virus.
-
- Cell Biology
- Genetics and Genomics
Cells react to stress by triggering response pathways, leading to extensive alterations in the transcriptome to restore cellular homeostasis. The role of RNA metabolism in shaping the cellular response to stress is vital, yet the global changes in RNA stability under these conditions remain unclear. In this work, we employ direct RNA sequencing with nanopores, enhanced by 5ʹ end adapter ligation, to comprehensively interrogate the human transcriptome at single-molecule and -nucleotide resolution. By developing a statistical framework to identify robust RNA length variations in nanopore data, we find that cellular stress induces prevalent 5ʹ end RNA decay that is coupled to translation and ribosome occupancy. Unlike typical RNA decay models in normal conditions, we show that stress-induced RNA decay is dependent on XRN1 but does not depend on deadenylation or decapping. We observed that RNAs undergoing decay are predominantly enriched in the stress granule transcriptome while inhibition of stress granule formation via genetic ablation of G3BP1 and G3BP2 rescues RNA length. Our findings reveal RNA decay as a key component of RNA metabolism upon cellular stress that is dependent on stress granule formation.
