Yeast cells, outlined in blue, each contain one vacuole, outlined in red. The acidity of the vacuole is indicated by the green dye: lower acidity appears as brighter green.
Credit: Courtesy of Gottschling Lab, Fred Hutchinson Cancer Research Center
For the first time, scientists at Fred Hutchinson Cancer Research Center have defined key events that take place early in the process of cellular aging. Together the discoveries, made through a series of experiments in yeast, bring unprecedented clarity to the complex cascade of events that comprise the aging process and pave the way to understanding how genetics and environmental factors like diet interact to influence lifespan, aging and age-related diseases such as cancer and neurodegenerative disorders.
The findings, including unexpected results that link aspects of aging and lifespan to a mechanism cells use to store nutrients, are described in the Nov. 21 issue of Nature by co-authors Daniel Gottschling, Ph.D., a member of the Hutchinson Center’s Basic Sciences Division, and Adam Hughes, Ph.D., a postdoctoral fellow in the Gottschling Lab.
The researchers found the acidity of a structure in yeast cells known as the vacuole is critical to aging and the functioning of mitochondria — the power plants of the cell. They also describe a novel mechanism, which may have parallels in human cells, by which calorie restriction extends lifespan.
The work began with Hughes and Gottschling searching for the source of age-related damage in mitochondria.
“Normally, mitochondria are beautiful, long tubes, but as cells get older, the mitochondria become fragmented and chunky,” said Gottschling, also an affiliate professor in the Department of Genome Sciences at the University of Washington. “The changes in shape seen in aging yeast cells are also observed in certain human cells, such as neurons and pancreatic cells, and those changes have been associated with a number of age-related diseases in humans.”
What causes mitochondria to become distorted and dysfunctional as cells age had long been a mystery, but Gottschling and Hughes have discovered that specific changes in the vacuole lead directly to their malfunctioning.
The vacuole — and its counterpart in humans and other organisms, the lysosome — has two main jobs: degrading proteins and storing molecular building blocks for the cell. To perform those jobs, the interior of the vacuole must be highly acidic.
Hughes and Gottschling found that the vacuole becomes less acidic relatively early in the yeast cell’s lifespan and, critically, that the drop in acidity hinders the vacuole’s ability to store certain nutrients. This, in turn, disrupts the mitochondria’s energy source, causing them to break down. Conversely, when Hughes prevented the drop in vacuolar acidity, the mitochondria’s function and shape were preserved and the yeast cells lived longer.
“Until now, the vacuole’s role in breaking down proteins was thought to be of primary importance. We were surprised to learn it was the storage function, not protein degradation, that appears to cause mitochondrial dysfunction in aging yeast cells,” Hughes said.
The unexpected discovery prompted Hughes and Gottschling to investigate the effects of calorie restriction, which is known to extend the lifespan of yeast, worms, flies and mammals, on vacuolar acidity. They found that calorie restriction — that is, limiting the raw material cells need — delays aging at least in part by boosting the acidity of the vacuole.
“Now that we have preliminary evidence in yeast of how calorie restriction extends lifespan, our hope is that it can be translated to higher organisms like humans,” Hughes said. Given the similarities in the fundamental biology of yeast and human cells, the researchers’ newly defined link between what cells “eat” and how they age could shed valuable light on the events that lead to age-related disorders in humans.
“There has been a lot in the scientific literature and the general media lately about how what you eat affects the aging process, but it has been incredibly confusing. Now we have a new paradigm for understanding how genetics and environment interact to influence lifespan, aging and age-related diseases. That’s what I’m really excited about,” Gottschling said.
Gottschling and Hughes speculate that if the vacuole’s declining acidity limits its ability to store certain nutrients and metabolites, they may build up in the cell, flooding the mitochondria. Overwhelmed, the mitochondria use up all their energy — essentially burning out their motors — taking in the surplus. With no power left to import the proteins they need to maintain their elegant shape and execute their regular duties, the mitochondria literally break down. Gottschling and his colleagues are now investigating this hypothesis in detail. They are also exploring what triggers the initial drop in the vacuole’s acidity.
The latter research question is of particular interest because the researchers found that even though vacuolar acidity drops as mother yeast cells age, the acidity in the vacuoles of their newborn daughter cells is normal. This corresponds to previous findings in the field that all daughter yeast cells have the same potential lifespan, regardless of the age of their mothers. The resetting of the daughter’s vacuolar acidity is the earliest event yet observed in cellular rejuvenation, a phenomenon in which age-related defects are seemingly erased in an organism’s offspring. This could help explain how the act of cell division itself contributes to aging.
These results are just the newest chapter in a “decade-old interest,” according to Gottschling. He and his colleagues have made several landmark discoveries in the past 10 years, including finding that aging yeast cells exhibit the same genomic instability seen in human cancer cells and proving that mitochondrial dysfunction causes that instability. Gottschling’s team also has developed innovative tools to leverage the power of yeast as a model organism, including a technique called the Mother Enrichment Program that makes experiments more efficient by enabling researchers to generate large populations of aging yeast cells.
“It’s worth using yeast to study complex things like aging because a lot of person-years of research have gone into understanding the fundamentals. The genetic and cell-biology tools available for studying yeast are unparalleled,” Gottschling said. “Having the proper tools is like having new glasses; you can see things you never could before, and once you start to see new things, you can dissect them to understand how they work.”
In addition to the latest eye-popping technology, the researchers relied on sheer tenacity — with a little help from motion-sickness pills — in pursuit of their discoveries. Some of the painstaking experiments required Hughes to delicately manipulate individual yeast cells as they divided every two hours for days at a time. For another series of experiments that lasted several months, Hughes took Dramamine to ward off the queasiness that came with inspecting brightly colored yeast cells as they streaked across his microscope’s field of view.
“There were definitely tough points, but it was worth it when we knew the story as a whole. Showing that the change in vacuolar acidity was real and that it mattered — that it affected lifespan — made the grueling experiments worthwhile,” Hughes said. Gottschling is an elected member of the National Academy of Sciences, the American Academy of Arts & Sciences, the Washington State Academy of Sciences and the American Academy of Microbiology.
This research was funded by grants from the National Institutes of Health, the Helen Hay Whitney Foundation, a University of Washington’s Genetic Approaches to Aging Training Grant and the Glenn Foundation for Medical Research. Preliminary support, including for the development of technologies used in this research, was provided by the Hutchinson Center’s Hartwell Innovation Fund.
Adam L. Hughes, Daniel E. Gottschling. An early age increase in vacuolar pH limits mitochondrial function and lifespan in yeast. Neture, 2012; DOI: 10.1038/nature11654