#62 Dr. Steve Horvath on epigenetic aging to predict healthspan: the DNA PhenoAge and GrimAge clocks

Posted on December 18th 2020 (over 4 years)

The BDNF Protocol Guide

An essential checklist for cognitive longevity — filled with specific exercise, heat stress, and omega-3 protocols for boosting BDNF. Enter your email, and we'll deliver it straight to your inbox.

Your subscription could not be saved. Please try again.
Please check your email to confirm your subscription and get The BDNF Protocol Guide!

You'll also receive updates from Rhonda & FoundMyFitness

Steve Horvath, PhD, is a professor of human genetics and biostatistics at UCLA's Fielding School of Public Health.

His work incorporates elements of biostatistics, genetics, epidemiology, epigenomics, and other fields of study. He applies his understanding of this diverse range of disciplines to study a spectrum of chronic diseases, including cancer, cardiovascular disease, neurodegenerative disease, and other diseases of aging. Dr. Horvath is the creator of the Horvath Epigenetic Aging Clock.

In this episode we discuss...

  • How methylation patterns at unique areas of our DNA involved in gene regulation predict a person's age within four to five years.
  • How heredity determines as much as 40 percent of a person's epigenetic clock rate.
  • How the stability of epigenetic information has potential implications in forensic science.
  • How diet, exercise, education, and lifestyle factors can slow the epigenetic clock.
  • How transplanting young cells into an old body may slow epigenetic aging of the recipient.
  • How reprogramming pluripotent stem cells resets the epigenetic clock.
  • How scientists aren't sure whether epigenetic changes drive aging or whether they're the result of aging.
  • How poor sleep speeds up the epigenetic clock.

Not everyone ages at the same rate.

Aging. It's the bane of – and ultimately the demise of – our existence. Broadly speaking, aging is defined as the collective physiological, functional, and mental changes that accrue in a biological organism over time. It is the primary risk factor for many chronic diseases in humans, including cancer, Alzheimer's disease, and cardiovascular disease. But people age at different rates – an ostensibly random (and unjust) phenomenon observed across sexes, ethnic groups, and races. Recognition of this phenomenon has given rise to the concept of biological age, sometimes referred to as phenotypic age. Whereas chronological age is the tally of a person's years since birth, biological age is an abstract concept lacking a universal definition but generally recognized as a measure of a person's physiological and functional state.

Molecular and cellular changes occur with aging.

A critical aspect of aging is genomic instability, a consequence of changes in a person's DNA methylation profile. Methylations are biochemical processes that modify the activity of a DNA segment without changing its sequence – a type of epigenetic change. They occur naturally and involve the attachment of a methyl group (a carbon atom attached to three hydrogen atoms) to one of DNA's four nucleotide bases. Many methylations occur at CpG sites – areas of the DNA where the bases cytosine and guanine appear consecutively. There are approximately 28 million CpG sites in the human genome.

Methylation influences the way DNA strands are packaged into chromosomes, ultimately regulating gene expression to control normal growth and development. Methylations are critical in development, but they also impact the aging process. In fact, as a person ages, the methylation pattern of their cells changes, or "drifts." Some drift is random, but some is consistent across large groups of people and can be quantified. These consistent patterns of age-based alterations in DNA methylation can be harnessed to estimate age, serving as a sort of "clock," the premise of which is truly remarkable: Predict a person's lifespan, based on chemical modifications to their DNA – a sort of molecular "footprint" that reflects the biological life history of the organism.

Epigenetic clocks can accurately predict age and lifespan.

"The Horvath Aging Clock is what I sometimes call the so-called pan tissue epigenetic clock. [It] is the most accurate molecular measure of age. It applies to all cells in the body."- Dr. Steve Horvath Click To Tweet

In recent years scientists have identified ways to measure aging based on the methylation pattern of an organism's genome – what scientists refer as DNAm (where the "m" represents methylation). Dr. Steven Horvath, a professor of genetics and biostatistics at UCLA, analyzed large data sets of DNA methylation profiles to derive an algorithm based on the methylation patterns at 353 CpG sites. His algorithm, which he named the pan-tissue aging clock for its versatility, accurately predicted a person's age across multiple cells, tissues, and organs, and even mammalian species.

Horvath's clock demonstrated that people's epigenetic age, or DNAm age, may differ from their chronological age, suggesting they are biologically older or younger than expected. Several lines of evidence suggest that the epigenetic aging rate is heritable and remains constant across the lifespan. The difference between a person's epigenetic age and their chronological age is known as age acceleration. A growing body of evidence suggests that increased epigenetic age acceleration – which would be evident in someone whose DNAm age is much older than their chronological age – is associated with many age-related diseases. But the converse is also true: Centenarians, who live to be over the age of 100 years, live longer, healthier lives, a consequence of their reduced epigenetic age acceleration.

To further develop the epigenetic clock (to incorporate biologically relevant biomarkers into the clock) Dr. Horvath and his colleagues combined 513 CpG sites with phenotypic biomarkers of aging to generate a second clock, known as DNAm PhenoAge. The most recently developed clock, DNAm GrimAge, predicts time to death in units of years and tests whether potential lifestyle interventions may slow or reverse biological aging. GrimAge was created using 1,030 CpG sites, along with epigenetic proxies for smoking pack-years and 12 plasma proteins commonly associated with mortality. It is far more accurate than any other epigenetic clock.

Much of the epigenetic clock is under genetic control.

"The epigenetic clock is very much under genetic control. Some people just inherit DNA that allows their epigenetic clock to progress more slowly."- Dr. Steve Horvath Click To Tweet

Evidence indicates that the heritability of epigenetic aging is about 40 percent. This is seen in supercentenarians and their offspring, who tend to age slower than their younger counterparts. Furthermore, the rate of epigenetic aging is stable over the lifespan, suggesting that people who age slowly at 20 years will age slowly at 60 years. Thus, some people have epigenetic clocks that tick slower or faster than others.

Upstream regulation of methylation

Many different factors may influence the activation of enzymes directly involved in the methylation and demthylation happening at the level of our DNA, which suggest that there may be certain up-stream targets that could be attractive for therapeutic aging interventions.

Some factors control the clock's rate and can even slow or reset it in humans.

Genetics are important in controlling the clock's rate, but lifestyle matters, too. Conventional health advice, such as healthy eating, physical activity, and education level are linked with slowed epigenetic aging, albeit weakly, and obesity, sleep deprivation, and smoking are linked with accelerated epigenetic aging. Many laboratories are studying interventions that might slow the rate of epigenetic aging in humans, and findings from a small intervention study showed favorable results.

Reprogramming cells can reset the epigenetic clock.

In recent decades, scientist Shinya Yamanaka identified a group of proteins that can reprogram differentiated (mature) cells into pluripotent stem cells. These five proteins, now named Yamanaka factors, are highly expressed in embryonic stem cells in mice and humans. Using mouse fibroblast cells, Yamanaka demonstrated that expression of four of these factors turned the fibroblast cells to pluripotent stem cells that can form any cell type, earning him the Nobel Prize in Physiology or Medicine in 2012. Other research demonstrated that resetting aging cells to a youthful state in animal models produced fewer signs of aging and longer lifespans. These findings suggest that reprogramming is a viable anti-aging intervention for use in clinical settings.

Lifestyle factors still matter.

"Obese people age faster, in blood. However, the strongest effect can be found in liver tissue. Obesity greatly accelerates the epigenetic age of liver tissue."- Dr. Steve Horvath Click To Tweet

Certain lifestyle behaviors such as exercising, maintaining a healthy body weight, and not smoking may slow aging, but studying these relationships presents many challenges. Even so, preclinical studies indicate that caloric restriction slows the epigenetic clock, providing a molecular basis for the longevity-enhancing aspects of reducing caloric intake. The effects of caloric restriction on DNA methylation were detectable across multiple tissue types and correlated closely with gene expression, suggesting that epigenetic drift was a principal determinant of lifespan in the animals under study. Epigenetic aging appears to accelerate with obesogenic diets, contributing to metabolic dysfunction across multiple generations.

Efforts to promote healthy aging center on extending healthspan, effectively rounding off the statistical curve of age-related disease and compressing the number of years spent in poor health.

Stem cell transplantation provides insights into the promise of cellular rejuvenation in humans.

Hematopoietic stem cell transplantation, a treatment for certain types of cancer, often involves transplanting stem cells between donors and recipients who are of different ages. Scientists have assessed whether transplanted blood retains the age of the donor or acquires that of the recipient. They have observed that the epigenetic clock of transplanted cells synchronized with the donor rather than the recipient, thus retaining the epigenetic age of the donor and remaining unaffected by the cellular environment or niche of the recipient. Once transplanted, cells age as if they were still in the donor's body, offering promise for the idea of rejuvenation in humans.

The workings of the epigenetic clock are yet to be unraveled.

One of the primary limitations of epigenetic clocks is that their underlying mechanisms are unknown. Commercial applications of the clocks are emerging; however, the clocks are not validated for use as clinical biomarkers for individual use, but rather to look at trends across larger studies. Regardless of the limitations of current studies in helping to immediately isolate specific drivers of aging, the clocks should provide a means of assessing cellular age under experimental conditions and make possible the direct testing of hypotheses about the causes of aging or the effectiveness of anti-aging interventions.

In this episode, Dr. Steven Horvath describes epigenetic clocks and their role in predicting – and possibly slowing – aging.

Relevant resources

Relevant studies:

FoundMyFitness articles and episodes:

Learn more about Dr. Steve Horvath:

Attend Monthly Q&As with Rhonda

Support our work

The FoundMyFitness Q&A happens monthly for premium members. Attend live or listen in our exclusive member-only podcast The Aliquot.

Become a premium member and get access to all our member benefits starting at $15/mo. Sign up for an annual subscription and receive an additional 15% discount.

Epigenetics Videos