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Special Report on Epigenetics: More than a number

Epigenetics shows that not all aging is created equal
Written byRandall C Willis
| 16 min read

Age is simply a state of mind. You’re only as old as you think you are. Age is just a number.

The adages pile up and yet, for many, it is impossible to look beyond the noises our bodies make simply by rising from the couch, the number of trips to the restroom each night and the extra time it takes to focus on words on a page or fleeting thoughts in our heads.

We monitor our diet. We exercise. We reduce stress.

We are careful about environmental impacts, spending a fortune on air purifiers, water filters and organic foods.

We cannot (yet) change our genetics and familial legacies, but at a molecular level, these choices can have an impact. Although it may be impossible to alter our chronological age, we may yet be able to modulate our biological age through efforts reflected in epigenetic changes in our genetic machinery.

Time flies

That the epigenetic profiles of organisms change quite naturally over time is nothing new, according to Keith Booher, epigenetics service and product manager at Zymo Research.

“Developmental biologists have known for a long time that DNA methylation changes dramatically from the moment of conception,” he explains. “A fertilized single-celled zygote will have most of its DNA methylation pretty much erased.”

As the cells divide and the embryo grows during development, he continues, the patterns are then re-established. Thus, although every single cell in the body has the exact same genetic information, organs and tissues have very diverse functions.

“I think what we’re seeing now with [Steve] Horvath’s work is that this developmental process never really stops,” Booher enthuses.

In an epigenetic analysis of almost 8,000 samples covering 51 tissue and cell types, as well as almost 6,000 cancer samples, UCLA’s Steve Horvath identified a subset of 353 specific DNA methylation markers that accurately predicted the age of the sample donor. Horvath found that the markers could be divided into two subgroups based on how they correlated with age.

“The 193 positively and 160 negatively correlated CpGs get hypermethylated and hypomethylated with age, respectively,” he wrote back in 2013.

Horvath saw the potential for DNAm age, as he called it, as a surrogate to monitor rejuvenation therapies. But perhaps more important, he suggested, was its applicability to a wide variety of cell and tissue types.

“Since it allows one to contrast the ages of different tissues from the same subject, it can be used to identify tissues that show evidence of accelerated age due to disease (for example, cancer),” he concluded.

To a large extent, Horvath’s predictions came true as his epigenetic clock model, as well as those developed by others, have become fundamental tools of age-related research and have even started to enter the direct-to-consumer market.

Last summer, for example, Epimorphy started offering myDNAge as a biological aging resource to consumers, in a model similar to the more familiar 23andMe mutational analysis resource. Epimorphy licensed the technology from Zymo Research, which continues to provide its research-only DNAge test to scientists performing studies with human samples, as well as mice.

“In terms of function, age-associated CpGs in humans and mice seem to be enriched in genes that are involved in morphogenesis and development,” Wolfgang Wagner of the University Hospital of the RWTH Aachen recently wrote. “However, in both species age-associated DNAm changes are not generally reflected at the gene expression level—and thus the biological relevance remains largely unclear.”

A complicating factor in aging-associated epigenetic studies, as with so many other pursuits, is the translation of results from in-vitro and animal studies to humans.

“Given the timespan of human generations and events involving manipulation of a real human environment, these studies are extremely low in number,” suggests Terry Kelly, director of R&D at Active Motif. A second major challenge, she continues, is an inability to employ canonical epigenetic features in the face of psychosocial, lifestyle and nutritional confounders.

“A new term—the epigenetic landscape—has being coined to include address of non-canonical features (e.g., non-coding or nc-RNAs) that interconnect environmental change with actual biochemical regulatory networks,” Kelly says. “This is well documented for nutrition and has translated well into clinical studies.”

Despite having been studied for upward of 50 years, she continues, it is only now that the understanding of human epigenetic regulation is starting to account for life course variation, health span (the period over which an individual experiences no major health issues) and the newly emerging awareness of the role of the microbiome in human health.

Disease, not age

As the concept of health span would indicate, however, aging itself is not a disease state—Western society’s fixation on and fear of it notwithstanding. It is, however, a predominant risk factor for a variety of medical conditions.

As Paul Shiels of the Glasgow Ageing Research Network explains, human aging is associated with chronic inflammation—also known as inflammaging—a proven risk factor for morbidity and mortality.

“Many age-related morbidities present with an underlying component of low-grade inflammation, though its etiology remains undetermined,” he continues. “Typically, it manifests with an increased frequency of age-related complications, such as vascular stiffening, osteoporosis, muscle wasting, depression, cognitive dysfunction and frailty.”

This results in a loss of physical capability and physiological function, Shiels notes.

“However, the degree of inter-individual variation in individuals of the same chronological age is substantial and the causes of this variation are multifactorial,” he says.

Shiels differentiates this chronological aging from biological aging.

“A growing body of evidence has indicated that social, psychological, lifestyle and nutritional risk factors influence the trajectory of age-related health and age-related morbidities, such as chronic kidney disease, by acting either independently, cumulatively or synergistically with an individual’s genetics, and in particular epigenetics, thus determining health span,” he presses.

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