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Aging 101


EPIGENETICS, DNA METHYLATION, AND THE SCIENCE OF BIOLOGICAL CLOCKS


OUR DNA MAKES US WHO WE ARE, BUT IT’S EPIGENETICS THAT BRINGS OUR STORY TO LIFE.
HERE’S THE SCIENCE OF EPIGENETICS, INCLUDING HOW IT WORKS AND HOW IT RELATES TO
BIOLOGICAL CLOCKS. 


Have you ever thought of writing a memoir? Well, you may be interested to know
that while you’re living, a memoir of sorts is already being written—by you. Or
by your epigenome, to be specific. The first part of this story was composed at
the point of conception, when your genome was created: the general instructions
for making you who you are. The epigenome is another layer of this story, the
ongoing narrative not yet written at birth, or what some scientists call “the
biological embedding of experience.” It’s a story written by experience and read
using advanced technology and algorithms, revealing many interesting aspects of
your health—including your biological age.  
 


WHAT IS EPIGENETICS?

Let’s start with a reminder about genetics: It’s the study of genes, the basic
units of inheritance passed down from your parents. Genes are particular
sequences of DNA, many of which are used to create proteins, each of which, in
turn, perform a particular function in your body. The epi in epigenetics comes
from the root Latin word meaning above, so epigenetics is sometimes described as
“above” or “in addition” to genetics. In practice, the term has become shorthand
for changes in organisms caused by the modification of gene expression (or
activity) rather than the alteration of the underlying genetic code itself. If
genes represent the written list of ingredients in a recipe, epigenetics
describes how much of each ingredient to use.

Among scientists, the definition gets a bit more particular as they distinguish
other ways of regulating gene expression from epigenetics. One broad definition
from the NIH Epigenomics Roadmap Project specifies that epigenetics includes
“both heritable changes in gene activity and expression (in the progeny of cells
or of individuals) and also stable, long-term alterations in the transcriptional
potential of a cell that are not necessarily heritable.” In other words, part of
your epigenetics was inherited from your parents, whereas others can be
attributed to your life-style and environmental factors. 
 


WHAT DOES EPIGENETICS HAVE TO DO WITH GENE EXPRESSION?

When we talk about gene expression, what we mean is how your genes are actually
used. In the broadest view, it’s the process in which the genetic code becomes
the person you are—the genotype becoming the phenotype. Gene expression can
include turning genes on and off or somewhere in between, controlling when
proteins are made and in what amount. Gene expression is regulated by a number
of factors, including epigenetic mechanisms. These are the most common (and most
studied) types of epigenetic mechanisms:



 * DNA methylation: A chemical marker is added to the DNA, usually signaling
   that the gene is in the “off” position, but not always. The modification is
   reversible: Demethylation erases the chemical marker.

 * Histone modification: DNA is wrapped around proteins called histones, which
   can be loosely wrapped and accessible  to being read—turned on, or tightly
   wrapped and unavailable to being read—turned off. 

 * Non-coding RNA: Non-coding RNA is RNA that is transcribed from DNA but not
   translated into proteins. Instead, it plays a number of roles in modifying
   gene expression. 

 
WHAT IS DNA METHYLATION?

DNA consists of a double strand of four different main nucleotides: cytosine,
adenine, guanine, and thymine. When methylation occurs, a small chemical group
called a methyl group is added at a particular location along the strand of DNA.
In humans, this mostly occurs where a cytosine nucleotide is found next to a
guanine nucleotide; this is called a CpG site. Often methylation means that a
gene is shut down, but methylation can actually increase or decrease the
expression of the gene, depending on its location.

DNA methylation is a part of normal cell function. In development, cells (which
all contain the same DNA) have particular genes turned on related to their
function and other genes turn off which are unrelated to their function—creating
the difference between a nerve cell and a muscle cell, for example. Likewise,
patterns of DNA methylation tend to change predictably with a person’s age.
Beyond normal development, DNA methylation is also a part of what scientists
call the biological embedding of experience, when our life experiences are
recorded in our epigenome and influence our gene expression. To take a concrete
example, exposure to cigarette smoke influences DNA methylation, in particular
at the AHRR gene. Nutrition, stress, physical activity, sleep, alcohol
consumption, and other factors can all influence DNA methylation.   
 


DNA METHYLATION AND BIOLOGICAL AGE CLOCKS

DNA methylation is the most studied of the epigenetic modifications, in part
because it has proven to be a new and very useful biomarker. A biomarker, or
biological marker, is any measurable indicator of a normal or abnormal process
happening in the body—usually found in blood, saliva, tissues, and elsewhere.
DNA methylation is a type of epigenetic biomarker that works by zooming in on
those CpG sites we mentioned earlier to better understand aspects of your
health. DNA methylation has proven especially useful at creating “epigenetic
clocks,” or algorithms that can look at lots of methylation sites and produce
accurate predictions about aging. 

Geneticist and biostatistician Steve Horvath created the first of these
epigenetic clocks that could predict chronological age—the number of years
you’ve been alive—by looking at DNA methylation. One of his early clocks looked
at 353 CpGs and was able to predict human age throughout life, from embryo to
old age. Later clocks were developed by other scientists, most notably Yale
researcher, Morgan Levine. Her DNAm PhenoAge clock was designed to predict
biological age: a measure of the average age at which your body is expected to
function, a number that tells you if you’re aging slower or faster than your
chronological age. 

We worked with Levine to develop Index by Elysium Health, which builds on her
previous work to create the most precise epigenetic biological age test
available. Index works by measuring DNA methylation at more than 100,000 sites
across your genome to determine your biological age and rate of aging. The
results produced by Index correspond closely with measures of physical fitness
and are a more accurate predictor of biological age than DNAm PhenoAge. Whereas
other clocks typically produce variations between technical replicates from
three to nine years, Index shows agreement across replicates within zero to 1.5
years. In addition to being more precise, Index also allows a much simpler and
non-invasive workflow—requiring only a saliva sample, rather than blood.
 

WHAT’S THE USE OF EPIGENETIC CLOCKS? 

For researchers, epigenetic clocks and epigenetic data more broadly represent an
opportunity to understand human health and aging in more detail than ever,
opening the door for new interventions and personalized medicine. For people who
don’t work in the lab but want to leverage the most advanced technology
available to understand more about their health, epigenetic clocks like Index
are valuable because they offer us a precise snapshot of how we’re aging. With
those results in hand we can all make science-backed adjustments to multiple
aspects of our lives—what we eat, how we exercise, sleep habits, meditation
rituals, even experiments with fasting—that may maintain or improve our
biological age and rate of aging.

 

Get Elysium news, subscriber-only product offers, and a monthly digest of new
research in the field of aging. Sign up for our newsletter.


NEXT UP:


GLOSSARY OF SCIENTIFIC TERMS

A collection of terms commonly used in aging research.


SYSTEM AGES: A DEEPER UNDERSTANDING OF HOW YOU’VE BEEN AGING

System ages represent the biological age of individual systems–including brain,
heart, metabolic, and immune–and provide a snapshot of their relative
contribution to your overall long-term health and wellness. Learn how we measure
them and what they mean to you.
Aging 101


ALCOHOL AND AGING—WHAT’S THE RELATIONSHIP?

While scientific research once supported the health benefits of moderate
drinking, recent studies have made a case for abstinence. One study found that
even one drink per day was associated with reduced global brain volume and two
years of brain aging for an average 50-year-old.
Aging 101
 1. 
 2. Aging 101
 3. Epigenetics, DNA Methylation, and the Science of Biological Clocks




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These statements have not been evaluated by the Food and Drug Administration.
These products are not intended to screen, diagnose, treat, cure, or prevent any
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by your healthcare professional, biological age should not be used to determine
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