Digesting Carbohydrates: Amylase variants

Carbohydrate digestion begins in the mouth with an enzyme called amylase.  Saliva mixes with your food as you chew it, and the amylase in saliva begins breaking down carbohydrates into simple sugars.  Amylase is also produced by the pancreas and used for further breaking down carbs in the small intestines.

This article explains how the amylase enzyme works, genetic variants that impact your production of amylase, and solutions if you are low in amylase.

Breaking down carbohydrates:

While amylase isn’t the only enzyme involved in breaking down carbohydrates, it is the first step. Amylase helps convert starches eventually into maltose or maltotriose, which are then converted by the enzymes maltase into glucose in the small intestines. Glucose then is utilized by the body for energy production.

Interesting side note: Vampire bats are the only mammals not to produce maltase.

Amylase genes, weight, and carbs:

Amylase is coded for by the genes AMY1 in the saliva, and AMY2A and AMY2B in the pancreas. These genes vary widely in the number of copies of the gene that a person can have.  For example, the AMY1 gene can vary between 2 and 17 copies, thus giving a wide variation in the amount of amylase a person normally secretes in their saliva.[ref]

Several studies found low AMY1 copy numbers are associated with higher BMI.[ref][ref][ref] In contrast, a study published in Nature Genetics in 2015 found no association between amylase copy numbers and BMI.

Let’s look at this more in-depth to see what is going on…
A 2019 study of overweight and obese children in Alabama found that children who were overweight/obese had an average of 6 copies of the aMY1 gene – compared with normal-weight children who had an average of 8 copies of the AMY1 gene. This correlation was even stronger in African American children.[ref]

Part of the discrepancy between studies may be differences in diet in the populations – perhaps it is a mismatch between the percentage of carbs in the diet and the ability to break down carbohydrates that cause an increase in BMI.

One study showed that not only is a low AMY1 copy number associated with increased susceptibility to obesity, but it is also associated with changes to the gut microbiome. Children with low AMY copy numbers also had lower numbers of Prevotella bacteria.  [ref] A higher ratio of Prevotella to Bacteroides bacteria in the gut microbiome is linked to greater weight loss.[ref]

Evolutionary theory on amylase and agriculture:

Researchers in the past had theorized that people adapted multiple copies of amylase after humans made the transition from hunter-gatherers to agricultural societies.

DNA evidence, though, showed this to be incorrect. The ancient DNA from 8,000-year-old hunter-gatherer skeletons in Europe showed that the Mesolithic residents had a high level of amylase (high copy number for the AMY1 gene). Since this population was still hunter-gatherers and not agrarian, the DNA evidence has put a damper on the prior theories. Other DNA studies point to the high amylase production being evident since Neanderthals intermixed with Homo sapiens.[ref]

What else does research show about amylase?

  • Cellulose can inhibit amylase activity.[ref] This makes me wonder if the presence of cellulose gum in processed food products makes a difference in how we break down processed foods?
  • Tannins in sorghum reduce amylase activity.[ref]
  • Tea polyphenols also inhibit amylase.[ref]
  • Lower amylase activity is associated with higher reliance on fatty acids for energy.[ref]
  • Higher amylase activity was associated with lower blood glucose concentration after eating starch in a small study (14 people).[ref]

23andMe and AncestryDNA data do not give copy number variation information, but several studies have linked specific SNPs to higher or lower amylase activity and copies of the gene.

AMY1-AMY2 Genetic variants that impact amylase

Members: Log in to see your data below.
Not a member? Join now.
Several studies show associations between the rs11185098 variant and amylase activity. The  A allele has higher amylase activity and the G/G genotype has the lowest amylase activity.[ref][ref][ref]

study looking at the effects of different weight-loss diets over a two year period found that those with higher amylase activity (carriers of the A allele for rs11185098) were less likely to regain the weight that they had lost. Those that carried the G allele tended to regain the weight. This interesting study showed that the type of diet (low carb, low fat, high protein, etc) did not have an effect on weight loss based on amylase activity.

Another study linked a tendency towards higher carbohydrate and starch intake to those with the A allele, but, at least in a Caucasian population, those with the minor (A) allele also had a lower overall caloric intake.[ref]

Check your genetic data for rs11185098 (23andMe v4 only):

  • A/A: higher amylase activity  -Great at breaking down carbs.
  • A/G: intermediate amylase activity  – Good at breaking down carbs.
  • G/G: lower amylase activity

Members: Your genotype for rs11185098 is .




There are many digestive enzyme supplements available that contain amylase. If you are a low amylase producer, you may want to experiment and see whether an amylase enzyme supplement at mealtime is effective in helping you break down starches.

Blood glucose levels:

If you have problems with regulating blood glucose levels, you may want to slow down the digestion of carbohydrates by inhibiting amylase. Drinking tea (not sweet tea!) with your meal may inhibit the amylase and slow the digestion of carbs. [ref]


Coming back to the study referenced above that found that cellulose inhibits the amylase enzyme… If you eat processed or packaged foods (like most everyone does), you are likely eating a lot more added cellulose than you think.  Check out the labels, and take a look at my article on emulsifiers and your gut microbiome.  Consider cutting out the processed, packaged foods.

It may be worth experimenting with your diet based on your amylase production — perhaps reducing the proportion of carbs in a meal if you are a low amylase producer would make a difference in how you feel after the meal? Experiment and see if replacing some of the carbs with lower carb alternatives makes a difference.

Related Articles

Hunter-Gatherer vs. Farmer Genes
Our ancient ancestors lived much differently than we do today. They were hunter-gatherers, living off of fish, meat, and plant foods that they gathered. A huge shift took place when those hunter-gatherers began farming, growing grains, and storing them so that there would be food available all year. Learn if you carry the hunter-gatherer or farmer gene variant.

Mushroom Intolerance
Mushrooms contain a healthy antioxidant called ergothioneine. But for people with an OCTN1 genetic variant, this antioxidant can be too much of a good thing, leading to intestinal problems. Check your genetic data to see if you carry this mushroom intolerance variant.


About the Author:
Debbie Moon is the founder of Genetic Lifehacks. Fascinated by the connections between genes, diet, and health, her goal is to help you understand how to apply genetics to your diet and lifestyle decisions. Debbie has a BS in engineering and also an MSc in biological sciences from Clemson University. Debbie combines an engineering mindset with a biological systems approach to help you understand how genetic differences impact your optimal health.