Gastrointestinal malabsorption
Peer reviewed by Dr Colin Tidy, MRCGPLast updated by Dr Hayley Willacy, FRCGP Last updated 30 Nov 2022
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Gastrointestinal malabsorption syndrome means a failure to fully absorb digested foods from the gut (bowel) into your body. There are many different causes. Prolonged intestinal malabsorption may cause problems because of a lack of carbohydrates, proteins, fats, minerals and vitamins that are essential to keep you healthy.
The treatment will depend on the cause of malabsorption but will also include supplements and other ways to make up for the reduced amount of carbohydrate, protein, fat, minerals and vitamins getting into your gastrointestinal tract.
At a glance
Gastrointestinal malabsorption is when your gut cannot absorb nutrients from food properly.
Symptoms include tiredness, weight loss, and chronic diarrhoea.
Stools may be pale, bulky, smelly, and difficult to flush.
It can lead to deficiencies like iron, folate, and vitamin B12 deficiency.
Common causes in the UK include coeliac disease, Crohn's disease, and chronic pancreatitis.
Treatment focuses on the underlying cause and nutritional support.
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What are the symptoms of gastrointestinal malabsorption?
There may be no symptoms if the malabsorption is mild and has not continued for very long. More severe or persistent malabsorption may lead to:
Tiredness (fatigue)
This is because of a lack of energy as you are not absorbing nutrients and essential vitamins and minerals from food.
Weight loss
If you can't absorb enough energy (calories) from your food then this will cause you to lose weight (and may cause poor growth in children).
Persistent (chronic) diarrhoea
This is a common symptom of persistent malabsorption.
Pale, bulky and smelly stools (steatorrhoea)
This is because there is excessive fat in the stools and they become pale, bulky and very smelly. Fatty stools float and are difficult to flush away. They often leave a greasy rim around the pan.
Intestinal malabsorption may also cause:
Abnormal bleeding, caused by low vitamin K.
Oedema, which occurs because of insufficient protein and calories absorbed into the body.
There may also be other symptoms due to the particular underlying condition that is causing the malabsorption.
What are the causes of gastrointestinal malabsorption?
Back to contentsThe most common causes in the UK are coeliac disease, Crohn's disease and chronic pancreatitis. However, the malabsorption of simple carbohydrates affects about 1 in 4 people in Europe. Some diseases associated with malabsorption are found more often in some families - for example, coeliac disease, Crohn's disease, cystic fibrosis and lactose intolerance.
The causes of gastrointestinal malabsorption include:
Problems with absorbing food from the gut (bowel) into your body
Coeliac disease - a long-term disease that mostly affects the small intestine.
Soya milk intolerance.
Fructose intolerance.
Infection - for example, intestinal tuberculosis, traveller's diarrhoea.
Immune deficiency - for example, HIV infection.
Pancreatic insufficiency - for example, cystic fibrosis, chronic pancreatitis, pancreatic cancer.
Structural causes
Malabsorption may be cause by loss of part of the bowel that is essential to absorb the broken down (digested) food into the body - for example:
Removal of the stomach or part of the bowel after a stomach or bowel operation.
Causes outside the bowel
Examples include:
Eating disorders: anorexia nervosa, bulimia nervosa.
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What tests are needed?
Back to contentsInitial tests will include blood tests and stool tests. Further tests may include an abdominal ultrasound scan, barium studies and a computerised tomography (CT) scan or a magnetic resonance imaging (MRI) scan. Any further tests will depend on the likely underlying cause of the intestinal malabsorption.
What are the treatments for gastrointestinal malabsorption?
Back to contentsThe treatment will mainly depend on the underlying cause of the malabsorption. However, treatment will also be needed to increase the amount of essential nutrients in the body, including carbohydrates, proteins, fats, minerals and fat-soluble vitamins (nutritional support).
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Frequently asked questions
Can mild malabsorption be present without me noticing any symptoms?
Yes, if the malabsorption is mild and has not been ongoing for a long time, you might not experience any noticeable symptoms.
Why would I feel tired if I have malabsorption?
Tiredness, or fatigue, can occur because your body isn't absorbing enough essential nutrients, vitamins, and minerals from your food. This means you don't have enough energy.
What kind of problems can malabsorption cause with my stools?
Malabsorption can lead to persistent (chronic) diarrhoea. You might also notice that your stools are pale, bulky, very smelly, and difficult to flush away. These fatty stools often float and can leave a greasy ring around the toilet bowl.
Could malabsorption affect my bones or cause unusual bleeding?
Yes, malabsorption can lead to several specific deficiencies. This includes vitamin D deficiency, which can cause rickets and osteomalacia (softening of bones), and low vitamin K, which can result in abnormal bleeding.
Is it possible for malabsorption to cause swelling in my body?
Yes, malabsorption can cause oedema, which is swelling. This happens if your body isn't absorbing enough protein and calories.
I've heard of coeliac disease and Crohn's disease, but what are some other common causes of malabsorption?
Besides coeliac disease and Crohn's disease, chronic pancreatitis is another common cause in the UK. Globally, problems with absorbing simple carbohydrates affect a significant number of people. Other causes can include various intolerances like lactose, cow's milk protein, or fructose, infections like traveller's diarrhoea, or immune deficiencies such as HIV.
Can surgery on my digestive system lead to malabsorption?
Yes, if part of your stomach or bowel is removed during surgery, it can lead to malabsorption. This is because these parts are essential for absorbing digested food into your body.
Further reading and references
- Zuvarox T, Belletieri C; Malabsorption Syndromes. StatPearls, July 2021.
- Ozaki RKF, Speridiao PDGL, Soares ACF, et al; Intestinal fructose malabsorption is associated with increased lactulose fermentation in the intestinal lumen. J Pediatr (Rio J). 2018 Nov - Dec;94(6):609-615. doi: 10.1016/j.jped.2017.08.006. Epub 2017 Oct 28.
- Montoro-Huguet MA, Belloc B, Dominguez-Cajal M; Small and Large Intestine (I): Malabsorption of Nutrients. Nutrients. 2021 Apr 11;13(4). pii: nu13041254. doi: 10.3390/nu13041254.
- Massironi S, Cavalcoli F, Rausa E, et al; Understanding short bowel syndrome: Current status and future perspectives. Dig Liver Dis. 2020 Mar;52(3):253-261. doi: 10.1016/j.dld.2019.11.013. Epub 2019 Dec 28.
- Brar HS, Aloysius MM, Shah NJ; Tropical Sprue. StatPearls, Jan 2023.
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About the authorView full bio

Dr Colin Tidy, MRCGP
General Practitioner, Medical Author
MBBS, MRCGP, MRCP (Paediatrics), DCH
Dr Colin Tidy is an NHS Doctor, based in Oxfordshire.
About the reviewerView full bio

Dr Colin Tidy, MRCGP
General Practitioner, Medical Author
MBBS, MRCGP, MRCP (Paediatrics), DCH
Dr Colin Tidy is an NHS Doctor, based in Oxfordshire.
Article history
The information on this page is written and peer reviewed by qualified clinicians.
Next review due: 2 Nov 2027
30 Nov 2022 | Latest version
1 Aug 2017 | Originally published
Authored by:
Dr Colin Tidy, MRCGP

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