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Pediatric Malabsorption Syndromes

  • Author: Stefano Guandalini, MD; Chief Editor: Carmen Cuffari, MD  more...
Updated: Jul 17, 2015


Malabsorption syndromes encompass numerous clinical entities that result in chronic diarrhea, abdominal distention, and failure to thrive.[1] Clinical malabsorption can be broken down into several distinct conditions, both congenital and acquired, that affect one or more of the different steps in the intestinal hydrolysis and subsequent transport of nutrients.

The major site of absorption is the small intestine, as depicted in the illustration below.

The small intestine is a major site of absorption. The small intestine is a major site of absorption.


Carbohydrate, fat, or protein malabsorption is caused by a disorder in the intestinal processes of digestion, transport, or both of these nutrients across the intestinal mucosa into the systemic circulation. Either a congenital abnormality in the digestive or absorptive processes or, more commonly, a secondarily acquired disorder of such processes may result in malabsorption.


Of the carbohydrates most commonly present in the diet (starches, sucrose, lactose), only starches require preliminary luminal digestion by salivary and, more importantly, pancreatic amylases. Despite the slow development of pancreatic amylase, whose secretion reaches adult levels during the end of the first year of life, cooked starch malabsorption is rare in infants because of the activity of the brush-border bound glucoamylase, an esoglycosidase that develops early in life.

The final products of amylase digestion include maltose, maltotriose, and higher residues of glucose polymers. The final hydrolysis of disaccharides and oligosaccharides occurs at the brush border of the enterocytes, where sucrase-isomaltase breaks down maltose, isomaltose (to glucose), and sucrose (to glucose and fructose); glucoamylase releases glucose from glucose polymers; and lactase splits lactose into glucose and galactose. Subsequent entry of the final monosaccharides (glucose, galactose, fructose) into the enterocytes through the brush border occurs via carrier molecules. Glucose and galactose share the same carrier, SGLT-1, which transports one molecule of the monosaccharide and one molecule of sodium (Na) in a secondarily active transport, energized by Na-activated and potassium (k)-activated adenosine triphosphatase (NaK ATPase). Instead, fructose uses a carrier that allows its entry only down a concentration gradient (facilitated diffusion).

Disorders of these processes can be congenital (cystic fibrosis and Shwachman-Diamond syndrome, which may cause amylase deficiency; the extremely rare congenital lactase deficiency; glucose-galactose malabsorption; sucrase-isomaltase deficiency; adult-type hypolactasia) or acquired: the most common being lactose intolerance, typically secondary to a damage of the mucosa, such as a viral enteritis or conditions that cause mucosal atrophy, such as celiac disease.


Proteins are first digested in the stomach, where pepsinogens, which are activated to pepsins by a pH of less than 4, hydrolyze them in large molecular weight peptides. Upon entering the duodenum, the pancreatic proteases (activated by trypsin, secreted by the pancreas as a proenzyme, trypsinogen, which is subsequently activated by the brush border–bound enterokinase) further split them into low molecular weight peptides and free amino acids.

Interestingly, the final breakdown products of intraluminal digestion of protein are composed of low molecular weight peptides (2-6 amino acid residues) for 70% and of free amino acids for 30%. Subsequently, brush border–bound peptidases further hydrolyze peptides to release a mixture of free amino acids and small peptides (2-3 amino acid residues). Finally, free amino acids are taken up by enterocytes through specific Na-linked carrier systems (5 carriers with selective affinities for groups of amino acids are described), whereas the small peptides are translocated into the absorptive epithelial cells by a system with a broad specificity, linked to H entry. Of interest, in the first few months of life, the latter system is much more active than those that transport amino acids and is thought to play a bigger physiological role.

Congenital disorders of protein digestion include conditions such as cystic fibrosis, Shwachman-Diamond syndrome, and enterokinase deficiency, which cause inadequate intraluminal digestion. No congenital defects have been described in any of the brush border–bound peptidases or in the peptide carrier.

Acquired disorders of protein digestion and/or absorption are nonspecific (ie, they also affect the absorption of carbohydrates and lipids) and are found in conditions that result in damage to the absorptive intestinal surface, such as extensive viral enteritis, milk protein allergy enteropathy, and celiac disease.


A lingual lipase is responsible for the first partial hydrolysis of triglycerides; this enzyme becomes active in persons with low gastric pH levels and is active even in premature infants. However, the largest part of triglyceride digestion is accomplished in the duodenojejunal lumen because of a complex of pancreatic enzymes, the most important of which is the lipase-colipase complex. Like amylase, these enzymes also develop slowly, and this accounts for the known low capacity of babies to absorb lipids, termed physiologic steatorrhea of the newborn. Additionally, adequate concentrations of intraluminal conjugated bile salts are needed to form micelles, and the secretion of bile acids may also be partially inadequate in very young patients.

Disorders of these processes can be congenital (cystic fibrosis and Shwachman-Diamond syndrome, which cause lipase and colipase deficiency; the uncommon isolated deficiency of lipase and colipase; the extremely rare congenital primary bile acid malabsorption, which results in low bile acids concentrations) or acquired (secondary mostly to disorders of the liver and the biliary tract or to chronic pancreatitis). Clearly, any condition that results in the loss of small intestinal absorptive surface also causes steatorrhea.




United States

Genetically determined syndromes

The prevalence of celiac disease in the United States is around 1% of the general population[2] and has increased over time.[3] Celiac disease in its entirety (ie, including the forms without overt malabsorption) is by far the most common inherited malabsorption syndrome. Cystic fibrosis is the second most common malabsorption syndrome. Other congenital disorders are rare, with the exception of adult-type hypolactasia, which has a prevalence that varies greatly among different ethnic groups.

Acquired syndromes

Cow's milk and soy milk protein allergies are common, especially in infants and young children.[4] The prevalence of milk protein allergy, of which enteropathy is one of the presenting clinical symptoms, is estimated to be around 3%. A transient and common form of malabsorption in infants results from acute-onset enteritis (mostly viral, specifically rotaviral), which causes transient lactose intolerance. Although toddler's (or unspecific) diarrhea accounts for approximately 7.5% of referrals to pediatric gastroenterologists, it should not be considered a malabsorption syndrome because, by definition, no digestive or absorptive processes are impaired.

Secondary malabsorption syndromes that result from liver, pancreas, and intestinal diseases are uncommon. The manifestations vary according to the severity of each disease and the extent of intestinal mucosal injury.


Although the morbidity can be severe, and aside from the single entity of cystic fibrosis, common malabsorption syndromes carry low mortality rates. Neonates and young infants, especially those with signs of malnutrition, are particularly at risk. In many of the congenital syndromes, morbidity varies with the particular syndrome and may be associated with systemic manifestations of the disease.


Congenital sucrase-isomaltase deficiency is most common in Canadian Eskimos and natives of Greenland. Deficiency of trehalose, a sugar found almost exclusively in mushrooms, is rare, except in natives of Greenland. Adult-onset lactase deficiency is most common in persons of Asian, African, and Mediterranean descent.


Celiac disease is slightly more common in females. Autoimmune enteropathy is an X-linked disorder that only affects males in familial cases.


Neonates and young infants with malabsorption syndromes are at particularly high risk for chronic diarrhea and malnutrition. Symptoms of a congenital disease are usually apparent shortly after birth (the exception being adult-onset lactase deficiency, which appears only after age 6-8 y) or after a short hiatus once a particular substance is ingested in substantial amounts. Protein sensitivity syndromes to milk or soy protein usually present in infants younger than 3 months, but solid food protein sensitivity syndromes are also known to occur in older patients.

Contributor Information and Disclosures

Stefano Guandalini, MD Founder and Medical Director, Celiac Disease Center, Chief, Section of Pediatric Gastroenterology, Hepatology and Nutrition, Department of Pediatrics, University of Chicago Medical Center; Professor, Department of Pediatrics, Section of Gastroenterology, Hepatology and Nutrition, University of Chicago Division of the Biological Sciences, The Pritzker School of Medicine

Stefano Guandalini, MD is a member of the following medical societies: American Gastroenterological Association, North American Society for Pediatric Gastroenterology, Hepatology and Nutrition, European Society for Paediatric Gastroenterology, Hepatology & Nutrition, North American Society for the Study of Celiac Disease

Disclosure: Received consulting fee from AbbVie for consulting.


Richard E Frye, MD, PhD Associate Professor of Pediatrics, University of Arkansas for Medical Sciences College of Medicine; Director of Autism Research, Child and Behavioral Neurologist, Arkansas Children's Hospital Research Institute

Richard E Frye, MD, PhD is a member of the following medical societies: American Academy of Neurology, American Academy of Pediatrics, Child Neurology Society, International Neuropsychological Society

Disclosure: Nothing to disclose.

M Akram Tamer, MD Professor, Program Director, Department of Pediatrics, University of Miami, Leonard M Miller School of Medicine

M Akram Tamer, MD is a member of the following medical societies: American Medical Association, Florida Medical Association

Disclosure: Nothing to disclose.

Catherine D Newland, MD Pediatric Gastroenterology Fellow, Comer Children’s Hospital, University of Chicago

Catherine D Newland, MD is a member of the following medical societies: American Academy of Pediatrics, North American Society for Pediatric Gastroenterology, Hepatology and Nutrition

Disclosure: Nothing to disclose.

Specialty Editor Board

Mary L Windle, PharmD Adjunct Associate Professor, University of Nebraska Medical Center College of Pharmacy; Editor-in-Chief, Medscape Drug Reference

Disclosure: Nothing to disclose.

B UK Li, MD Professor of Pediatrics, Division of Gastroenterology, Hepatology and Nutrition, Medical College of Wisconsin; Attending Gastroenterologist, Director, Cyclic Vomiting Program, Children’s Hospital of Wisconsin

B UK Li, MD is a member of the following medical societies: Alpha Omega Alpha, American Gastroenterological Association, North American Society for Pediatric Gastroenterology, Hepatology and Nutrition

Disclosure: Nothing to disclose.

Chief Editor

Carmen Cuffari, MD Associate Professor, Department of Pediatrics, Division of Gastroenterology/Nutrition, Johns Hopkins University School of Medicine

Carmen Cuffari, MD is a member of the following medical societies: American College of Gastroenterology, American Gastroenterological Association, North American Society for Pediatric Gastroenterology, Hepatology and Nutrition, Royal College of Physicians and Surgeons of Canada

Disclosure: Received honoraria from Prometheus Laboratories for speaking and teaching; Received honoraria from Abbott Nutritionals for speaking and teaching. for: Abbott Nutritional, Abbvie, speakers' bureau.

Additional Contributors

Eric S Maller, MD 

Eric S Maller, MD is a member of the following medical societies: American Association for the Study of Liver Diseases, American Gastroenterological Association, American Society of Transplant Surgeons, North American Society for Pediatric Gastroenterology, Hepatology and Nutrition

Disclosure: Nothing to disclose.

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The small intestine is a major site of absorption.
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