Journal
JOURNAL OF PARENTERAL AND ENTERAL NUTRITION
Volume 41, Issue 7, Pages 1202-1212Publisher
SAGE PUBLICATIONS INC
DOI: 10.1177/0148607116658762
Keywords
pediatrics; life cycle; microbiome; research and diseases; short bowel syndrome
Categories
Funding
- American Pediatric Surgical Association Foundation
- Roberta I. and Normal L. Pollock Fund
- Global Probiotics Council Young Investigator Grant for Probiotics
- National Institutes of Health (NIH) [P30CA142543, 5R01CA152301, R01CA172211]
- NATIONAL CANCER INSTITUTE [R01CA172211, P30CA142543, R01CA152301] Funding Source: NIH RePORTER
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Background: Children with short bowel syndrome (SBS) can vary significantly in their growth trajectory. Recent data have shown that children with SBS possess a unique gut microbiota signature compared with healthy controls. We hypothesized that children with SBS and poor growth would exhibit more severe gut microbiota dysbiosis compared with those with SBS who are growing adequately, despite similar intestinal anatomy. Materials and Methods: Stool samples were collected from children with SBS (n = 8) and healthy controls (n = 3) over 3 months. Gut microbiota populations (16S ribosomal RNA sequencing and metagenomic shotgun sequencing) were compared, including a more in-depth analysis of SBS children exhibiting poor and good growth. Statistical analysis was performed using Mann-Whitney, Kruskal-Wallis, and chi(2) tests as appropriate. Results: Children with SBS had a significant deficiency of the commensal Firmicutes order Clostridiales (P = .025, Kruskal-Wallis) compared with healthy children. Furthermore, children with SBS and poor growth were deficient in beneficial bacteria known to produce short-chain fatty acids and had expansion of proinflammatory Enterobacteriaceae (P = .038, Kruskal-Wallis) compared with children with SBS who were growing adequately. Using metabolic function analyses, SBS/poor growth microbiomes were deficient in genes needed for gluconeogenesis but enriched in branched and aromatic amino acid synthesis and citrate cycle pathway genes. Conclusions: Patients with SBS, particularly those with suboptimal growth, have a marked gut dysbiosis characterized by a paucity of beneficial commensal anaerobes, resulting in a deficiency of key metabolic enzymes found in the gut microbiomes of healthy children.
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