Severe Gut Microbiota Dysbiosis Is Associated with Poor Growth in Patients with Short Bowel Syndrome

Hannah G Piper, Di Fan, Laura A. Coughlin, Evi X. Ho, Margaret M. McDaniel, Nandini Channabasappa, Jiwoong Kim, Minsoo Kim, Xiaowei Zhan, Yang Xie, Andrew Koh

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

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 ‡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.

Original languageEnglish (US)
Pages (from-to)1202-1212
Number of pages11
JournalJournal of Parenteral and Enteral Nutrition
Volume41
Issue number7
DOIs
StatePublished - Sep 1 2017

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Dysbiosis
Short Bowel Syndrome
Growth
Gastrointestinal Microbiome
16S Ribosomal RNA
RNA Sequence Analysis
Metagenomics
Aromatic Amino Acids
Gluconeogenesis
Volatile Fatty Acids
Microbiota
Firearms
Enterobacteriaceae
Citric Acid
Genes
Anatomy

Keywords

  • life cycle
  • microbiome
  • pediatrics
  • research and diseases
  • short bowel syndrome

ASJC Scopus subject areas

  • Medicine (miscellaneous)
  • Nutrition and Dietetics

Cite this

Severe Gut Microbiota Dysbiosis Is Associated with Poor Growth in Patients with Short Bowel Syndrome. / Piper, Hannah G; Fan, Di; Coughlin, Laura A.; Ho, Evi X.; McDaniel, Margaret M.; Channabasappa, Nandini; Kim, Jiwoong; Kim, Minsoo; Zhan, Xiaowei; Xie, Yang; Koh, Andrew.

In: Journal of Parenteral and Enteral Nutrition, Vol. 41, No. 7, 01.09.2017, p. 1202-1212.

Research output: Contribution to journalArticle

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abstract = "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 ‡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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AU - Piper, Hannah G

AU - Fan, Di

AU - Coughlin, Laura A.

AU - Ho, Evi X.

AU - McDaniel, Margaret M.

AU - Channabasappa, Nandini

AU - Kim, Jiwoong

AU - Kim, Minsoo

AU - Zhan, Xiaowei

AU - Xie, Yang

AU - Koh, Andrew

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