Extensive modulation of the fecal metagenome in children with Crohn's disease during exclusive enteral nutrition

American Journal of Gastroenterology

Volumn 110, Issue 12, 2015, Pages 1718-1729

  Quince, Christopher ^a   Ijaz, Umer Zeeshan ^b   Loman, Nick ^c   Eren, A Murat ^d   Saulnier, Delphine ^e   Russell, Julie ^b   Haig, Sarah J ^b   Calus, Szymon T ^c   Quick, Joshua ^c   Barclay, Andrew ^f   Bertz, Martin ^e   Blaut, Michael ^e   Hansen, Richard ^f   Mcgrogan, Paraic ^f   Russell, Richard K ^f   Edwards, Christine A ^b   Gerasimidis, Konstantinos ^b  

^a UNIVERSITY OF WARWICK   (United Kingdom)

^b UNIVERSITY OF GLASGOW   (United Kingdom)

^c UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^d MARINE BIOLOGICAL LABORATORY   (United States)

^e GERMAN INSTITUTE OF HUMAN NUTRITION   (Germany)

^f ROYAL HOSPITAL FOR CHILDREN   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; BIOTIN; CALGRANULIN; PUTRESCINE; RNA 16S; SHIKIMIC ACID; SPERMIDINE; SULFUR; THIAMINE;

ADOLESCENT; ARTICLE; BIOSYNTHESIS; CHILD; CHILDHOOD DISEASE; CLINICAL ARTICLE; CONTROLLED STUDY; CROHN DISEASE; ENTERIC FEEDING; FECES; FEMALE; FUNCTIONAL STATUS; GENE SEQUENCE; HUMAN; INTESTINE FLORA; MALE; MEMBRANE TRANSPORT; METAGENOME; METAGENOMICS; MICROBIAL DIVERSITY; NUTRIENT; PRIORITY JOURNAL; BLOOD; CHEMISTRY; COMPARATIVE STUDY; GENETICS; METABOLISM; MICROBIOLOGY; MICROFLORA; PROCEDURES; SEQUENCE ANALYSIS; STATISTICAL MODEL;

ADOLESCENT; CHILD; CROHN DISEASE; ENTERAL NUTRITION; FECES; FEMALE; HUMANS; LEUKOCYTE L1 ANTIGEN COMPLEX; LINEAR MODELS; MALE; METAGENOME; METAGENOMICS; MICROBIOTA; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, RNA;

EID: 84951570140     PISSN: 00029270     EISSN: 15720241     Source Type: Journal    
DOI: 10.1038/ajg.2015.357     Document Type: Article

References (17)

1. Qin J, Li R, Raes J, et al. A human gut microbial gene catalogue established by metagenomic sequencing. Nature 2010; 464: 59-65
2. Gevers D, Kugathasan S, Denson LA, et al. The treatment-naive microbiome in new-onset Crohn's disease. Cell Host Microbe 2014; 15: 382-92
3. Hansen R, Russell RK, Reiff C, et al. Microbiota of de-novo pediatric IBD: increased Faecalibacterium prausnitzii and reduced bacterial diversity in Crohn's but not in ulcerative colitis. Am J Gastroenterol 2012; 107: 1913-22
4. Haberman Y, Tickle TL, Dexheimer PJ, et al. Pediatric Crohn disease patients exhibit specifi c ileal transcriptome and microbiome signature. J Clin Invest 2014; 124: 3617-33
5. Cameron FL, Gerasimidis K, Papangelou A, et al. Clinical progress in the two years following a course of exclusive enteral nutrition in 109 paediatric patients with Crohn's disease. Aliment Pharmacol Ther 2013; 37: 622-9
6. Gerasimidis K, Bertz M, Hanske L, et al. Decline in presumptively protective gut bacterial species and metabolites are paradoxically associated with disease improvement in pediatric Crohn's disease during enteral nutrition. Infl amm Bowel Dis 2014; 20: 861-71
7. Sokol H, Seksik P, Furet JP, et al. Low counts of Faecalibacterium prausnitzii in colitis microbiota. Infl amm Bowel Dis 2009; 15: 1183-9
8. Gerasimidis K, Nikolaou CK, Edwards CA, et al. Serial fecal calprotectin changes in children with Crohn's disease on treatment with exclusive enteral nutrition: Associations with disease activity, treatment response, and prediction of a clinical relapse. J Clin Gastroenterol 2011; 45: 234-9
9. Hyams JS, Ferry GD, Mandel FS, et al. Development and validation of a pediatric Crohn's disease activity index. J Pediatr Gastroenterol Nutr 1991; 12: 439-47
10. Segata N, Waldron L, Ballarini A, et al. Metagenomic microbial community profi ling using unique clade-specifi c marker genes. Nat Methods 2012; 9: 811-4
11. Kazor CE, Mitchell PM, Lee AM, et al. Diversity of bacterial populations on the tongue dorsa of patients with halitosis and healthy patients. J Clin Microbiol 2003; 41: 558-63
12. Muehlbauer M, Mottawea W, Abujamel T, et al. Mo1982 atopobium parvulum is a predominant member of the adherent microbiome of pediatric IBD patients and promotes colitis in IL10-/- mice. Gastroenterology 2013; 144: S-710
13. Kotlowski R, Bernstein CN, Sepehri S, et al. High prevalence of Escherichia coli belonging to the B2+D phylogenetic group in infl ammatory bowel disease. Gut 2007; 56: 669-75
14. Gomez F, Monsalve GC, Tse V, et al. Delayed accumulation of intestinal coliform bacteria enhances life span and stress resistance in Caenorhabditis elegans fed respiratory defi cient E. coli. BMC Microbiol 2012; 12: 300
15. Greenblum S, Turnbaugh PJ, Borenstein E. Metagenomic systems biology of the human gut microbiome reveals topological shift s associated with obesity and infl ammatory bowel disease. Proc Natl Acad Sci USA 2012; 109: 594-9
16. Slezak K, Hanske L, Loh G, et al. Increased bacterial putrescine has no impact on gut morphology and physiology in gnotobiotic adolescent mice. Benef Microbes 2013; 4: 253-66
17. David LA, Maurice CF, Carmody RN, et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature 2014; 505: 559-63