Enteric Virome and Bacterial Microbiota in Children with Ulcerative Colitis and Crohn Disease

Journal of Pediatric Gastroenterology and Nutrition

Volumn 68, Issue 1, 2019, Pages 30-36

  Fernandes, Melissa A ^a   Verstraete, Sofia G ^a   Phan, Tung ^b   Deng, Xutao ^b   Stekol, Emily ^a   Lamere, Brandon ^c   Lynch, Susan V ^c   Heyman, Melvin B ^a   Delwart, Eric ^b,c  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b BLOOD SYSTEMS RESEARCH INSTITUTE   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

bacteria; caudovirales; enteric biome; inflammatory bowel disease; microbiota; microviridae; pediatric; phage; probiotics; virus

Indexed keywords

ALBUMIN; HEMOGLOBIN; PROBIOTIC AGENT; RNA 16S;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL FLORA; BACTERIOPHAGE; CAUDOVIRALES; CHILD; CLINICAL ARTICLE; CONTROLLED STUDY; CROHN DISEASE; FECES MICROFLORA; HUMAN; INTESTINE FLORA; MICROVIRIDAE; NONHUMAN; PATHOGENESIS; PEDIATRIC PATIENT; PRIORITY JOURNAL; RNA SEQUENCING; ULCERATIVE COLITIS; VIRUS DETECTION; ADOLESCENT; CASE CONTROL STUDY; FECES; FEMALE; GENETICS; ISOLATION AND PURIFICATION; MALE; MICROBIOLOGY; VIRAL TROPISM; VIRUS; VIRUS GENOME;

ADOLESCENT; BACTERIOPHAGES; CASE-CONTROL STUDIES; CHILD; COLITIS, ULCERATIVE; CROHN DISEASE; FECES; FEMALE; GASTROINTESTINAL MICROBIOME; GENOME, VIRAL; HUMANS; MALE; PROBIOTICS; RNA, RIBOSOMAL, 16S; VIRAL TROPISM; VIRUSES;

EID: 85059228576     PISSN: 02772116     EISSN: 15364801     Source Type: Journal    
DOI: 10.1097/MPG.0000000000002140     Document Type: Article

References (21)

1. Kim DH, Cheon JH,. Pathogenesis of inflammatory bowel disease and recent advances in biologic therapies. Immune Netw 2017; 17: 25-40.
2. Adamiak T, Walkiewicz-Jedrzejczak D, Fish D,. Incidence, clinical characteristics, and natural history of pediatric IBD in Wisconsin: A population-based epidemiological study. Inflamm Bowel Dis 2013; 19: 1218-1223.
3. Douglas GM, Hansen R, Jones CM,. Multi-omics differentially classify disease state and treatment outcome in pediatric Crohn's disease. Microbiome 2018; 6: 13.
4. Jakobsen C, Paerregaard A, Munkholm P,. Pediatric inflammatory bowel disease: Increasing incidence, decreasing surgery rate, and compromised nutritional status: A prospective population-based cohort study 2007-2009. Inflamm Bowel Dis 2011; 17: 2541-2550.
5. Eszter Muller K, Laszlo Lakatos P, Papp M,. Incidence and Paris classification of pediatric inflammatory bowel disease. Gastroenterol Res Pract 2014; 2014: 904307.
6. Wang W, Jovel J, Halloran B,. Metagenomic analysis of microbiome in colon tissue from subjects with inflammatory bowel diseases reveals interplay of viruses and bacteria. Inflamm Bowel Dis 2015; 21: 1419-1427.
7. Cadwell K,. The virome in host health and disease. Immunity 2015; 42: 805-813.
8. Norman JM, Handley SA, Baldridge MT,. Disease-specific alterations in the enteric virome in inflammatory bowel disease. Cell 2015; 160: 447-460.
9. Conceicao-Neto N, Deboutte W, Dierckx T,. Low eukaryotic viral richness is associated with faecal microbiota transplantation success in patients with UC. Gut 2018; 67: 1558-1559.
10. Li L, Deng X, Mee ET,. Comparing viral metagenomics methods using a highly multiplexed human viral pathogens reagent. J Virol Methods 2015; 213: 139-146.
11. Hurwitz BL, U'Ren JM, Youens-Clark K,. Computational prospecting the great viral unknown. FEMS Microbiol Lett 2016; 363. pii: Fnw077.
12. Krishnamurthy SR, Wang D,. Origins and challenges of viral dark matter. Virus Res 2017; 239: 136-142.
13. Roux S, Hallam SJ, Woyke T,. Viral dark matter and virus-host interactions resolved from publicly available microbial genomes. Elife 2015; 4.
14. Vindigni SM, Zisman TL, Suskind DL,. The intestinal microbiome, barrier function, and immune system in inflammatory bowel disease: A tripartite pathophysiological circuit with implications for new therapeutic directions. Therap Adv Gastroenterol 2016; 9: 606-625.
15. Zhou M, He J, Shen Y,. New frontiers in genetics, gut microbiota, and immunity: A Rosetta Stone for the pathogenesis of inflammatory bowel disease. Bio Res Int 2017; 2017: 8201672.
16. Gevers D, Kugathasan S, Denson LA,. The treatment-naive microbiome in new-onset Crohn's disease. Cell Host Microbe 2014; 15: 382-392.
17. Sokol H, Pigneur B, Watterlot L,. Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proc Natl Acad Sci USA 2008; 105: 16731-16736.
18. Fujimura KE, Sitarik AR, Havstad S,. Neonatal gut microbiota associates with childhood multisensitized atopy and T cell differentiation. Nat Med 2016; 22: 1187-1191.
19. Fonseca W, Lucey K, Jang S,. Lactobacillus johnsonii supplementation attenuates respiratory viral infection via metabolic reprogramming and immune cell modulation. Mucosal Immunol 2017; 10: 1569-1580.
20. Morgan XC, Tickle TL, Sokol H,. Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment. Genome Biol 2012; 13: R7.
21. Levine A, Kori M, Kierkus J,. Azithromycin and metronidazole versus metronidazole-based therapy for the induction of remission in mild to moderate paediatric Crohn's disease: A randomised controlled trial. Gut 2018; Epub ahead of print.