Cited by 1,285Bacteriophages and microbial interactionsInflammatory Bowel DiseaseGut microbiota and health

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Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease

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Norman, Jason M., Handley, Scott A., Baldridge, Megan T., Droit, Lindsay, Liu, Catherine Y., Keller, Brian C., Kambal, Amal, Monaco, Cynthia L., Zhao, Guoyan, Fleshner, Phillip, Stappenbeck, Thaddeus S., McGovern, Dermot P.B., Keshavarzian, Ali, Mutlu, Ece A., Sauk, Jenny, Gevers, Dirk, Xavier, Ramnik J., Wang, David, Parkes, Miles, Virgin, Herbert W.·2015·Cell

DOI 10.1016/j.cell.2015.01.002PMC PMC4312520

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Abstract

Decreases in the diversity of enteric bacterial populations are observed in patients with Crohn's disease (CD) and ulcerative colitis (UC). Less is known about the virome in these diseases. We show that the enteric virome is abnormal in CD and UC patients. In-depth analysis of preparations enriched for free virions in the intestine revealed that CD and UC were associated with a significant expansion of Caudovirales bacteriophages. The viromes of CD and UC patients were disease and cohort specific. Importantly, it did not appear that expansion and diversification of the enteric virome was secondary to changes in bacterial populations. These data support a model in which changes in the virome may contribute to intestinal inflammation and bacterial dysbiosis. We conclude that the virome is a candidate for contributing to, or being a biomarker for, human inflammatory bowel disease and speculate that the enteric virome may play a role in other diseases.

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Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607
QIIME allows analysis of high-throughput community sequencing data
Caporaso, J. G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F. D., Costello, E. K., Fierer, N., Peña, A. G., Goodrich, J. K., Gordon, J. I., et al. (2010) · Nature Methods · doi:10.1038/nmeth.f.303 · Cited by 34,887
vegan: Community Ecology Package
Oksanen, J., Simpson, G. L., Blanchet, F. G., Kindt, R., Legendre, P., Minchin, P. R., O’Hara, R. B., Sólymos, P., Stevens, M. H. H., Szöcs, E., et al. (2001) · doi:10.32614/cran.package.vegan · Cited by 27,099
Search and clustering orders of magnitude faster than BLAST
Edgar, R. C. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq461 · Cited by 21,098
An obesity-associated gut microbiome with increased capacity for energy harvest
Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2006) · Nature · doi:10.1038/nature05414 · Cited by 12,444
Cd-hit: Accelerated for clustering the next-generation sequencing data
Fu, L., Niu, B., Zhu, Z., Wu, S., & Li, W. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts565 · Cited by 11,175
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
Caporaso, J. G., Lauber, C. L., Walters, W. A., Berg-Lyons, D., Lozupone, C., Turnbaugh, P. J., Fierer, N., & Knight, R. D. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1000080107 · Cited by 9,944
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Turnbaugh, P. J., Hamady, M., Yatsunenko, T., Cantarel, B. L., Duncan, A., Ley, R. E., Sogin, M. L., Jones, W. J., Roe, B. A., Affourtit, J. P., et al. (2009) · Nature · doi:10.1038/nature07540 · Cited by 7,823
A metagenome-wide association study of gut microbiota in type 2 diabetes
Qin, J., Li, Y., Cai, Z., Li, S., Zhu, J., Zhang, F., Liang, S., Zhang, W., Guan, Y., Shen, D., et al. (2012) · Nature · doi:10.1038/nature11450 · Cited by 6,762
Obesity alters gut microbial ecology
Ley, R. E., Bäckhed, F., Turnbaugh, P., Lozupone, C. A., Knight, R. D., & Gordon, J. I. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0504978102 · Cited by 6,176

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Authors: Norman, J. M., Handley, S. A., Baldridge, M. T., Droit, L., Liu, C. Y., Keller, B. C., Kambal, A., Monaco, C. L., Zhao, G., Fleshner, P., Stappenbeck, T. S., McGovern, D. P. B., Keshavarzian, A., Mutlu, E. A., Sauk, J., Gevers, D., Xavier, R. J., Wang, D., Parkes, M., & Virgin, H. W.
Affiliations: Washington University in St. Louis (US)
Cedars-Sinai Medical Center (US)
Rush University Medical Center (US)
Harvard University (US)
Broad Institute (US)
University of Cambridge (GB)
Corresponding author: Virgin, Herbert W.
ORCID: Norman, Jason M.
Handley, Scott A.
Baldridge, Megan T.
Droit, Lindsay
Keller, Brian C.
Monaco, Cynthia L.
Zhao, Guoyan
Fleshner, Phillip
Stappenbeck, Thaddeus S.
McGovern, Dermot P.B.
Keshavarzian, Ali
Sauk, Jenny
Gevers, Dirk
Xavier, Ramnik J.
Wang, David
Parkes, Miles
Virgin, Herbert W.
Venue: Cell
Publisher: Elsevier BV
Published: 2015-01
Volume: 160
Issue: 3
Pages: 447-460
ISSN: 0092-8674 (ISSN-L)
DOI: 10.1016/j.cell.2015.01.002
PMC: PMC4312520
OpenAlex: W2081319466
Cited by: 1,285
References: 81
Citations by year: 2026: 67 · 2025: 101 · 2024: 116 · 2023: 116 · 2022: 159 · 2021: 171 · 2020: 112 · 2019: 121 · 2018: 107 · 2017: 93 · 2016: 78 · 2015: 40
FWCI: 96.11
Type: journal article
Language: en
Open access: bronze
doi.org
Licence: www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/open-access/userlicense/1.0/ (vor, 393 d)
Locations: Cell (publishedVersion)
PubMed (publishedVersion)
PubMed Central (acceptedVersion)
Funders: National Institute for Health and Care Research
National Institutes of Health (UL1TR000448, R01OD011170)
Agency for Healthcare Research and Quality (R01HS021747, HS021747)
National Heart, Lung, and Blood Institute (T32HL007317)
National Cancer Institute (P30 CA 91842, T32CA009547, P30CA091842)
National Institute of Allergy and Infectious Diseases (AI067068, U01AI067068, R01AI084887, U54AI057160, T32AI007172, T32AI007163)
National Institute of Diabetes and Digestive and Kidney Diseases (P01DK046763, DK062413, R01DK092405, R21DK071838, DK046763-19, DK071838, U01DK062413, P30DK043351)
National Institute of Dental and Craniofacial Research (U54DE023789, U54DE023798)
National Center for Advancing Translational Sciences
National Center for Complementary and Integrative Health (AT001628, R21AT001628, R01AT007143)
Topics: Life Sciences › Immunology and Microbiology › Virology › Bacteriophages and microbial interactions
Health Sciences › Medicine › Gastroenterology › Inflammatory Bowel Disease
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
Keywords: enteric virome, inflammatory bowel disease, Crohn's disease, ulcerative colitis, bacteriophages, Caudovirales, viral diversity, bacterial dysbiosis, intestinal inflammation, biomarkers, gut microbiota
MeSH terms: Bacteria, Colitis, Ulcerative, Crohn Disease, Feces, Humans, Cohort Studies, Case-Control Studies, Caudovirales, Microviridae, Metagenome, Dysbiosis

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Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease

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