Interactions between commensal fungi and the C-type lectin receptor Dectin-1 influence colitis
Open accessAbstract
The intestinal microflora, typically equated with bacteria, influences diseases such as obesity and inflammatory bowel disease. Here, we show that the mammalian gut contains a rich fungal community that interacts with the immune system through the innate immune receptor Dectin-1. Mice lacking Dectin-1 exhibited increased susceptibility to chemically induced colitis, which was the result of altered responses to indigenous fungi. In humans, we identified a polymorphism in the gene for Dectin-1 (CLEC7A) that is strongly linked to a severe form of ulcerative colitis. Together, our findings reveal a eukaryotic fungal community in the gut (the "mycobiome") that coexists with bacteria and substantially expands the repertoire of organisms interacting with the intestinal immune system to influence health and disease.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Mice lacking Dectin1 had increased susceptibility to chemically induced colitis because of altered responses to indigenous fungi.
“A recent study49 demonstrated that mice lacking Dectin1 had increased susceptibility to chemically induced colitis, due to their altered responses to indigenous fungi.”
From Diet and the Intestinal Microbiome: Associations, Functions, and Implications for Health and Disease (2014) · cites this paper as [49]
Diet might affect intestinal fungal communities, which have been associated with the pathogenesis of inflammatory bowel diseases.
“diet might also affect intestinal fungal communities, which have been associated with pathogenesis of inflammatory bowel diseases (IBD)49.”
From Diet and the Intestinal Microbiome: Associations, Functions, and Implications for Health and Disease (2014) · cites this paper as [49]
A polymorphism in the gene encoding Dectin1 (CLEC7A) was associated with a severe form of ulcerative colitis in humans.
“a polymorphism in the gene encoding Dectin1 (CLEC7A) was associated with a severe form of ulcerative colitis in humans49.”
From Diet and the Intestinal Microbiome: Associations, Functions, and Implications for Health and Disease (2014) · cites this paper as [49]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041 · see citing works
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 · see citing works
A human gut microbial gene catalogue established by metagenomic sequencing
MetaHIT Consortium, Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K. S., Manichanh, C., Nielsen, T., Pons, N., Levenez, F., et al. (2010) · Nature · doi:10.1038/nature08821 · Cited by 11,624 · see citing works
<tt>BLAT</tt> —The <tt>BLAST</tt> -Like Alignment Tool
Kent, W. J. (2002) · Genome Research · doi:10.1101/gr.229202 · Cited by 8,480 · see citing works
Enterotypes of the human gut microbiome
MetaHIT Consortium (additional members), Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., et al. (2011) · Nature · doi:10.1038/nature09944 · Cited by 7,548 · see citing works
A New Statistical Method for Haplotype Reconstruction from Population Data
Stephens, M., Smith, N. J. C., & Donnelly, P. (2001) · The American Journal of Human Genetics · doi:10.1086/319501 · Cited by 7,460 · see citing works
Multiple sequence alignment with the Clustal series of programs
Chenna, R. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg500 · Cited by 4,865 · see citing works
The Cardiovascular Health Study: design and rationale.
Fried, L. P., Borhani, N. O., Enright, P., Furberg, C. D., Gardin, J. M., Kronmal, R. A., Kuller, L. H., Manolio, T. A., Mittelmark, M. B., Newman, A., et al. (1991) · Annals of Epidemiology · doi:10.1016/1047-2797(91)90005-w · Cited by 3,652 · see citing works
A Comparison of Bayesian Methods for Haplotype Reconstruction from Population Genotype Data
Stephens, M., & Donnelly, P. (2003) · The American Journal of Human Genetics · doi:10.1086/379378 · Cited by 3,492 · see citing works
Inflammasome-mediated dysbiosis regulates progression of NAFLD and obesity
Henao-Mejia, J., Elinav, E., Jin, C., Hao, L., Mehal, W. Z., Strowig, T., Thaiss, C. A., Kau, A. L., Eisenbarth, S. C., Jurczak, M. J., et al. (2012) · Nature · doi:10.1038/nature10809 · Cited by 2,435 · see citing works
Metabolic Syndrome and Altered Gut Microbiota in Mice Lacking Toll-Like Receptor 5
Vijay-Kumar, M., Aitken, J. D., Carvalho, F. A., Cullender, T. C., Mwangi, S., Srinivasan, S., Sitaraman, S. V., Knight, R., Ley, R. E., & Gewirtz, A. T. (2010) · Science · doi:10.1126/science.1179721 · Cited by 2,068 · see citing works
NLRP6 Inflammasome Regulates Colonic Microbial Ecology and Risk for Colitis
Elinav, E., Strowig, T., Kau, A. L., Henao-Mejia, J., Thaiss, C. A., Booth, C. J., Peaper, D. R., Bertin, J., Eisenbarth, S. C., Gordon, J. I., et al. (2011) · Cell · doi:10.1016/j.cell.2011.04.022 · Cited by 2,024 · see citing works
Lupp, C., Robertson, M. L., Wickham, M. E., Sekirov, I., Champion, O. L., Gaynor, E. C., & Finlay, B. B. (2007) · Cell Host & Microbe · doi:10.1016/j.chom.2007.06.010 · Cited by 1,310 · see citing works
LeibundGut-Landmann, S., Groß, O., Robinson, M. J., Osorio, F., Slack, E. C., Tsoni, S. V., Schweighoffer, E., Tybulewicz, V., Brown, G. D., Ruland, J., et al. (2007) · Nature Immunology · doi:10.1038/ni1460 · Cited by 1,191 · see citing works
Self-citationDectin-1 is required for β-glucan recognition and control of fungal infection
Taylor, P. R., Tsoni, S. V., Willment, J. A., Dennehy, K. M., Rosas, M., Findon, H., Haynes, K., Steele, C. H., Botto, M., Gordon, S., et al. (2006) · Nature Immunology · doi:10.1038/ni1408 · Cited by 1,155 · see citing works
Self-citationCharacterization of the oral fungal microbiome (mycobiome) in healthy individuals
Ghannoum, M. A., Jurevic, R. J., Mukherjee, P. K., Cui, F., Sikaroodi, M., Naqvi, A., & Gillevet, P. M. (2010) · PLoS Pathogens · doi:10.1371/journal.ppat.1000713 · Cited by 1,150 · see citing works
Willing, B. P., Dicksved, J., Halfvarson, J., Andersson, A. F., Lucio, M., Zheng, Z., Järnerot, G., Tysk, C., Jansson, J. K., & Engstrand, L. (2010) · Gastroenterology · doi:10.1053/j.gastro.2010.08.049 · Cited by 1,032 · see citing works
Conti, H. R., Shen, F., Nayyar, N., Stocum, E., Sun, J. N., Lindemann, M. J., Ho, A. W., Hai, J. H., Yu, J. J., Jung, J. W., et al. (2009) · Journal of Experimental Medicine · doi:10.1084/jem.20081463 · Cited by 1,024 · see citing works
A Homozygous <i>CARD9</i> Mutation in a Family with Susceptibility to Fungal Infections
Glocker, E.-O., Hennigs, A., Nabavi, M., Schäffer, A. A., Woellner, C., Salzer, U., Pfeifer, D., Veelken, H., Warnatz, K., Tahami, F., et al. (2009) · New England Journal of Medicine · doi:10.1056/nejmoa0810719 · Cited by 800 · see citing works
Garrett, W. S., Gallini, C. A., Yatsunenko, T., Michaud, M., DuBois, A., Delaney, M. L., Punit, S., Karlsson, M., Bry, L., Glickman, J. N., et al. (2010) · Cell Host & Microbe · doi:10.1016/j.chom.2010.08.004 · Cited by 788 · see citing works
Human dectin-1 deficiency and mucocutaneous fungal infections
Ferwerda, B., Ferwerda, G., Plantinga, T. S., Willment, J. A., van Spriel, A. B., Venselaar, H., Elbers, C. C., Johnson, M. D., Cambi, A., Huysamen, C., et al. (2009) · New England Journal of Medicine · doi:10.1056/nejmoa0901053 · Cited by 752 · see citing works
Self-citationDectin‐1 mediates macrophage recognition of Candida albicans yeast but not filaments
Gantner, B. N., Simmons, R. M., & Underhill, D. M. (2005) · The EMBO Journal · doi:10.1038/sj.emboj.7600594 · Cited by 671 · see citing works
Self-citationGenome-wide association identifies multiple ulcerative colitis susceptibility loci
McGovern, D. P. B., Gardet, A., Törkvist, L., Goyette, P., Essers, J. B., Taylor, K. D., Neale, B. M., Ong, R. T., Lagacé, C., Li, C., et al. (2010) · Nature Genetics · doi:10.1038/ng.549 · Cited by 654 · see citing works
Self-citationGringhuis, S. I., Kaptein, T. M., Wevers, B. A., Theelen, B., van der Vlist, M., Boekhout, T., & Geijtenbeek, T. B. H. (2012) · Nature Immunology · doi:10.1038/ni.2222 · Cited by 612 · see citing works
Psaty, B. M., O'Donnell, C. J., Gudnason, V., Lunetta, K. L., Folsom, A. R., Rotter, J. I., Uitterlinden, A. G., Harris, T. B., Witteman, J. C. M., & Boerwinkle, E. (2009) · Circulation: Cardiovascular Genetics · doi:10.1161/circgenetics.108.829747 · Cited by 599 · see citing works
Self-citationAccurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers
Liu, Z., DeSantis, T. Z., Andersen, G. L., & Knight, R. D. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn491 · Cited by 583 · see citing works
Lupp, C., Robertson, M. L., Wickham, M. E., Sekirov, I., Champion, O. L., Gaynor, E. C., & Finlay, B. B. (2007) · Cell Host & Microbe · doi:10.1016/j.chom.2007.08.002 · Cited by 501 · see citing works
Landers, C. J., Cohavy, O., Misra, R., Yang, H., Lin, Y., Braun, J. G., & Targan, S. R. (2002) · Gastroenterology · doi:10.1053/gast.2002.35379 · Cited by 440 · see citing works
Fungi and inflammatory bowel diseases: Alterations of composition and diversity
Ott, S. J., Kühbacher, T., Musfeldt, M., Rosenstiel, P. C., Hellmig, S., Rehman, A., Drews, O., Weichert, W., Timmis, K. N., & Schreiber, S. (2008) · Scandinavian Journal of Gastroenterology · doi:10.1080/00365520801935434 · Cited by 435 · see citing works
Matteoli, G., Mazzini, E., Iliev, I. D., Mileti, E., Fallarino, F., Puccetti, P., Chieppa, M., & Rescigno, M. (2010) · Gut · doi:10.1136/gut.2009.185108 · Cited by 377 · see citing works
Self-citationIliev, I. D., Mileti, E., Matteoli, G., Chieppa, M., & Rescigno, M. (2009) · Mucosal Immunology · doi:10.1038/mi.2009.13 · Cited by 354 · see citing works
Self-citationThe value of serologic markers in indeterminate colitis: A prospective follow-up study
Joossens, S. B. A., Reinisch, W., Vermeire, S., Sendid, B., Poulain, D., Peeters, M., Geboes, K. J., Bossuyt, X., Vandewalle, P., Oberhuber, G., et al. (2002) · Gastroenterology · doi:10.1053/gast.2002.32980 · Cited by 331 · see citing works
and the IBSEN study group, Franke, A., Balschun, T. C., Sina, C., Ellinghaus, D., Häsler, R., Gabriele Mayr, B., Albrecht, M., Wittig, M., Buchert, E., et al. (2010) · Nature Genetics · doi:10.1038/ng.553 · Cited by 194 · see citing works
Jawhara, S., Thuru, X., Standaert‐Vitse, A., Jouault, T., Mordon, S. R., Sendid, B., Desreumaux, P., & Poulain, D. (2008) · The Journal of Infectious Diseases · doi:10.1086/528990 · Cited by 192 · see citing works
Cheng, S.-C., van de Veerdonk, F. L., Lenardon, M., Stoffels, M., Plantinga, T., Smeekens, S., Rizzetto, L., Mukaremera, L., Preechasuth, K., Cavalieri, D., et al. (2011) · Journal of Leukocyte Biology · doi:10.1189/jlb.1210702 · Cited by 191 · see citing works
Abundant and Diverse Fungal Microbiota in the Murine Intestine
Scupham, A. J., Presley, L. L., Wei, B., Bent, E., Griffith, N., McPherson, M., Zhu, F., Oluwadara, O., Rao, N. P., Braun, J. G., et al. (2006) · Applied and Environmental Microbiology · doi:10.1128/aem.72.1.793-801.2006 · Cited by 185 · see citing works
Genetic predictors of medically refractory ulcerative colitis
Haritunians, T., Taylor, K. D., Targan, S. R., Dubinsky, M. C., Ippoliti, A., Kwon, S., Guo, X., MELMED, G. Y., Berel, D., Mengesha, E., et al. (2010) · Inflammatory Bowel Diseases · doi:10.1002/ibd.21293 · Cited by 150 · see citing works
Self-citationKelsall, B. L. (2008) · Mucosal Immunology · doi:10.1038/mi.2008.61 · Cited by 143 · see citing works
A software pipeline for processing and identification of fungal ITS sequences
Nilsson, R. H., Bok, G., Ryberg, M. K., Kristiansson, E., & Hallenberg, N. (2009) · Source Code for Biology and Medicine · doi:10.1186/1751-0473-4-1 · Cited by 98 · see citing works
Novel Anti-Glycan Antibodies Related to Inflammatory Bowel Disease Diagnosis and Phenotype
Seow, C. H., Stempak, J. M., Xu, W., Lan, H. Y., Griffiths, A. M., Greenberg, G. R., Steinhart, A. H., Dotan, N., & Silverberg, M. S. (2009) · The American Journal of Gastroenterology · doi:10.1038/ajg.2009.79 · Cited by 95 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Role of the microbiota in immunity and inflammation.
Belkaid, Y., & Hand, T. W. (2014) · Cell · doi:10.1016/j.cell.2014.03.011 · Cited by 5,385 · see citing works
Hidden Killers: Human Fungal Infections
Brown, G. D., Denning, D. W., Gow, N. A. R., Levitz, S. M., Netea, M. G., & White, T. C. (2012) · Science Translational Medicine · doi:10.1126/scitranslmed.3004404 · Cited by 4,284 · see citing works
Self-citationZelante, T., Iannitti, R. G., Cunha, C., De Luca, A., Giovannini, G., Pieraccini, G., Zecchi, R., D’Angelo, C., Massi-Benedetti, C., Fallarino, F., et al. (2013) · Immunity · doi:10.1016/j.immuni.2013.08.003 · Cited by 2,614 · see citing works
The microbiome and innate immunity
Thaiss, C. A., Zmora, N., Levy, M., & Elinav, E. (2016) · Nature · doi:10.1038/nature18847 · Cited by 2,012 · see citing works
Gut microbiota and IBD: causation or correlation?
Ni, J., Wu, G. D., Albenberg, L., & Tomov, V. T. (2017) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/nrgastro.2017.88 · Cited by 1,778 · see citing works
Epidemiology and risk factors for IBD
Ananthakrishnan, A. N. (2015) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/nrgastro.2015.34 · Cited by 1,741 · see citing works
Lamas, B., Richard, M. L., Leducq, V., Pham, H.-P., Michel, M.-L., Da Costa, G., Bridonneau, C., Jegou, S., Hoffmann, T. W., Natividad, J. M., et al. (2016) · Nature Medicine · doi:10.1038/nm.4102 · Cited by 1,482 · see citing works
Fungal microbiota dysbiosis in IBD
Sokol, H., Leducq, V., Aschard, H., Pham, H., Jégou, S., Landman, C., Cohen, D., Liguori, G., Bourrier, A., Nion–Larmurier, I., et al. (2016) · Gut · doi:10.1136/gutjnl-2015-310746 · Cited by 1,321 · see citing works
Homeostatic Immunity and the Microbiota
Belkaid, Y., & Harrison, O. J. (2017) · Immunity · doi:10.1016/j.immuni.2017.04.008 · Cited by 1,261 · see citing works
Topographic diversity of fungal and bacterial communities in human skin
NIH Intramural Sequencing Center Comparative Sequencing Program, Findley, K., Oh, J., Yang, J., Conlan, S., Deming, C., Meyer, J. A., Schoenfeld, D., Nomicos, E., Park, M., et al. (2013) · Nature · doi:10.1038/nature12171 · Cited by 1,206 · see citing works
Defining dysbiosis and its influence on host immunity and disease
Petersen, C., & Round, J. L. (2014) · Cellular Microbiology · doi:10.1111/cmi.12308 · Cited by 1,185 · see citing works
New evidences on the altered gut microbiota in autism spectrum disorders
Strati, F., Cavalieri, D., Albanese, D., De Felice, C., Donati, C., Hayek, J., Jousson, O., Leoncini, S., Renzi, D., Calabrò, A., et al. (2017) · Microbiome · doi:10.1186/s40168-017-0242-1 · Cited by 1,040 · see citing works
The gut mycobiome of the Human Microbiome Project healthy cohort
Nash, A. K., Auchtung, T. A., Wong, M. C., Smith, D. P., Gesell, J. R., Ross, M. C., Stewart, C. J., Metcalf, G., Muzny, D. M., Gibbs, R. A., et al. (2017) · Microbiome · doi:10.1186/s40168-017-0373-4 · Cited by 987 · see citing works
The microbiome and inflammatory bowel disease
Glassner, K. L., Abraham, B. P., & Quigley, E. M. M. (2020) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2019.11.003 · Cited by 837 · see citing works
Lewis, J. D., Chen, E. Z., Baldassano, R. N., Otley, A. R., Griffiths, A. M., Lee, D., Bittinger, K., Bailey, A., Friedman, E. S., Hoffmann, C., et al. (2015) · Cell Host & Microbe · doi:10.1016/j.chom.2015.09.008 · Cited by 823 · see citing works
The effect of host genetics on the gut microbiome
Bonder, M. J., Kurilshikov, A., Tigchelaar, E. F., Mujagic, Z., Imhann, F., Vila, A. V., Deelen, P., Vatanen, T., Schirmer, M., Smeekens, S. P., et al. (2016) · Nature Genetics · doi:10.1038/ng.3663 · Cited by 819 · see citing works
Archaea and fungi of the human gut microbiome: correlations with diet and bacterial residents
Hoffmann, C., Dollive, S., Grunberg, S., Chen, J., Li, H., Wu, G. D., Lewis, J. D., & Bushman, F. D. (2013) · PLoS ONE · doi:10.1371/journal.pone.0066019 · Cited by 808 · see citing works
“Recent work using a murine model has suggested that normally mutualistic or commensal fungi species may exacerbate intestinal inflammation in mice with sensitized genotypes [33].”
BackgroundSartor, R. B., & Wu, G. D. (2017) · Gastroenterology · doi:10.1053/j.gastro.2016.10.012 · Cited by 808 · see citing works
Host–microbiota interactions in inflammatory bowel disease
Caruso, R., Lo, B. C., & Núñez, G. (2020) · Nature reviews. Immunology · doi:10.1038/s41577-019-0268-7 · Cited by 776 · see citing works
C-type lectins in immunity and homeostasis
Brown, G. D., Willment, J. A., & Whitehead, L. (2018) · Nature reviews. Immunology · doi:10.1038/s41577-018-0004-8 · Cited by 747 · see citing works
Self-citationExperimental Models of Inflammatory Bowel Diseases
Kiesler, P., Fuss, I. J., & Strober, W. (2015) · Cellular and Molecular Gastroenterology and Hepatology · doi:10.1016/j.jcmgh.2015.01.006 · Cited by 719 · see citing works
Dyken, S. J. V., & Locksley, R. M. (2013) · Annual Review of Immunology · doi:10.1146/annurev-immunol-032712-095906 · Cited by 714 · see citing works
Goodrich, J. K., Di Rienzi, S. C., Poole, A. C., Koren, O., Walters, W. A., Caporaso, J. G., Knight, R., & Ley, R. E. (2014) · Cell · doi:10.1016/j.cell.2014.06.037 · Cited by 714 · see citing works
The mycobiota: interactions between commensal fungi and the host immune system
Underhill, D. M., & Iliev, I. D. (2014) · Nature reviews. Immunology · doi:10.1038/nri3684 · Cited by 692 · see citing works
Self-citationThe gut microbiome: connecting spatial organization to function
Tropini, C., Earle, K. A., Huang, K. C., & Sonnenburg, J. L. (2017) · Cell Host & Microbe · doi:10.1016/j.chom.2017.03.010 · Cited by 685 · see citing works
Regulation of inflammation by microbiota interactions with the host
Blander, J. M., Longman, R., Iliev, I. D., Sonnenberg, G. F., & Artis, D. (2017) · Nature Immunology · doi:10.1038/ni.3780 · Cited by 649 · see citing works
Self-citationInflammatory bowel diseases (IBD) and the microbiome-searching the crime scene for clues
Lee, M., & Chang, E. B. (2021) · Gastroenterology · doi:10.1053/j.gastro.2020.09.056 · Cited by 645 · see citing works
Mucus Enhances Gut Homeostasis and Oral Tolerance by Delivering Immunoregulatory Signals
Shan, M., Gentile, M., Yeiser, J. R., Walland, A. C., Bornstein, V. U., Chen, K., He, B., Cassis, L., Bigas, A., Cols, M., et al. (2013) · Science · doi:10.1126/science.1237910 · Cited by 642 · see citing works
Immune defence against Candida fungal infections
Netea, M. G., Joosten, L. A. B., van der Meer, J. W. M., Kullberg, B.-J., & van de Veerdonk, F. L. (2015) · Nature Reviews Immunology · doi:10.1038/nri3897 · Cited by 642 · see citing works
Chen, J., Peng, H., Wang, X., Shao, F., Yuan, Z., & Han, H. (2013) · Nanoscale · doi:10.1039/c3nr04941h · Cited by 614 · see citing works
Diet and the Intestinal Microbiome: Associations, Functions, and Implications for Health and Disease
Albenberg, L. G., & Wu, G. D. (2014) · Gastroenterology · doi:10.1053/j.gastro.2014.01.058 · Cited by 606 · see citing works
The Virome in Mammalian Physiology and Disease
Virgin, H. W. (2014) · Cell · doi:10.1016/j.cell.2014.02.032 · Cited by 598 · see citing works
The Gut Microbiota in the Pathogenesis and Therapeutics of Inflammatory Bowel Disease
Zuo, T., & Ng, S. C. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.02247 · Cited by 590 · see citing works
Immunopathology of inflammatory bowel disease
Wallace, K. L. (2014) · World Journal of Gastroenterology · doi:10.3748/wjg.v20.i1.6 · Cited by 581 · see citing works
Microbial Ecology along the Gastrointestinal Tract
Hillman, E. T., Lu, H., Yao, T., & Nakatsu, C. H. (2017) · Microbes and Environments · doi:10.1264/jsme2.me17017 · Cited by 586 · see citing works
The emerging world of the fungal microbiome
Huffnagle, G. B., & Noverr, M. C. (2013) · Trends in Microbiology · doi:10.1016/j.tim.2013.04.002 · Cited by 559 · see citing works
Inflammation and colorectal cancer: colitis-associated neoplasia
Grivennikov, S. I. (2012) · Seminars in Immunopathology · doi:10.1007/s00281-012-0352-6 · Cited by 555 · see citing works
Structure and function of the human skin microbiome
Schommer, N. N., & Gallo, R. L. (2013) · Trends in Microbiology · doi:10.1016/j.tim.2013.10.001 · Cited by 542 · see citing works
Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions
Narunsky-Haziza, L., Sepich-Poore, G. D., Livyatan, I., Asraf, O., Martino, C., Nejman, D., Gavert, N., Stajich, J. E., Amit, G., González, A., et al. (2022) · Cell · doi:10.1016/j.cell.2022.09.005 · Cited by 538 · see citing works
Human genetic variation and the gut microbiome in disease
Hall, A. B., Tolonen, A. C., & Xavier, R. J. (2017) · Nature Reviews Genetics · doi:10.1038/nrg.2017.63 · Cited by 517 · see citing works
Enteric fungal microbiota dysbiosis and ecological alterations in colorectal cancer
Coker, O. O., Nakatsu, G., Dai, R. Z., Wu, W. K. K., Wong, S. H., Ng, S. C., Chan, F. K. L., Sung, J. J. Y., & Yu, J. (2019) · Gut · doi:10.1136/gutjnl-2018-317178 · Cited by 511 · see citing works
Host–microbiota interactions in immune-mediated diseases
Ruff, W. E., Greiling, T. M., & Kriegel, M. A. (2020) · Nature Reviews Microbiology · doi:10.1038/s41579-020-0367-2 · Cited by 489 · see citing works
C-type lectins in immunity: recent developments
Dambuza, I. M., & Brown, G. D. (2015) · Current Opinion in Immunology · doi:10.1016/j.coi.2014.12.002 · Cited by 482 · see citing works
Self-citationBacteriome and Mycobiome Interactions Underscore Microbial Dysbiosis in Familial Crohn’s Disease
Hoarau, G., Mukherjee, P. K., Gower‐Rousseau, C., Hager, C. L., Chandra, J., Retuerto, M. A., Neut, C., Vermeire, S., Clemente, J. C., Colombel, J., et al. (2016) · mBio · doi:10.1128/mbio.01250-16 · Cited by 481 · see citing works
IL-12, IL-23 and IL-17 in IBD: immunobiology and therapeutic targeting
Moschen, A. R., Tilg, H., & Raine, T. (2018) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-018-0084-8 · Cited by 477 · see citing works
Intestinal fungi contribute to development of alcoholic liver disease
Yang, A., Inamine, T., Hochrath, K., Chen, P., Wang, L., Llorente, C., Bluemel, S., Hartmann, P., Xu, J., Koyama, Y., et al. (2017) · Journal of Clinical Investigation · doi:10.1172/jci90562 · Cited by 465 · see citing works
Self-citationMalassezia Is Associated with Crohn’s Disease and Exacerbates Colitis in Mouse Models
Limon, J. J., Tang, J., Li, D., Wolf, A. J., Michelsen, K. S., Funari, V., Gargus, M. D., Nguyen, C., Sharma, P., Maymí, V. I., et al. (2019) · Cell Host & Microbe · doi:10.1016/j.chom.2019.01.007 · Cited by 450 · see citing works
Self-citationLung microbiome: new insights into the pathogenesis of respiratory diseases
Li, R., Li, J., & Zhou, X. (2024) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-023-01722-y · Cited by 466 · see citing works
Activation of HIF-1α and LL-37 by commensal bacteria inhibits Candida albicans colonization
Fan, D., Coughlin, L. A., Neubauer, M. M., Kim, J., Kim, M. S., Zhan, X., Simms-Waldrip, T. R., Xie, Y., Hooper, L. V., & Koh, A. Y. (2015) · Nature Medicine · doi:10.1038/nm.3871 · Cited by 426 · see citing works
Intestinal Commensal Microbes as Immune Modulators
Ivanov, I. I., & Honda, K. (2012) · Cell Host & Microbe · doi:10.1016/j.chom.2012.09.009 · Cited by 425 · see citing works
Immunological Consequences of Intestinal Fungal Dysbiosis
Wheeler, M. L., Limon, J. J., Bar, A. S., Leal, C. A., Gargus, M. D., Tang, J., Brown, J. S., Funari, V. A., Wang, H. L., Crother, T. R., et al. (2016) · Cell Host & Microbe · doi:10.1016/j.chom.2016.05.003 · Cited by 418 · see citing works
Self-citationThe Gut Microbiome and Inflammatory Bowel Diseases
Shan, Y., Lee, M., & Chang, E. B. (2021) · Annual Review of Medicine · doi:10.1146/annurev-med-042320-021020 · Cited by 420 · see citing works
N-Acetylglucosamine Functions in Cell Signaling
Konopka, J. B. (2012) · Scientifica · doi:10.6064/2012/489208 · Cited by 414 · see citing works
Commensal microbes and interferon-λ determine persistence of enteric murine norovirus infection
Baldridge, M. T., Nice, T. J., McCune, B. T., Yokoyama, C. C., Kambal, A., Wheadon, M. J., Diamond, M., Ivanova, Y., Artyomov, M. N., & Virgin, H. W. (2014) · Science · doi:10.1126/science.1258025 · Cited by 413 · see citing works
Richard, M. L., & Sokol, H. (2019) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-019-0121-2 · Cited by 414 · see citing works
Zhang, F., Aschenbrenner, D., Yoo, J. Y., & Zuo, T. (2022) · The Lancet Microbe · doi:10.1016/s2666-5247(22)00203-8 · Cited by 406 · see citing works
Fungal dysbiosis: immunity and interactions at mucosal barriers
Iliev, I. D., & Leonardi, I. (2017) · Nature reviews. Immunology · doi:10.1038/nri.2017.55 · Cited by 392 · see citing works
Self-citationIntestinal flora and disease mutually shape the regional immune system in the intestinal tract
Zhou, B., Yuan, Y., Zhang, S., Guo, C., Li, X., Li, G., Xiong, W., & Zeng, Z. (2020) · Frontiers in Immunology · doi:10.3389/fimmu.2020.00575 · Cited by 396 · see citing works
Compartmentalized and systemic control of tissue immunity by commensals
Belkaid, Y., & Naik, S. (2013) · Nature Immunology · doi:10.1038/ni.2604 · Cited by 382 · see citing works
The human mycobiome in health and disease
Cui, L., Morris, A. M., & Ghedin, E. (2013) · Genome Medicine · doi:10.1186/gm467 · Cited by 381 · see citing works
Immune responses to human fungal pathogens and therapeutic prospects
Lionakis, M. S., Drummond, R. A., & Hohl, T. M. (2023) · Nature Reviews Immunology · doi:10.1038/s41577-022-00826-w · Cited by 379 · see citing works
Kim, Y.-G., Udayanga, K. G. S., Totsuka, N., Weinberg, J. B., Núñez, G., & Shibuya, A. (2014) · Cell Host & Microbe · doi:10.1016/j.chom.2013.12.010 · Cited by 366 · see citing works
Trained Immunity: Reprogramming Innate Immunity in Health and Disease
Bekkering, S., Domínguez‐Andrés, J., Joosten, L. A. B., Riksen, N. P., & Netea, M. G. (2021) · Annual Review of Immunology · doi:10.1146/annurev-immunol-102119-073855 · Cited by 345 · see citing works
Zhu, L., Zhao, X.-Q., Jiang, C., You, Y., Chen, X., Jiang, Y.-Y., Jia, X., & Lin, X. (2013) · Immunity · doi:10.1016/j.immuni.2013.05.017 · Cited by 340 · see citing works
Mukherjee, P. K., Chandra, J., Retuerto, M., Sikaroodi, M., Brown, R. E., Jurevic, R., Salata, R. A., Lederman, M. M., Gillevet, P. M., & Ghannoum, M. A. (2014) · PLoS Pathogens · doi:10.1371/journal.ppat.1003996 · Cited by 337 · see citing works
Commensal Fungi in Health and Disease
Limon, J. J., Skalski, J. H., & Underhill, D. M. (2017) · Cell Host & Microbe · doi:10.1016/j.chom.2017.07.002 · Cited by 336 · see citing works
Self-citationFungal Dysbiosis in Mucosa-associated Microbiota of Crohn’s Disease Patients
Liguori, G., Lamas, B., Richard, M. L., Brandi, G., Costa, G. D., Hoffmann, T. W., Simone, M. P. D., Calabrese, C., Poggioli, G., Langella, P., et al. (2015) · Journal of Crohn s and Colitis · doi:10.1093/ecco-jcc/jjv209 · Cited by 332 · see citing works
Hu, J., Ma, L., Nie, Y., Chen, J., Zheng, W., Wang, X., Xie, C., Zheng, Z., Wang, Z., Yang, T., et al. (2018) · Cell Host & Microbe · doi:10.1016/j.chom.2018.11.006 · Cited by 334 · see citing works
Antimicrobial Defense of the Intestine
Mukherjee, S., & Hooper, L. V. (2015) · Immunity · doi:10.1016/j.immuni.2014.12.028 · Cited by 320 · see citing works
Modulation of immune development and function by intestinal microbiota
Kabat, A. M., Srinivasan, N., & Maloy, K. J. (2014) · Trends in Immunology · doi:10.1016/j.it.2014.07.010 · Cited by 312 · see citing works
Host Genetics and Gut Microbiome: Challenges and Perspectives
Kurilshikov, A., Wijmenga, C., Fu, J., & Zhernakova, A. (2017) · Trends in Immunology · doi:10.1016/j.it.2017.06.003 · Cited by 309 · see citing works
Mucosal fungi promote gut barrier function and social behavior via Type 17 immunity
Leonardi, I., Gao, I. H., Lin, W.-Y., Allen, M., Li, X. V., Fiers, W. D., De Celie, M. B., Putzel, G. G., Yantiss, R. K., Johncilla, M., et al. (2022) · Cell · doi:10.1016/j.cell.2022.01.017 · Cited by 307 · see citing works
Self-citationLiu, N.-N., Jiao, N., Tan, J.-C., Wang, Z., Wu, D., Wang, A.-J., Chen, J., Tao, L., Zhou, C., Fang, W., et al. (2022) · Nature Microbiology · doi:10.1038/s41564-021-01030-7 · Cited by 306 · see citing works
Self-citationIL-17–Mediated Immunity to the Opportunistic Fungal Pathogen <i>Candida albicans</i>
Conti, H. R., & Gaffen, S. L. (2015) · The Journal of Immunology · doi:10.4049/jimmunol.1500909 · Cited by 301 · see citing works
Commensal Fungi Recapitulate the Protective Benefits of Intestinal Bacteria
Jiang, T. T., Shao, T., Ang, W. X. G., Kinder, J. M., Turner, L. H., Pham, G. H., Whitt, J., Alenghat, T., & Way, S. S. (2017) · Cell Host & Microbe · doi:10.1016/j.chom.2017.10.013 · Cited by 296 · see citing works
Control of Immunity by the Microbiota
Ansaldo, E., Farley, T. K., & Belkaid, Y. (2021) · Annual Review of Immunology · doi:10.1146/annurev-immunol-093019-112348 · Cited by 299 · see citing works
Pathogenesis of Inflammatory Bowel Disease and Recent Advances in Biologic Therapies
Kim, D. H., & Cheon, J. H. (2017) · Immune Network · doi:10.4110/in.2017.17.1.25 · Cited by 288 · see citing works
Urbanization and the gut microbiota in health and inflammatory bowel disease
Zuo, T., Kamm, M. A., Colombel, J., & Ng, S. C. (2018) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-018-0003-z · Cited by 294 · see citing works
Investigating Colonization of the Healthy Adult Gastrointestinal Tract by Fungi
Auchtung, T. A., Fofanova, T. Y., Stewart, C. J., Nash, A. K., Wong, M. C., Gesell, J. R., Auchtung, J. M., Ajami, N. J., & Petrosino, J. F. (2018) · mSphere · doi:10.1128/msphere.00092-18 · Cited by 290 · see citing works
CX3CR1 <sup>+</sup> mononuclear phagocytes control immunity to intestinal fungi
Leonardi, I., Li, X., Semon, A., Li, D., Doron, I., Putzel, G., Bar, A., Prieto, D., Rescigno, M., McGovern, D. P. B., et al. (2018) · Science · doi:10.1126/science.aao1503 · Cited by 289 · see citing works
Self-citationAn integrative view of microbiome-host interactions in inflammatory bowel diseases
Wlodarska, M., Kostic, A. D., & Xavier, R. J. (2015) · Cell Host & Microbe · doi:10.1016/j.chom.2015.04.008 · Cited by 287 · see citing works
Tang, C., Kamiya, T., Liu, Y., Kadoki, M., Kakuta, S., Oshima, K., Hattori, M., Takeshita, K., Kanai, T., Saijo, S., et al. (2015) · Cell Host & Microbe · doi:10.1016/j.chom.2015.07.003 · Cited by 285 · see citing works
Monk, B. C., Tomasiak, T. M., Keniya, M. V., Huschmann, F. U., Tyndall, J. D. A., O’Connell, J. D., Cannon, R. D., McDonald, J. G., Rodriguez, A. I., Finer-Moore, J. S., et al. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1324245111 · Cited by 284 · see citing works
Gut Microbiota beyond Bacteria—Mycobiome, Virome, Archaeome, and Eukaryotic Parasites in IBD
Matijašić, M., Meštrović, T., Paljetak, H. Č., Perić, M., Barešić, A., & Verbanac, D. (2020) · International Journal of Molecular Sciences · doi:10.3390/ijms21082668 · Cited by 293 · see citing works
Handley, S., Thackray, L. B., Zhao, G.-Y., Presti, R., Miller, A. D., Droit, L., Abbink, P., Maxfield, L. F., Kambal, A., Duan, E.-N., et al. (2012) · Cell · doi:10.1016/j.cell.2012.09.024 · Cited by 287 · see citing works
Forgotten fungi—the gut mycobiome in human health and disease
Huseyin, C. E., O’Toole, P. W., Cotter, P. D., & Scanlan, P. D. (2017) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuw047 · Cited by 275 · see citing works
Commensal bacteria and fungi differentially regulate tumor responses to radiation therapy
Shiao, S. L., Kershaw, K. M., Limon, J. J., You, S., Yoon, J., Ko, E. Y., Guarnerio, J., Potdar, A. A., McGovern, D. P. B., Bose, S., et al. (2021) · Cancer Cell · doi:10.1016/j.ccell.2021.07.002 · Cited by 279 · see citing works
Self-citationMetagenomics for pathogen detection in public health
Miller, R. R., Montoya, V., Gardy, J. L., Patrick, D. M., & Tang, P. (2013) · Genome Medicine · doi:10.1186/gm485 · Cited by 266 · see citing works
Obesity changes the human gut mycobiome
Rodríguez, M. M., Pérez, D., Chaves, F. J., Esteve, E., Marín-García, P., Xifra, G., Vendrell, J. J., Jové, M., Pamplona, R., Ricart, W., et al. (2015) · Scientific Reports · doi:10.1038/srep14600 · Cited by 270 · see citing works
Lactate signalling regulates fungal β-glucan masking and immune evasion
Ballou, E. R., Avelar, G. M., Childers, D. S., Mackie, J., Bain, J. M., Wagener, J., Kastora, S. L., Panea, M. D., Hardison, S. E., Walker, L. A., et al. (2016) · Nature Microbiology · doi:10.1038/nmicrobiol.2016.238 · Cited by 269 · see citing works
Self-citationFungal Signature in the Gut Microbiota of Pediatric Patients With Inflammatory Bowel Disease
Chehoud, C., Albenberg, L. G., Judge-Golden, C. P., Hoffmann, C., Grunberg, S., Bittinger, K. L., Baldassano, R. N., Lewis, J. D., Bushman, F. D., & Wu, G. D. (2015) · Inflammatory Bowel Diseases · doi:10.1097/mib.0000000000000454 · Cited by 265 · see citing works
The microbiome in inflammatory bowel diseases: from pathogenesis to therapy
Liu, S., Zhao, W., Lan, P., & Mou, X. (2020) · Protein & Cell · doi:10.1007/s13238-020-00745-3 · Cited by 266 · see citing works
Signalling C ‐Type lectin receptors, microbial recognition and immunity
Hoving, J. C., Wilson, G. J., & Brown, G. D. (2013) · Cellular Microbiology · doi:10.1111/cmi.12249 · Cited by 262 · see citing works
Self-citationScanlan, P. D., Stensvold, C. R., Rajilić-Stojanović, M. D., Heilig, H. G. H. J., de Vos, W. M., O’Toole, P. W., & Cotter, P. D. (2014) · FEMS Microbiology Ecology · doi:10.1111/1574-6941.12396 · Cited by 261 · see citing works
The lung mycobiome: an emerging field of the human respiratory microbiome
Nguyen, L. D. N., Viscogliosi, E., & Delhaes, L. (2015) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.00089 · Cited by 260 · see citing works
C-type lectins: their network and roles in pathogen recognition and immunity
Mayer, S., Raulf, M., & Lepenies, B. (2016) · Histochemistry and Cell Biology · doi:10.1007/s00418-016-1523-7 · Cited by 257 · see citing works
Zuo, T., Wong, S. H., Cheung, C. P., Lam, K., Lui, R. N.-S., Cheung, K., Zhang, F., Tang, W., Ching, J. Y. L., Wu, J. C. Y., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-06103-6 · Cited by 256 · see citing works
Conti, H. R., Peterson, A. C., Brane, L., Huppler, A. R., Hernández-Santos, N., Whibley, N., Garg, A. V., Simpson-Abelson, M. R., Gibson, G. A., Mamo, A. J., et al. (2014) · Journal of Experimental Medicine · doi:10.1084/jem.20130877 · Cited by 254 · see citing works
Intestinal fungi are causally implicated in microbiome assembly and immune development in mice
Bernardes, E. V. T., Pettersen, V. K., Gutierrez, M. W., Laforest‐Lapointe, I., Jendzjowsky, N. G., Cavin, J., Vicentini, F., Keenan, C. M., Ramay, H. R., Samara, J., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-16431-1 · Cited by 250 · see citing works
Gut Mycobiota in Immunity and Inflammatory Disease
Li, X. V., Leonardi, I., & Iliev, I. D. (2019) · Immunity · doi:10.1016/j.immuni.2019.05.023 · Cited by 246 · see citing works
Self-citation
- Authors
- Iliev, I. D., Funari, V. A., Taylor, K. D., Nguyen, Q., Reyes, C. N., Strom, S. P., Brown, J., Becker, C. A., Fleshner, P. R., Dubinsky, M., Rotter, J. I., Wang, H. L., McGovern, D. P. B., Brown, G. D., & Underhill, D. M.
- Affiliations
- Cedars-Sinai Medical Center (US)
- University of California, Los Angeles (US)
- University of Aberdeen (GB)
- Corresponding author
- Underhill, David M.
- ORCID
- Venue
- Science
- Published
- 2012-06-08
- Volume
- 336
- Issue
- 6086
- Pages
- 1314-1317
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- PMC
- PMC3432565
- OpenAlex
- W2036743290
- Cited by
- 1,073
- References
- 40
- Citations by year
- 2026: 36 · 2025: 64 · 2024: 54 · 2023: 74 · 2022: 75 · 2021: 111 · 2020: 79 · 2019: 98 · 2018: 70 · 2017: 84 · 2016: 67 · 2015: 67 · 2014: 84 · 2013: 88 · 2012: 22
- FWCI
- 33.53
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Science (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- UCL Discovery (University College London) (submittedVersion)
- Funders
- Wellcome Trust (086558)
- Crohn's and Colitis Foundation
- National Institutes of Health (1ul1rr033176-01, UL1TR000124)
- National Institute of Allergy and Infectious Diseases (AI071116, R01AI071116)
- National Institute of Diabetes and Digestive and Kidney Diseases (P01DK046763, R01DK093426)
- National Center for Research Resources (UL1-RR-033176)
- National Center for Advancing Translational Sciences
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Inflammatory Bowel Disease
- Life Sciences › Immunology and Microbiology › Immunology › Immune Response and Inflammation
- Keywords
- Dectin-1, commensal fungi, fungal communities, colitis, ulcerative colitis, innate immunity, intestinal immunity, chemically induced colitis, genetic polymorphism, inflammatory bowel disease
- MeSH terms
- Dectin-1, Animals, Antibodies, Fungal, Colitis, Ulcerative, Colon, Disease Susceptibility, Female, Fungi, Haplotypes, Humans, Immunity, Innate, Intestinal Mucosa, Intestines, Mice, Inbred C57BL, Colony Count, Microbial, Dextran Sulfate, Immunity, Mucosal, Polymorphism, Single Nucleotide, Lectins, C-Type, Candida tropicalis, Mice, Metagenome
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
