Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance
Open accessAbstract
Laboratory mice, while paramount for understanding basic biological phenomena, are limited in modeling complex diseases of humans and other free-living mammals. Because the microbiome is a major factor in mammalian physiology, we aimed to identify a naturally evolved reference microbiome to better recapitulate physiological phenomena relevant in the natural world outside the laboratory. Among 21 distinct mouse populations worldwide, we identified a closely related wild relative to standard laboratory mouse strains. Its bacterial gut microbiome differed significantly from its laboratory mouse counterpart and was transferred to and maintained in laboratory mice over several generations. Laboratory mice reconstituted with natural microbiota exhibited reduced inflammation and increased survival following influenza virus infection and improved resistance against mutagen/inflammation-induced colorectal tumorigenesis. By demonstrating the host fitness-promoting traits of natural microbiota, our findings should enable the discovery of protective mechanisms relevant in the natural world and improve the modeling of complex diseases of free-living mammals. VIDEO ABSTRACT.
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The microbiome can profoundly influence responsiveness to pharmacotherapies in disease models outside the liver.
“The microbiome can profoundly influence responsiveness to pharmacotherapies in disease models outside the liver (237, 238), and similar approaches are being explored in MASH.”
From Found in translation—Fibrosis in metabolic dysfunction–associated steatohepatitis (MASH) (2023) · cites this paper as [237]
Transferring the wild gut microbiome into laboratory mice produces long-lasting immune-modulatory effects across generations and improves outcomes against viral infection and carcinogenesis.
“Transfer of the wild gut microbiome to laboratory mice induces long-lasting immune modulatory effects (over several generations), which improves disease outcome against viral infection and mutagen-and inflammationinduced carcinogenesis (7).”
From The microbiome in cancer immunotherapy: Diagnostic tools and therapeutic strategies (2018) · cites this paper as [7]
Gut microbiota in wild mice can better recapitulate natural phenotypes in humans, as laboratory mice receiving wild microbiota exhibit less susceptibility to influenza virus infection and colitis-induced tumorigenesis, associated with less infiltration of immune cells and enhanced anti-inflammatory responses.
“the gut microbiota in wild mice can better recapitulate the natural phenotypes in humans, as laboratory mice receiving wild microbiota exhibit less susceptibility to influenza virus infection and colitis-induced tumorigenesis, which is associated with less infiltration of immune cells and enhanced anti-inflammatory responses.262”
From Interaction between microbiota and immunity in health and disease (2020) · cites this paper as [262]
Compared to free-living mice or laboratory animals exposed to gut flora from wild mice, SPF animals have a more limited microbial community and are also more susceptible to inflammatory diseases, with a reduced immune repertoire including deficits in memory responses.
“compared to free-living mice or laboratory animals exposed to gut flora from wild mice, SPF animals have a more limited microbial community and are also more susceptible to inflammatory diseases, with a reduced immune repertoire including deficits in memory responses”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [21]
Wild-living mice exhibit more diverse microbiomes, with significant abundance of Proteobacteria as well as Firmicutes and Bacteroidetes.
“Wild-living mice exhibit more diverse microbiomes, with significant abundance of Proteobacteria as well as Firmicutes and Bacteroidetes”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [21]
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R: A Language and Environment for Statistical Computing
R Core Team (2000) · doi:10.32614/r.manuals · Cited by 355,706 · see citing works
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
Benjamini, Y., & Hochberg, Y. (1995) · Journal of the Royal Statistical Society Series B: Statistical Methodology · doi:10.1111/j.2517-6161.1995.tb02031.x · Cited by 109,482 · see citing works
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106 · see citing works
Trimmomatic: a flexible trimmer for Illumina sequence data
Bolger, A. M., Lohse, M., & Usadel, B. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu170 · Cited by 65,548 · see citing works
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400 · see citing works
DADA2: High–resolution sample inference from Illumina amplicon data
Callahan, B. J., McMurdie, P. J., Rosen, M. J., Han, A. W., Johnson, A. J. A., & Holmes, S. P. (2016) · Nature Methods · doi:10.1038/nmeth.3869 · Cited by 35,698 · see citing works
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Quast, C., Pruesse, E., Yilmaz, P., Gerken, J., Schweer, T., Yarza, P., Peplies, J., & Glöckner, F. O. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1219 · Cited by 33,055 · see citing works
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 · see citing works
Global cancer statistics, 2012
Torre, L. A., Bray, F., Siegel, R. L., Ferlay, J., Lortet‐Tieulent, J., & Jemal, A. (2015) · CA A Cancer Journal for Clinicians · doi:10.3322/caac.21262 · Cited by 26,858 · see citing works
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
McMurdie, P. J., & Holmes, S. (2013) · PLoS ONE · doi:10.1371/journal.pone.0061217 · Cited by 21,013 · see citing works
UPARSE: highly accurate OTU sequences from microbial amplicon reads
Edgar, R. C. (2013) · Nature Methods · doi:10.1038/nmeth.2604 · Cited by 16,587 · see citing works
ggplot2: Elegant Graphics for Data Analysis
Wickham, H. (2009) · doi:10.1007/978-0-387-98141-3 · Cited by 14,447 · see citing works
On a Test of Whether one of Two Random Variables is Stochastically Larger than the Other
Mann, H. B., & Whitney, D. R. (1947) · The Annals of Mathematical Statistics · doi:10.1214/aoms/1177730491 · Cited by 14,320 · see citing works
Use of Ranks in One-Criterion Variance Analysis
Kruskal, W. H., & Wallis, W. A. (1952) · Journal of the American Statistical Association · doi:10.1080/01621459.1952.10483441 · Cited by 13,912 · see citing works
APE: Analyses of Phylogenetics and Evolution in R language
Paradis, E., Claude, J., & Strimmer, K. (2004) · Bioinformatics · doi:10.1093/bioinformatics/btg412 · Cited by 12,037 · see citing works
Structure, function and diversity of the healthy human microbiome
The Human Microbiome Project Consortium (2012) · Nature · doi:10.1038/nature11234 · Cited by 11,726 · see citing works
Li, D., Liu, C.-M., Luo, R., Sadakane, K., & Lam, T. (2015) · Bioinformatics · doi:10.1093/bioinformatics/btv033 · Cited by 9,781 · see citing works
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 9,633 · see citing works
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
Caporaso, J. G., Lauber, C. L., Walters, W. A., Berg-Lyons, D., Huntley, J., Fierer, N., Owens, S. M., Betley, J., Fraser, L., Bauer, M., et al. (2012) · The ISME Journal · doi:10.1038/ismej.2012.8 · Cited by 8,839 · see citing works
SPECIES ASSEMBLAGES AND INDICATOR SPECIES:THE NEED FOR A FLEXIBLE ASYMMETRICAL APPROACH
Dufrêne, M., & Legendre, P. (1997) · Ecological Monographs · doi:10.1890/0012-9615(1997)067[0345:saaist]2.0.co;2 · Cited by 8,346 · see citing works
Kraken: ultrafast metagenomic sequence classification using exact alignments
Wood, D. E., & Salzberg, S. L. (2014) · Genome Biology · doi:10.1186/gb-2014-15-3-r46 · Cited by 4,521 · see citing works
Associations between species and groups of sites: indices and statistical inference
Cáceres, M. D., & Legendre, P. (2009) · Ecology · doi:10.1890/08-1823.1 · Cited by 4,037 · see citing works
The gut microbiota--masters of host development and physiology
Sommer, F., & Bäckhed, F. (2013) · Nature Reviews Microbiology · doi:10.1038/nrmicro2974 · Cited by 3,681 · see citing works
Robust relationship inference in genome-wide association studies
Manichaikul, A., Mychaleckyj, J. C., Rich, S. S., Daly, K., Sale, M., & Chen, W.-M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq559 · Cited by 3,541 · see citing works
Benson, D. A., Cavanaugh, M., Clark, K., Karsch-Mizrachi, I., Lipman, D. J., Ostell, J., & Sayers, E. W. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1195 · Cited by 3,261 · see citing works
Reshaping Data with the reshape Package
Wickham, H. (2007) · Journal of Statistical Software · doi:10.18637/jss.v021.i12 · Cited by 3,167 · see citing works
Inference of population splits and mixtures from genome-wide allele frequency data
Pickrell, J. K., & Pritchard, J. K. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002967 · Cited by 2,731 · see citing works
A framework for human microbiome research
The Human Microbiome Project Consortium (2012) · Nature · doi:10.1038/nature11209 · Cited by 2,650 · see citing works
Zinkernagel, R. M., & Doherty, P. C. (1974) · Nature · doi:10.1038/248701a0 · Cited by 2,102 · see citing works
How colonization by microbiota in early life shapes the immune system
Gensollen, T., Iyer, S. S., Kasper, D. L., & Blumberg, R. S. (2016) · Science · doi:10.1126/science.aad9378 · Cited by 2,044 · see citing works
Into the Eye of the Cytokine Storm
Tisoncik, J. R., Korth, M. J., Simmons, C. P., Farrar, J., Martin, T. R., & Katze, M. G. (2012) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.05015-11 · Cited by 1,940 · see citing works
An ecological and evolutionary perspective on human–microbe mutualism and disease
Dethlefsen, L., McFall-Ngai, M., & Relman, D. A. (2007) · Nature · doi:10.1038/nature06245 · Cited by 1,660 · see citing works
Worlds within worlds: evolution of the vertebrate gut microbiota
Ley, R. E., Lozupone, C., Hamady, M., Knight, R. D., & Gordon, J. I. (2008) · Nature Reviews Microbiology · doi:10.1038/nrmicro1978 · Cited by 1,652 · see citing works
Microbiota regulates immune defense against respiratory tract influenza A virus infection
Ichinohe, T., Pang, I. K., Kumamoto, Y., Peaper, D. R., Ho, J. H., Murray, T. S., & Iwasaki, A. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1019378108 · Cited by 1,502 · see citing works
The maternal microbiota drives early postnatal innate immune development
Gomez de Agüero, M., Ganal-Vonarburg, S. C., Fuhrer, T., Rupp, S., Uchimura, Y., Li, H., Steinert, A., Heikenwalder, M., Hapfelmeier, S., Sauer, U., et al. (2016) · Science · doi:10.1126/science.aad2571 · Cited by 1,231 · see citing works
Microbial reconstitution reverses maternal diet-induced social and synaptic deficits in offspring
Buffington, S. A., Di Prisco, G. V., Auchtung, T. A., Ajami, N. J., Petrosino, J. F., & Costa-Mattioli, M. (2016) · Cell · doi:10.1016/j.cell.2016.06.001 · Cited by 1,163 · see citing works
Self-citationThe Pathology of Influenza Virus Infections
Taubenberger, J. K., & Morens, D. M. (2008) · Annual Review of Pathology: Mechanisms of Disease · doi:10.1146/annurev.pathmechdis.3.121806.154316 · Cited by 1,111 · see citing works
Normalizing the environment recapitulates adult human immune traits in laboratory mice
Beura, L. K., Hamilton, S. E., Bi, K., Schenkel, J. M., Odumade, O. A., Casey, K. A., Thompson, E. A., Fraser, K. A., Rosato, P. C., Filali-Mouhim, A., et al. (2016) · Nature · doi:10.1038/nature17655 · Cited by 1,072 · see citing works
Commensal bacteria calibrate the activation threshold of innate antiviral immunity
Abt, M. C., Osborne, L. C., Monticelli, L. A., Doering, T. A., Alenghat, T., Sonnenberg, G. F., Paley, M. A., Antenus, M., Williams, K. L., Erikson, J., et al. (2012) · Immunity · doi:10.1016/j.immuni.2012.04.011 · Cited by 993 · see citing works
Aberrant innate immune response in lethal infection of macaques with the 1918 influenza virus.
Kobasa, D., Jones, S. M., Shinya, K., Kash, J. C., Copps, J., Ebihara, H., Hatta, Y., Hyun Kim, J., Halfmann, P., Hatta, M., et al. (2007) · Nature · doi:10.1038/nature05495 · Cited by 934 · see citing works
Tuft cells, taste-chemosensory cells, orchestrate parasite type 2 immunity in the gut
Howitt, M. R., Lavoie, S., Michaud, M., Blum, A. M., Tran, S. V., Weinstock, J. V., Gallini, C. A., Redding, K., Margolskee, R. F., Osborne, L. C., et al. (2016) · Science · doi:10.1126/science.aaf1648 · Cited by 904 · see citing works
Zinkernagel, R. M., & Doherty, P. C. (1974) · Nature · doi:10.1038/251547a0 · Cited by 854 · see citing works
Genealogies of mouse inbred strains
Beck, J. A., Lloyd, S. E., Hafezparast, M., Lennon-Pierce, M., Eppig, J. T., Festing, M. F. W., & Fisher, E. (2000) · Nature Genetics · doi:10.1038/71641 · Cited by 825 · see citing works
Modified Randomization Tests for Nonparametric Hypotheses
Dwass, M. (1957) · The Annals of Mathematical Statistics · doi:10.1214/aoms/1177707045 · Cited by 744 · see citing works
Tanaka, T., Kohno, H., Suzuki, R., Yamada, Y., Sugie, S., & Mori, H. (2003) · Cancer Science · doi:10.1111/j.1349-7006.2003.tb01386.x · Cited by 732 · see citing works
The Gut Microbiome Modulates Colon Tumorigenesis
Zackular, J. P., Baxter, N. T., Iverson, K. D., Sadler, W. D., Petrosino, J. F., Chen, G., & Schloss, P. D. (2013) · mBio · doi:10.1128/mbio.00692-13 · Cited by 717 · see citing works
Genomic analysis of increased host immune and cell death responses induced by 1918 influenza virus
Kash, J. C., Tumpey, T. M., Proll, S. C., Carter, V., Perwitasari, O., Thomas, M. J., Basler, C. F., Palese, P., Taubenberger, J. K., García-Sastre, A., et al. (2006) · Nature · doi:10.1038/nature05181 · Cited by 551 · see citing works
Oh, J. Z., Ravindran, R., Chassaing, B., Carvalho, F. A., Maddur, M. S., Bower, M., Hakimpour, P., Gill, K. P., Nakaya, H. I., Yarovinsky, F., et al. (2014) · Immunity · doi:10.1016/j.immuni.2014.08.009 · Cited by 541 · see citing works
Inflammatory networks underlying colorectal cancer
Lasry, A., Zinger, A., & Ben‐Neriah, Y. (2016) · Nature Immunology · doi:10.1038/ni.3384 · Cited by 488 · see citing works
Subspecific origin and haplotype diversity in the laboratory mouse
Yang, H., Wang, J., Didion, J. P., Buus, R. J., Bell, T. A., Welsh, C. E., Bonhomme, F., Yu, A. H.-T., Nachman, M. W., Piálek, J., et al. (2011) · Nature Genetics · doi:10.1038/ng.847 · Cited by 459 · see citing works
Reshaping Data with the reshape Package
Wickham, H. (2007) · Cited by 433 · see citing works
Bacteria from Diverse Habitats Colonize and Compete in the Mouse Gut
Seedorf, H., Griffin, N. W., Ridaura, V. K., Reyes, A., Cheng, J., Rey, F. E., Smith, M. I., Simon, G. M., Scheffrahn, R. H., Woebken, D., et al. (2014) · Cell · doi:10.1016/j.cell.2014.09.008 · Cited by 361 · see citing works
McFall‐Ngai, M. (2007) · Nature · doi:10.1038/445153a · Cited by 345 · see citing works
Host-Protozoan Interactions Protect from Mucosal Infections through Activation of the Inflammasome
Chudnovskiy, A., Mortha, A., Kana, V., Kennard, A., Ramirez, J. D., Rahman, A., Remark, R., Mogno, I., Ng, R., Gnjatic, S., et al. (2016) · Cell · doi:10.1016/j.cell.2016.08.076 · Cited by 325 · see citing works
Viladomiu, M., Kivolowitz, C., Abdulhamid, A., Dogan, B., Victorio, D., Castellanos, J. G., Woo, V., Teng, F., Tran, N. L., Sczesnak, A., et al. (2017) · Science Translational Medicine · doi:10.1126/scitranslmed.aaf9655 · Cited by 314 · see citing works
Self-citationAccounting for reciprocal host–microbiome interactions in experimental science
Stappenbeck, T. S., & Virgin, H. W. (2016) · Nature · doi:10.1038/nature18285 · Cited by 265 · see citing works
Admixture, Population Structure, and F -Statistics
Peter, B. M. (2016) · Genetics · doi:10.1534/genetics.115.183913 · Cited by 256 · see citing works
Reese, T. A., Bi, K., Kambal, A., Filali-Mouhim, A., Beura, L. K., Bürger, M. C., Pulendran, B., Sekaly, R.-P., Jameson, S. C., Masopust, D., et al. (2016) · Cell Host & Microbe · doi:10.1016/j.chom.2016.04.003 · Cited by 246 · see citing works
Transkingdom control of viral infection and immunity in the mammalian intestine
Pfeiffer, J. K., & Virgin, H. W. (2016) · Science · doi:10.1126/science.aad5872 · Cited by 240 · see citing works
Mechanisms of sex disparities in influenza pathogenesis
Klein, S. L., Hodgson, A., & Robinson, D. P. (2012) · Journal of Leukocyte Biology · doi:10.1189/jlb.0811427 · Cited by 219 · see citing works
The Mouse Universal Genotyping Array: From Substrains to Subspecies
Morgan, A. P., Fu, C.-P., Kao, C.-Y., Welsh, C. E., Didion, J. P., Yadgary, L., Hyacinth, L., Ferris, M. T., Bell, T. A., Miller, D. R., et al. (2016) · G3 Genes|Genomes|Genetics · doi:10.1534/g3.115.022087 · Cited by 214 · see citing works
Self-citationExpression of influenza A virus internal antigens on the surface of infected P815 cells.
Yewdell, J. W., Frank, E., & Gerhard, W. (1981) · The Journal of Immunology · doi:10.4049/jimmunol.126.5.1814 · Cited by 205 · see citing works
Self-citationNorman, J. M., Handley, S. A., & Virgin, H. W. (2014) · Gastroenterology · doi:10.1053/j.gastro.2014.02.001 · Cited by 186 · see citing works
Insights into mammalian biology from the wild house mouse Mus musculus
Phifer‐Rixey, M., & Nachman, M. W. (2015) · eLife · doi:10.7554/elife.05959 · Cited by 185 · see citing works
metagenomeSeq: Statistical analysis for sparse high-throughput sequencing
Paulson, J. N. (2017) · Cited by 138 · see citing works
The Bacterial Microbiome and Virome Milestones of Infant Development
Lim, E. S., Wang, D., & Holtz, L. R. (2016) · Trends in Microbiology · doi:10.1016/j.tim.2016.06.001 · Cited by 128 · see citing works
Manipulation of the Gut Microbiota Reveals Role in Colon Tumorigenesis
Zackular, J. P., Baxter, N. T., Chen, G., & Schloss, P. D. (2015) · mSphere · doi:10.1128/msphere.00001-15 · Cited by 125 · see citing works
Smith, A. L., Singleton, G. R., Hansen, G. M., et al. (1993) · Journal of Wildlife Diseases · doi:10.7589/0090-3558-29.2.219 · Cited by 100 · see citing works
The mycobiome of the human urinary tract: potential roles for fungi in urology
Ackerman, A. L., & Underhill, D. M. (2017) · Annals of Translational Medicine · doi:10.21037/atm.2016.12.69 · Cited by 91 · see citing works
R2d2 Drives Selfish Sweeps in the House Mouse
Didion, J. P., Morgan, A. P., Yadgary, L., Bell, T. A., McMullan, R., de Solorzano, L. O., Britton‐Davidian, J., Bult, C. J., Campbell, K. J., Castiglia, R., et al. (2016) · Molecular Biology and Evolution · doi:10.1093/molbev/msw036 · Cited by 53 · see citing works
Self-citationThe Mouse in Biomedical Research
Lang, C. M. (1982) · American Journal of Veterinary Research · doi:10.2460/ajvr.1982.43.02.370 · Cited by 53 · see citing works
argyle: An R Package for Analysis of Illumina Genotyping Arrays
Morgan, A. P. (2015) · G3 Genes Genomes Genetics · doi:10.1534/g3.115.023739 · Cited by 45 · see citing works
Self-citationThe origin of common laboratory mice
Nishioka, Y. (1995) · Genome · doi:10.1139/g95-001 · Cited by 41 · see citing works
Gómez, D., Priotto, J. W., Provensal, M. C., et al. (2008) · International Biodeterioration & Biodegradation · doi:10.1016/j.ibiod.2007.08.004 · Cited by 33 · see citing works
A Population Study of House Mice (Mus musculus castaneus) Inhabiting Rice Granaries in Taiwan
Chou, C.-W., Lee, P.-F., Lu, K.-H., & Yu, H. (1998) · Zoological studies · Cited by 20 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Interaction between microbiota and immunity in health and disease
Zheng, D., Liwinski, T., & Elinav, E. (2020) · Cell Research · doi:10.1038/s41422-020-0332-7 · Cited by 3,947 · see citing works
Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner
Thion, M. S., Low, D., Silvin, A., Chen, J., Grisel, P., Schulte-Schrepping, J., Blecher, R., Ulas, T., Squarzoni, P., Hoeffel, G., et al. (2018) · Cell · doi:10.1016/j.cell.2017.11.042 · Cited by 779 · see citing works
The microbiome in cancer immunotherapy: Diagnostic tools and therapeutic strategies
Zitvogel, L., Ma, Y., Raoult, D., Kroemer, G., & Gajewski, T. F. (2018) · Science · doi:10.1126/science.aar6918 · Cited by 777 · see citing works
Bachem, A., Makhlouf, C., Binger, K. J., de Souza, D. P., Tull, D., Hochheiser, K., Whitney, P. G., Fernandez-Ruiz, D., Dähling, S., Kastenmüller, W., et al. (2019) · Immunity · doi:10.1016/j.immuni.2019.06.002 · Cited by 702 · see citing works
Molecular mimicry and autoimmunity
Rojas, M., Restrepo-Jiménez, P., Monsalve, D. M., Pacheco, Y., Acosta-Ampudia, Y., Ramírez-Santana, C., Leung, P. S. C., Ansari, A. A., Gershwin, M. E., & Anaya, J.-M. (2018) · Journal of Autoimmunity · doi:10.1016/j.jaut.2018.10.012 · Cited by 627 · see citing works
Karkman, A., Pärnänen, K., & Larsson, D. G. J. (2019) · Nature Communications · doi:10.1038/s41467-018-07992-3 · Cited by 628 · see citing works
The hallmarks of successful anticancer immunotherapy
Galluzzi, L., Chan, T. A., Kroemer, G., Wolchok, J. D., & López-Soto, A. (2018) · Science Translational Medicine · doi:10.1126/scitranslmed.aat7807 · Cited by 575 · see citing works
Laboratory mice born to wild mice have natural microbiota and model human immune responses
Rosshart, S. P., Herz, J., Vassallo, B. G., Hunter, A., Wall, M. K., Badger, J. H., McCulloch, J. A., Anastasakis, D. G., Sarshad, A. A., Leonardi, I., et al. (2019) · Science · doi:10.1126/science.aaw4361 · Cited by 572 · see citing works
Self-citationRespiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia.
Hanada, S., Pirzadeh, M., Carver, K. Y., & Deng, J. C. (2018) · Frontiers in Immunology · doi:10.3389/fimmu.2018.02640 · Cited by 495 · see citing works
The person-to-person transmission landscape of the gut and oral microbiomes
Valles-Colomer, M., Blanco-Míguez, A., Manghi, P., Asnicar, F., Dubois, L., Golzato, D., Armanini, F., Cumbo, F., Huang, K. D., Manara, S., et al. (2023) · Nature · doi:10.1038/s41586-022-05620-1 · Cited by 449 · see citing works
The role of the lung microbiota and the gut–lung axis in respiratory infectious diseases
Dumas, A., Bernard, L., Poquet, Y., Lugo-Villarino, G., & Neyrolles, O. (2018) · Cellular Microbiology · doi:10.1111/cmi.12966 · Cited by 444 · see citing works
Host–microbiota maladaptation in colorectal cancer
Janney, A., Powrie, F., & Mann, E. H. (2020) · Nature · doi:10.1038/s41586-020-2729-3 · Cited by 445 · see citing works
Overacre-Delgoffe, A. E., Bumgarner, H. J., Cillo, A. R., Burr, A. H. P., Tometich, J. T., Bhattacharjee, A., Bruno, T. C., Vignali, D. A. A., & Hand, T. W. (2021) · Immunity · doi:10.1016/j.immuni.2021.11.003 · Cited by 318 · see citing works
The gut microbiota drives the impact of bile acids and fat source in diet on mouse metabolism
Just, S., Mondot, S., Ecker, J., Wegner, K., Rath, E., Gau, L., Streidl, T., Hery-Arnaud, G., Schmidt, S., Lesker, T. R., et al. (2018) · Microbiome · doi:10.1186/s40168-018-0510-8 · Cited by 269 · see citing works
Infection trains the host for microbiota-enhanced resistance to pathogens
Stacy, A., Andrade-Oliveira, V., McCulloch, J. A., Hild, B., Oh, J. H., Perez-Chaparro, P. J., Sim, C. K., Lim, A. I., Link, V. M., Enamorado, M., et al. (2021) · Cell · doi:10.1016/j.cell.2020.12.011 · Cited by 239 · see citing works
Self-citationPeripheral immune system in aging and Alzheimer’s disease
Cao, W., & Zheng, H. (2018) · Molecular Neurodegeneration · doi:10.1186/s13024-018-0284-2 · Cited by 214 · see citing works
Martínez, I., Maldonado-Gomez, M. X., Gomes-Neto, J. C., Kittana, H., Ding, H., Schmaltz, R., Joglekar, P., Cardona, R. J., Marsteller, N. L., Kembel, S. W., et al. (2018) · eLife · doi:10.7554/elife.36521 · Cited by 199 · see citing works
Beresford-Jones, B. S., Forster, S. C., Stares, M. D., Notley, G., Viciani, E., Browne, H. P., Boehmler, D. J., Soderholm, A. T., Kumar, N., Vervier, K., et al. (2022) · Cell Host & Microbe · doi:10.1016/j.chom.2021.12.003 · Cited by 194 · see citing works
Found in translation—Fibrosis in metabolic dysfunction–associated steatohepatitis (MASH)
Wang, S., & Friedman, S. L. (2023) · Science Translational Medicine · doi:10.1126/scitranslmed.adi0759 · Cited by 158 · see citing works
Relevance of gutmicrobiota in cognition, behaviour and Alzheimer’s disease
de J.R. De-Paula, V., Forlenza, A. S., & Forlenza, O. V. (2018) · Pharmacological Research · doi:10.1016/j.phrs.2018.07.007 · Cited by 145 · see citing works
Huggins, M. A., Sjaastad, F. V., Pierson, M., Kucaba, T. A., Swanson, W., Staley, C., Weingarden, A. R., Jensen, I. J., Danahy, D. B., Badovinac, V. P., et al. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.07.028 · Cited by 114 · see citing works
Ikeda-Ohtsubo, W., Brugman, S., Warden, C. H., Rebel, J. M. J., Folkerts, G., & Pieterse, C. M. J. (2018) · Frontiers in Nutrition · doi:10.3389/fnut.2018.00090 · Cited by 115 · see citing works
Dong, Y., Zhang, K., Wei, J., Ding, Y., Wang, X., Hou, H., Wu, J., Liu, T., Wang, B., & Cao, H. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1158200 · Cited by 107 · see citing works
Why Do So Many Nonalcoholic Steatohepatitis Trials Fail?
Ratziu, V., & Friedman, S. L. (2023) · Gastroenterology · doi:10.1053/j.gastro.2020.05.046 · Cited by 88 · see citing works
Shaping of Intestinal Microbiota in Nlrp6- and Rag2-Deficient Mice Depends on Community Structure
Gálvez, E. J. C., Iljazovic, A., Gronow, A., Flavell, R., & Strowig, T. (2017) · Cell Reports · doi:10.1016/j.celrep.2017.12.027 · Cited by 81 · see citing works
Geographic Differences in Gut Microbiota Composition Impact Susceptibility to Enteric Infection
Porras, A. M., Shi, Q., Zhou, H., Callahan, R., Montenegro-Bethancourt, G., Solomons, N., & Brito, I. L. (2021) · Cell Reports · doi:10.1016/j.celrep.2021.109457 · Cited by 74 · see citing works
Regulation of microglial physiology by the microbiota
Cook, J., & Prinz, M. (2022) · Gut Microbes · doi:10.1080/19490976.2022.2125739 · Cited by 49 · see citing works
Kupffer cell reverse migration into the liver sinusoids mitigates neonatal sepsis and meningitis
Araujo David, B., Atif, J., Vargas e Silva Castanheira, F., Yasmin, T., Guillot, A., Ait Ahmed, Y., Peiseler, M., Hommes, J. W., Salm, L., Brundler, M.-A., et al. (2024) · Science Immunology · doi:10.1126/sciimmunol.adq9704 · Cited by 25 · see citing works
Burger, S., Stenger, T., Pierson, M., Sridhar, A., Huggins, M. A., Kucaba, T. A., Griffith, T. S., Hamilton, S. E., & Schuldt, N. J. (2023) · The Journal of Immunology · doi:10.4049/jimmunol.2300061 · Cited by 21 · see citing works
- Authors
- Rosshart, S. P., Vassallo, B. G., Angeletti, D., Hutchinson, D. S., Morgan, A. P., Takeda, K., Hickman, H. D., McCulloch, J. A., Badger, J. H., Ajami, N. J., Trinchieri, G., Pardo-Manuel de Villena, F., Yewdell, J. W., & Rehermann, B.
- Affiliations
- National Institutes of Health (US)
- Baylor College of Medicine (US)
- University of North Carolina at Chapel Hill (US)
- Center for Biologics Evaluation and Research (US)
- United States Department of Health and Human Services (US)
- Corresponding author
- Rosshart, Stephan P.
- Rehermann, Barbara
- ORCID
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2017-11
- Volume
- 171
- Issue
- 5
- Pages
- 1015-1028.e13
- ISSN
- 0092-8674 (ISSN-L)
- PMC
- PMC6887100
- OpenAlex
- W2765195199
- Cited by
- 862
- References
- 75
- Citations by year
- 2026: 67 · 2025: 84 · 2024: 93 · 2023: 122 · 2022: 105 · 2021: 119 · 2020: 134 · 2019: 72 · 2018: 61 · 2017: 4
- FWCI
- 30.45
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Cell (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- NIDDK
- NIAID
- NCI
- NIH (U19AI-100625, F30 MH-103925)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Animal Nutrition and Physiology
- Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
- Keywords
- host fitness, disease resistance, inflammation, influenza, colorectal carcinogenesis
- MeSH terms
- Gastrointestinal Microbiome, Animals, Animals, Laboratory, Animals, Wild, Female, Male, Maryland, Mice, Inbred C57BL, Peromyscus, Virus Diseases, Mice, Disease Resistance, Carcinogenesis
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.
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