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Heterogeneity of the gut microbiome in mice : guidelines for optimizing experimental design

(2016) FEMS MICROBIOLOGY REVIEWS. 40(1). p.117-132
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Ghent researchers on unfolded proteins in inflammatory disease (GROUP-ID)
Abstract
Targeted manipulation of the gut flora is increasingly being recognized as a means to improve human health. Yet, the temporal dynamics and intra- and interindividual heterogeneity of the microbiome represent experimental limitations, especially in human cross-sectional studies. Therefore, rodent models represent an invaluable tool to study the host-microbiota interface. Progress in technical and computational tools to investigate the composition and function of the microbiome has opened a new era of research and we gradually begin to understand the parameters that influence variation of host-associated microbial communities. To isolate true effects from confounding factors, it is essential to include such parameters in model intervention studies. Also, explicit journal instructions to include essential information on animal experiments are mandatory. The purpose of this review is to summarize the factors that influence microbiota composition in mice and to provide guidelines to improve the reproducibility of animal experiments.Given the unmet need for standardizing the experimental work flow related to gut microbial research in animals, guidelines are required to isolate true effects from confounding factors.Given the unmet need for standardizing the experimental work flow related to gut microbial research in animals, guidelines are required to isolate true effects from confounding factors.
Keywords
IMMUNE-SYSTEM, BALB/C MICE, ULCERATIVE-COLITIS, LABORATORY MICE, INTESTINAL MICROBIOTA, INNATE LYMPHOID-CELLS, GEL-ELECTROPHORESIS DGGE, DIET-INDUCED OBESITY, microbiome, animal models, animal facility, microbiota, confounding factors, INFLAMMASOME ACTIVATION, ENVIRONMENTAL-FACTORS

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Citation

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MLA
Laukens, Debby et al. “Heterogeneity of the Gut Microbiome in Mice : Guidelines for Optimizing Experimental Design.” FEMS MICROBIOLOGY REVIEWS 40.1 (2016): 117–132. Print.
APA
Laukens, D., Brinkman, B., Raes, J., De Vos, M., & Vandenabeele, P. (2016). Heterogeneity of the gut microbiome in mice : guidelines for optimizing experimental design. FEMS MICROBIOLOGY REVIEWS, 40(1), 117–132.
Chicago author-date
Laukens, Debby, Brigitta Brinkman, Jeroen Raes, Martine De Vos, and Peter Vandenabeele. 2016. “Heterogeneity of the Gut Microbiome in Mice : Guidelines for Optimizing Experimental Design.” Fems Microbiology Reviews 40 (1): 117–132.
Chicago author-date (all authors)
Laukens, Debby, Brigitta Brinkman, Jeroen Raes, Martine De Vos, and Peter Vandenabeele. 2016. “Heterogeneity of the Gut Microbiome in Mice : Guidelines for Optimizing Experimental Design.” Fems Microbiology Reviews 40 (1): 117–132.
Vancouver
1.
Laukens D, Brinkman B, Raes J, De Vos M, Vandenabeele P. Heterogeneity of the gut microbiome in mice : guidelines for optimizing experimental design. FEMS MICROBIOLOGY REVIEWS. 2016;40(1):117–32.
IEEE
[1]
D. Laukens, B. Brinkman, J. Raes, M. De Vos, and P. Vandenabeele, “Heterogeneity of the gut microbiome in mice : guidelines for optimizing experimental design,” FEMS MICROBIOLOGY REVIEWS, vol. 40, no. 1, pp. 117–132, 2016.
@article{6922587,
  abstract     = {Targeted manipulation of the gut flora is increasingly being recognized as a means to improve human health. Yet, the temporal dynamics and intra- and interindividual heterogeneity of the microbiome represent experimental limitations, especially in human cross-sectional studies. Therefore, rodent models represent an invaluable tool to study the host-microbiota interface. Progress in technical and computational tools to investigate the composition and function of the microbiome has opened a new era of research and we gradually begin to understand the parameters that influence variation of host-associated microbial communities. To isolate true effects from confounding factors, it is essential to include such parameters in model intervention studies. Also, explicit journal instructions to include essential information on animal experiments are mandatory. The purpose of this review is to summarize the factors that influence microbiota composition in mice and to provide guidelines to improve the reproducibility of animal experiments.Given the unmet need for standardizing the experimental work flow related to gut microbial research in animals, guidelines are required to isolate true effects from confounding factors.Given the unmet need for standardizing the experimental work flow related to gut microbial research in animals, guidelines are required to isolate true effects from confounding factors.},
  author       = {Laukens, Debby and Brinkman, Brigitta and Raes, Jeroen and De Vos, Martine and Vandenabeele, Peter},
  issn         = {0168-6445},
  journal      = {FEMS MICROBIOLOGY REVIEWS},
  keywords     = {IMMUNE-SYSTEM,BALB/C MICE,ULCERATIVE-COLITIS,LABORATORY MICE,INTESTINAL MICROBIOTA,INNATE LYMPHOID-CELLS,GEL-ELECTROPHORESIS DGGE,DIET-INDUCED OBESITY,microbiome,animal models,animal facility,microbiota,confounding factors,INFLAMMASOME ACTIVATION,ENVIRONMENTAL-FACTORS},
  language     = {eng},
  number       = {1},
  pages        = {117--132},
  title        = {Heterogeneity of the gut microbiome in mice : guidelines for optimizing experimental design},
  url          = {http://dx.doi.org/10.1093/femsre/fuv036},
  volume       = {40},
  year         = {2016},
}

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