Maturation of the murine cecal microbiota as revealed by terminal restriction fragment length polymorphism and 16S rRNA gene clone libraries

Kibe, Ryoko; Sakamoto, Mitsuo; Hayashi, Hidenori; Yokota, Hiroshi; Benno, Yoshimi

doi:10.1111/j.1574-6968.2004.tb09578.x

Cited by 40 publications

(19 citation statements)

References 35 publications

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“…However, the intestinal microbiota in experimental animals is quite different in composition from that in humans (23,31). A recent study revealed the existence of many unidentified microorganisms, including some bacteria specific to the mouse intestine, by molecular techniques (2,17,35). Therefore, data obtained in animal experiments cannot be directly applied to humans.…”

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confidence: 89%

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Movement and Fixation of Intestinal Microbiota after Administration of Human Feces to Germfree Mice

Kibe

Sakamoto

Yokota

et al. 2005

Appl Environ Microbiol

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Human flora-associated (HFA) mice have been considered a tool for studying the ecology and metabolism of intestinal bacteria in humans, although they have some limitations as a model. Shifts in dominant species of microbiota in HFA mice after the administration of human intestinal microbiota was revealed by 16S rRNA gene sequence and terminal restriction fragment length polymorphism (T-RFLP) analyses. Characteristic terminal restriction fragments (T-RFs) were quantified as the proportion of total peak area of all T-RFs. Only the proportion of the T-RF peak at bp 366, identified as the Gammmaproteobacteria group and the family Coriobacteriaceae, was reduced in this study. Increased T-RFs over time at bp 56, 184, and 196 were affiliated with the Clostridium group. However, most of the isolated bacteria with unique population shifts were phylotypes. The vertical transmission of the intestinal microbiota of the mouse offspring was also investigated by dendrogram analysis derived from the similarity of T-RFLP patterns among samples. As a result, the intestinal microbiota of HFA mice and their offspring reflected the composition of individual human intestinal bacteria with some modifications. Moreover, we revealed that human-derived lactobacilli (HDL), which have been considered difficult to colonize in the HFA mouse intestine in previous studies based on culture methods, could be detected in the HFA mouse intestine by using a lactic acid bacterium-specific primer and HDL-specific primers. Our results indicate that the intestinal microbiota of HFA mice represents a limited sample of bacteria from the human source and are selected by unknown interactions between the host and bacteria.

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confidence: 89%

“…DNA extraction and purification were based on the methods described by Clement and Kitts (3), using an Ultra Clean Soil DNA isolation kit (Mo Bio Laboratories, Inc., Solana Beach, CA) with some modification, as described previously (17).…”

Section: Animalsmentioning

confidence: 99%

Movement and Fixation of Intestinal Microbiota after Administration of Human Feces to Germfree Mice

Kibe

Sakamoto

Yokota

et al. 2005

Appl Environ Microbiol

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“…It has been previously suggested that T-RFLP analysis is appropriate for monitoring changes in a given community (28). The use of T-RFLP also revealed that the process of colonization of the cecal mucosa by H. hepaticus was associated with reproducible shifts in the overall structure of the microbial community.…”

Section: Fig 4 Comparison Between T-rflp Analysis and In Silico Termentioning

confidence: 94%

Colonization of the Cecal Mucosa by Helicobacter hepaticus Impacts the Diversity of the Indigenous Microbiota

Kuehl¹,

Wood²,

Marsh

et al. 2005

Infect Immun

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Establishment of mucosal and/or luminal colonization is the first step in the pathogenesis of many gastrointestinal bacterial pathogens. The pathogen must be able to establish itself in the face of competition from the complex microbial community that is already in place. We used culture-independent methods to monitor the colonization of the cecal mucosa of Helicobacter-free mice following experimental infection with the pathogen Helicobacter hepaticus. Two days after infection, H. hepaticus comprised a minor component of the mucosaassociated microbiota, but within 14 days, it became the dominant member of the community. Colonization of the mucosa by H. hepaticus was associated with a decrease in the overall diversity of the microbial community, in large part due to changes in evenness resulting from the relative dominance of H. hepaticus as a member of the community. Our results demonstrate that invasion of the complex gastrointestinal microbial community by a pathogenic microorganism causes reproducible and significant disturbances in the community structure. The use of non-culture-based methods to monitor these changes should lead to a greater understanding of the ecological principles that govern pathogen invasion and may lead to novel methods for the prevention and control of gastrointestinal pathogens.

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“…Following weaning, the cecal community goes through what appears to be a stage of transition before reaching a period of little temporal variation at about 5 weeks of age, which lasts until at least 8 weeks of age. At 10 weeks, however, there is yet another shift in structure (163). Another study, however, suggests that the period of little temporal variation may range from 6 to 15 weeks of age (17).…”

Section: Gastrointestinal Communitymentioning

confidence: 96%

From Structure to Function: the Ecology of Host-Associated Microbial Communities

Robinson

Bohannan

Young

2010

Microbiol Mol Biol Rev

355

310

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SUMMARY In the past several years, we have witnessed an increased interest in understanding the structure and function of the indigenous microbiota that inhabits the human body. It is hoped that this will yield novel insight into the role of these complex microbial communities in human health and disease. What is less appreciated is that this recent activity owes a great deal to the pioneering efforts of microbial ecologists who have been studying communities in non-host-associated environments. Interactions between environmental microbiologists and human microbiota researchers have already contributed to advances in our understanding of the human microbiome. We review the work that has led to these recent advances and illustrate some of the possible future directions for continued collaboration between these groups of researchers. We discuss how the application of ecological theory to the human-associated microbiota can lead us past descriptions of community structure and toward an understanding of the functions of the human microbiota. Such an approach may lead to a shift in the prevention and treatment of human diseases that involves conservation or restoration of the normal community structure and function of the host-associated microbiota.

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Maturation of the murine cecal microbiota as revealed by terminal restriction fragment length polymorphism and 16S rRNA gene clone libraries

Cited by 40 publications

References 35 publications

Movement and Fixation of Intestinal Microbiota after Administration of Human Feces to Germfree Mice

Movement and Fixation of Intestinal Microbiota after Administration of Human Feces to Germfree Mice

Colonization of the Cecal Mucosa by Helicobacter hepaticus Impacts the Diversity of the Indigenous Microbiota

From Structure to Function: the Ecology of Host-Associated Microbial Communities

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