Host genetic and environmental effects on mouse intestinal microbiota

Campbell, James H.; Foster, Carmen M.; Vishnivetskaya, Tatiana A.; Campbell, Alisha G.; Yang, Zamin K.; Wymore, Ann M.; Palumbo, Anthony V.; Chesler, Elissa J.; Podar, Mircea

doi:10.1038/ismej.2012.54

Cited by 199 publications

(192 citation statements)

References 43 publications

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“…A microbiome QTL investigation examining >600 mice from an intercross between C57Bl/6J (inbred) and an ICR-derived (outbred) line has provided a rich data set on host genetic factors influencing the microbiome (Benson et al 2010). In Benson et al (2010) as in Campbell et al (2012), the litter and cohort had a significant effect on gut microbiota composition; however, there were discernible host genotype effects on microbiome variation as well. Numerous QTL were observed at the family and genus levels across Bacteroidetes, Clostridia, and Bacilli.…”

Section: Using Mice To Parse the Contribution Of Genetics To Configurmentioning

confidence: 92%

“…Although not completed, the CC is already providing important insight into complex trait analysis of the microbiome. Campbell et al (2012) analyzed the gut microbiota of the eight core inbred CC using 16S rRNA gene-based surveys. While litter and cohousing effects on the microbiota were discernible, there were significant correlations and distinctive community clustering observed between the mouse strains.…”

Section: Using Mice To Parse the Contribution Of Genetics To Configurmentioning

confidence: 99%

“…Notably, no QTL were detected at the genus level for Lactobacillus, and, as lactobacilli are a genera remarkable for many species host-adapted populations, this prompted further trait mapping for the Lactobacillus reuteri, johnsonii/ gasseri, and animalis/murinus groups that did reveal two significant QTLs. Collectively, these two studies by Campbell et al (2012) and Benson et al (2010) provide a strong foundation for integrating genetic, phenotypic and microbiome data and identifying QTL and genes that shape microbiome function from large limbs of the phylogenetic tree out to its strain-level branchlets.…”

Section: Using Mice To Parse the Contribution Of Genetics To Configurmentioning

confidence: 99%

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Exploring host–microbiota interactions in animal models and humans

2013

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The animal and bacterial kingdoms have coevolved and coadapted in response to environmental selective pressures over hundreds of millions of years. The meta'omics revolution in both sequencing and its analytic pipelines is fostering an explosion of interest in how the gut microbiome impacts physiology and propensity to disease. Gut microbiome studies are inherently interdisciplinary, drawing on approaches and technical skill sets from the biomedical sciences, ecology, and computational biology. Central to unraveling the complex biology of environment, genetics, and microbiome interaction in human health and disease is a deeper understanding of the symbiosis between animals and bacteria. Experimental model systems, including mice, fish, insects, and the Hawaiian bobtail squid, continue to provide critical insight into how host-microbiota homeostasis is constructed and maintained. Here we consider how model systems are influencing current understanding of host-microbiota interactions and explore recent human microbiome studies.The distinctive body plans of animals offer many niches for members of the archaeal and bacterial kingdoms. While the lumen of the human distal gut is one of the most densely populated ecosystems on our planet, humans and other animals harbor several microbiomes on and within their body surfaces such as the respiratory and urogenital tracts and the skin. As the gut has evolved from the relatively simple tube of the ancient cyclostomatida to the more highly compartmentalized gastrointestinal tracts of mammalian species, the diversity and complexity of the microbial inhabitants of those spaces has increased as well (Fig.

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Section: Using Mice To Parse the Contribution Of Genetics To Configurmentioning

confidence: 92%

Section: Using Mice To Parse the Contribution Of Genetics To Configurmentioning

confidence: 99%

Section: Using Mice To Parse the Contribution Of Genetics To Configurmentioning

confidence: 99%

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Exploring host–microbiota interactions in animal models and humans

2013

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“…That the microbiota of chimpanzees in Cameroon were equally similar to those of western and eastern lowland gorillas is consistent with the hypothesis that Cameroon chimpanzees acquired gut bacteria derived from gorillas. An alternative, but less parsimonious, explanation is that the environmental conditions that facilitate chimpanzees living in sympatry with gorillas also promoted the occurrence of bacterial phylotypes not favored by environments in which chimpanzees live in isolation from gorillas.Proximity between hosts has been linked to the exchange of gut microbes within species: In humans, the microbiota of unrelated hosts living in the same household tend to have more similar sets of bacterial phylotypes than do those of unrelated hosts of different households (Yatsunenko et al 2012), and in experiments with mice, hosts reared in the same cage tend to share gut bacteria (Campbell et al 2012). Our results show that the homogenizing effect of cohabitation extends to the gut microbiota of different host species in their natural environments.…”

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confidence: 99%

Sympatric chimpanzees and gorillas harbor convergent gut microbial communities

et al. 2013

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The gut microbial communities within great apes have been shown to reflect the phylogenetic history of their hosts, indicating codiversification between great apes and their gut microbiota over evolutionary timescales. But because the great apes examined to date represent geographically isolated populations whose diets derive from different sources, it is unclear whether this pattern of codiversification has resulted from a long history of coadaptation between microbes and hosts (heritable factors) or from the ecological and geographic separation among host species (environmental factors). To evaluate the relative influences of heritable and environmental factors on the evolution of the great ape gut microbiota, we assayed the gut communities of sympatric and allopatric populations of chimpanzees, bonobos, and gorillas residing throughout equatorial Africa. Comparisons of these populations revealed that the gut communities of different host species can always be distinguished from one another but that the gut communities of sympatric chimpanzees and gorillas have converged in terms of community composition, sharing on average 53% more bacterial phylotypes than the gut communities of allopatric hosts. Host environment, independent of host genetics and evolutionary history, shaped the distribution of bacterial phylotypes across the Bacteroidetes, Firmicutes, Proteobacteria, and Actinobacteria, the four most common phyla of gut bacteria. Moreover, the specific patterns of phylotype sharing among hosts suggest that chimpanzees living in sympatry with gorillas have acquired bacteria from gorillas. These results indicate that geographic isolation between host species has promoted the evolutionary differentiation of great ape gut bacterial communities.[Supplemental material is available for this article.]The compositions of the gut microbial communities harbored by great apes reflect the phylogeny of their hosts in a manner suggesting that host species and their gut microbiota have codiversified over evolutionary timescales Degnan et al. 2012). This pattern of codiversification between hosts and their gut microbiota could stem from both heritable factors, such as host genetics and the vertical, generation-to-generation transmission of gut microbes (Vaishampayan et al. 2010), and environmental factors, such as host diet and geography (Ley et al. 2008a,b;Turnbaugh et al. 2008Turnbaugh et al. , 2009De Filippo et al. 2010;La Serre et al. 2010;Muegge et al. 2011;Claesson et al. 2012;Yatsunenko et al. 2012). However, because the great ape species sampled to date represent populations that are at once phylogenetically, ecologically, and geographically distinct, it has not been possible to separate the relative influences of heritable and environmental factors on the evolution of the great ape gut microbiota.One approach to parsing the effects of environmental factors on the gut microbiota from those of heritable factors is to compare sympatric (i.e., co-occurring) and allopatric (i.e., geographically separated) host populatio...

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“…Diet is one of the major regulators of the intestinal microbiota, and so the newborn flora changes with the introduction of new foods, as well as post weaning 101,105 . At the same time, the genetic makeup of the host also plays a role in shaping the microbiota composition [106][107][108] . While the composition of the microbiota is highly dynamic throughout life and dependent on external and internal factors, it is largely dominated by two bacteria phyla -the anaerobes Bacteriodetes and Firmicutes.…”

Section: An Unusual Candidate -The Gut Microbiotamentioning

confidence: 99%

Altered Microbiota Composition Mediates Depressive Behavior During Chronic Stress

Marin¹

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Host genetic and environmental effects on mouse intestinal microbiota

Cited by 199 publications

References 43 publications

Exploring host–microbiota interactions in animal models and humans

Exploring host–microbiota interactions in animal models and humans

Sympatric chimpanzees and gorillas harbor convergent gut microbial communities

Altered Microbiota Composition Mediates Depressive Behavior During Chronic Stress

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