Genetic mapping of microbial and host traits reveals production of immunomodulatory lipids by Akkermansia muciniphila in the murine gut

Zhang, Qijun; Linke, Vanessa; Overmyer, Katherine A.; Traeger, Lindsay L.; Kasahara, Kazuyuki; Miller, Ian; Manson, Daniel E.; Polaske, Thomas J; Kerby, Robert L.; Kemis, Julia H.; Trujillo, Edna A.; Reddy, Thiru R.; Russell, John N.; Schueler, Kathryn L.; Stapleton, Donald S.; Rabaglia, Mary E.; Seldin, Marcus M.; Gatti, Daniel M.; Keele, Gregory R.; Pham, Duy T.; Gerdt, Joseph P.; Vivas, Eugenio I.; Lusis, Aldons J.; Keller, Mark P.; Churchill, Gary A.; Blackwell, Helen E.; Broman, Karl W.; Attie, Alan D.; Coon, Joshua J.; Rey, Federico E.

doi:10.1038/s41564-023-01326-w

Cited by 21 publications

(19 citation statements)

References 87 publications

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“…F2 surface/cave hybrids have been used in numerous quantitative trait loci (QTL) mapping studies to identify genetic changes associated with cavefish evolution (Gross et al, 2014;Klaassen et al, 2018;Protas et al, 2007;Riddle et al, 2021;Warren et al, 2021). Using microbiome composition as a trait for QTL mapping in mice has revealed genomic regions associated with the abundance of bacterial taxa in the intestine (Zhang et al, 2023).…”

Section: Feasibility Of Genetically Mapping Microbiome Composition In...mentioning

confidence: 99%

Host evolution shapes gut microbiome composition in Astyanax mexicanus

Riddle,

Nguyen,

Nave

et al. 2024

Ecology and Evolution

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The ecological and genetic changes that underlie the evolution of host–microbe interactions remain elusive, primarily due to challenges in disentangling the variables that alter microbiome composition. To understand the impact of host habitat, host genetics, and evolutionary history on microbial community structure, we examined gut microbiomes of river‐ and three cave‐adapted morphotypes of the Mexican tetra, Astyanax mexicanus, in their natural environments and under controlled laboratory conditions. Field‐collected samples were dominated by very few taxa and showed considerable interindividual variation. We found that lab‐reared fish exhibited increased microbiome richness and distinct composition compared to their wild counterparts, underscoring the significant influence of habitat. Most notably, however, we found that morphotypes reared on the same diet throughout life developed distinct microbiomes suggesting that genetic loci resulting from cavefish evolution shape microbiome composition. We observed stable differences in Fusobacteriota abundance between morphotypes and demonstrated that this could be used as a trait for quantitative trait loci mapping to uncover the genetic basis of microbial community structure.

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Section: Feasibility Of Genetically Mapping Microbiome Composition In...mentioning

confidence: 99%

Host evolution shapes gut microbiome composition in Astyanax mexicanus

Riddle,

Nguyen,

Nave

et al. 2024

Ecology and Evolution

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“…A very recent study has identified A. muciniphila as a major source of another group of N -acyl amines called ornithine lipids (OLs) in the gut [66]. OLs are well characterized in free-living bacteria and these lipids resemble GlyLs except that glycine has been replaced with the amino acid ornithine [11].…”

Section: N-acyl Amines Produced By Members Of the Bacteroidota Functi...mentioning

confidence: 99%

Membrane lipids from gut microbiome-associated bacteria as structural and signalling molecules

2023

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Bacteria produce an array of diverse, dynamic and often complex lipid structures, some of which function beyond their typical role in membrane structure. The model organism, E. coli , has three major membrane lipids, which are glycerophosphoglycerol (phosphatidylglycerol), glycerophosphoethanolamine (phosphatidylethanolamine) and cardiolipin. However, it is now appreciated that some bacteria have the capacity to synthesize a range of lipids, including glycerophosphocholines, glycerophosphoinositols, ‘phosphorous-free’ N-acyl amines, sphingolipids and plasmalogens. In recent years, some of these bacterial lipids have emerged as influential contributors to the microbe–host molecular dialogue. This review outlines our current knowledge of bacterial lipid diversity, with a focus on the membrane lipids of microbiome-associated bacteria that have documented roles as signalling molecules.

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“…Distinguishing between these explanations will be left for future investigations. QTL mapping has been performed previously in DO mice but never at multiple ages 50,62 .…”

Section: Geneticsmentioning

confidence: 99%

Interactions between the gut microbiome, dietary restriction, and aging in genetically diverse mice

Litichevskiy,

Considine,

Gill

et al. 2023

Preprint

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SummaryThe intestinal microbiome changes with age, but the causes and consequences of microbiome aging remain unclear. Furthermore, the gut microbiome has been proposed to mediate the benefit of lifespan- extending interventions such as dietary restriction, but this hypothesis warrants further exploration. Here, by analyzing 2997 metagenomes collected longitudinally from 913 deeply phenotyped, genetically diverse mice, we provide new insights into the interplay between the microbiome, aging, dietary restriction, host genetics, and a wide range of health parameters. First, we find that microbiome uniqueness increases with age across datasets and species. Moreover, age-associated changes are better explained by cumulative exposure to stochastic events (neutral theory) than by the influence of an aging host (selection theory). Second, we unexpectedly find that the majority of microbiome features are significantly heritable and that the amount of variation explained by host genetics is as large as that of aging and dietary restriction. Third, we find that the intensity of dietary restriction parallels the extent of microbiome changes and that dietary restriction does not rejuvenate the microbiome. Lastly, we find that the microbiome is significantly associated with multiple health parameters — including body composition, immune parameters, and frailty — but not with lifespan. In summary, this large and multifaceted study sheds light on the factors influencing the microbiome and aspects of host physiology modulated by the microbiome.

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Genetic mapping of microbial and host traits reveals production of immunomodulatory lipids by Akkermansia muciniphila in the murine gut

Cited by 21 publications

References 87 publications

Host evolution shapes gut microbiome composition in Astyanax mexicanus

Host evolution shapes gut microbiome composition in Astyanax mexicanus

Membrane lipids from gut microbiome-associated bacteria as structural and signalling molecules

Interactions between the gut microbiome, dietary restriction, and aging in genetically diverse mice

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