Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces
Gut microbiome plays a fundamental role in several aspects of host health and diseases. There has been an exponential surge in the use of animal models that can mimic different phenotypes of the human intestinal ecosystem. However, data on host species-specific signatures of gut microbiome and its m...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2018-11-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/article/10.3389/fmicb.2018.02897/full |
| _version_ | 1818451653443977216 |
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| author | Ravinder Nagpal Ravinder Nagpal Shaohua Wang Shaohua Wang Leah C. Solberg Woods Leah C. Solberg Woods Osborne Seshie Stephanie T. Chung Carol A. Shively Thomas C. Register Suzanne Craft Donald A. McClain Hariom Yadav Hariom Yadav |
| author_facet | Ravinder Nagpal Ravinder Nagpal Shaohua Wang Shaohua Wang Leah C. Solberg Woods Leah C. Solberg Woods Osborne Seshie Stephanie T. Chung Carol A. Shively Thomas C. Register Suzanne Craft Donald A. McClain Hariom Yadav Hariom Yadav |
| author_sort | Ravinder Nagpal |
| collection | DOAJ |
| description | Gut microbiome plays a fundamental role in several aspects of host health and diseases. There has been an exponential surge in the use of animal models that can mimic different phenotypes of the human intestinal ecosystem. However, data on host species-specific signatures of gut microbiome and its metabolites like short-chain fatty acids (SCFAs; i.e., acetate, propionate, and butyrate) and lactate in these models and their similarities/differences from humans remain limited, due to high variability in protocols and analyses. Here, we analyze the fecal microbiota composition and the fecal levels of SCFAs and lactate in three of the most-widely used animal models, i.e., mice, rats, and non-human primates (NHPs) and compare them with human subjects, using data generated on a single platform with same protocols. The data show several species-specific similarities and differences in the gut microbiota and fecal organic acids between these species groups. Based on β-diversity, the gut microbiota in humans seems to be closer to NHPs than to mice and rats; however, among rodents, mice microbiota appears to be closer to humans than rats. The phylum-level analyses demonstrate higher Firmicutes–Bacteroidetes ratio in humans and NHPs vs. mice and rats. Human microbiota is dominated by Bacteroides followed by Ruminococcaceae and Clostridiales. Mouse gut is predominated by members of the family S24-7 followed by those from the order Clostridiales, whereas rats and NHPs have higher abundance of Prevotella compared with mice and humans. Also, fecal levels of lactate are higher in mice and rats vs. NHPs and humans, while acetate is highest in human feces. These data of host species-specific gut microbiota signatures in some of the most widely used animal models in context to the human microbiota might reflect disparities in host factors, e.g., diets, genetic origin, gender and age, and hence call for prospective studies investigating the features of gut microbiome in such animal models by controlling for these host elements. |
| first_indexed | 2024-12-14T21:10:37Z |
| format | Article |
| id | doaj.art-7c6e280759564b0fa7bf22ae93f30dff |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-14T21:10:37Z |
| publishDate | 2018-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-7c6e280759564b0fa7bf22ae93f30dff2022-12-21T22:47:15ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2018-11-01910.3389/fmicb.2018.02897413720Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human FecesRavinder Nagpal0Ravinder Nagpal1Shaohua Wang2Shaohua Wang3Leah C. Solberg Woods4Leah C. Solberg Woods5Osborne Seshie6Stephanie T. Chung7Carol A. Shively8Thomas C. Register9Suzanne Craft10Donald A. McClain11Hariom Yadav12Hariom Yadav13Department of Internal Medicine-Molecular Medicine, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDepartment of Microbiology and Immunology, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDepartment of Internal Medicine-Molecular Medicine, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDepartment of Microbiology and Immunology, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDepartment of Internal Medicine-Molecular Medicine, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDepartment of Physiology and Pharmacology, Wake Forest School of Medicine, Winston-Salem, NC, United StatesDepartment of Internal Medicine-Molecular Medicine, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDiabetes, Endocrinology and Obesity Branch, National Institutes of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, United StatesDepartment of Pathology-Comparative Medicine, Wake Forest School of Medicine, Winston-Salem, NC, United StatesDepartment of Pathology-Comparative Medicine, Wake Forest School of Medicine, Winston-Salem, NC, United StatesDepartment of Internal Medicine-Gerontology and Geriatric Medicine, Wake Forest School of Medicine, Winston-Salem, NC, United StatesDepartment of Endocrinology and Metabolism, Wake Forest School of Medicine, Winston-Salem, NC, United StatesDepartment of Internal Medicine-Molecular Medicine, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesDepartment of Microbiology and Immunology, Wake Forest School of Medicine, Center for Diabetes, Obesity and Metabolism, Winston-Salem, NC, United StatesGut microbiome plays a fundamental role in several aspects of host health and diseases. There has been an exponential surge in the use of animal models that can mimic different phenotypes of the human intestinal ecosystem. However, data on host species-specific signatures of gut microbiome and its metabolites like short-chain fatty acids (SCFAs; i.e., acetate, propionate, and butyrate) and lactate in these models and their similarities/differences from humans remain limited, due to high variability in protocols and analyses. Here, we analyze the fecal microbiota composition and the fecal levels of SCFAs and lactate in three of the most-widely used animal models, i.e., mice, rats, and non-human primates (NHPs) and compare them with human subjects, using data generated on a single platform with same protocols. The data show several species-specific similarities and differences in the gut microbiota and fecal organic acids between these species groups. Based on β-diversity, the gut microbiota in humans seems to be closer to NHPs than to mice and rats; however, among rodents, mice microbiota appears to be closer to humans than rats. The phylum-level analyses demonstrate higher Firmicutes–Bacteroidetes ratio in humans and NHPs vs. mice and rats. Human microbiota is dominated by Bacteroides followed by Ruminococcaceae and Clostridiales. Mouse gut is predominated by members of the family S24-7 followed by those from the order Clostridiales, whereas rats and NHPs have higher abundance of Prevotella compared with mice and humans. Also, fecal levels of lactate are higher in mice and rats vs. NHPs and humans, while acetate is highest in human feces. These data of host species-specific gut microbiota signatures in some of the most widely used animal models in context to the human microbiota might reflect disparities in host factors, e.g., diets, genetic origin, gender and age, and hence call for prospective studies investigating the features of gut microbiome in such animal models by controlling for these host elements.https://www.frontiersin.org/article/10.3389/fmicb.2018.02897/fullmicrobiomeshort-chain fatty acidsmicrobiotamiceratnon-human primate |
| spellingShingle | Ravinder Nagpal Ravinder Nagpal Shaohua Wang Shaohua Wang Leah C. Solberg Woods Leah C. Solberg Woods Osborne Seshie Stephanie T. Chung Carol A. Shively Thomas C. Register Suzanne Craft Donald A. McClain Hariom Yadav Hariom Yadav Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces Frontiers in Microbiology microbiome short-chain fatty acids microbiota mice rat non-human primate |
| title | Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces |
| title_full | Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces |
| title_fullStr | Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces |
| title_full_unstemmed | Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces |
| title_short | Comparative Microbiome Signatures and Short-Chain Fatty Acids in Mouse, Rat, Non-human Primate, and Human Feces |
| title_sort | comparative microbiome signatures and short chain fatty acids in mouse rat non human primate and human feces |
| topic | microbiome short-chain fatty acids microbiota mice rat non-human primate |
| url | https://www.frontiersin.org/article/10.3389/fmicb.2018.02897/full |
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