The Gut Microbiome of 54 Mammalian Species.
Abstract: The gut microbiome plays a critical role in many aspects of host life, and the microbial community composition is heavily influenced by the prevailing conditions in the gut environment. Community composition has been suggested to have large implications for conservation efforts, and gut health has become of interest for optimizing animal care in captivity. In this study, we explore the gut microbiome of a wide range of animals in the context of conservation biology. The composition of the gut microbial community of 54 mammalian animal species was investigated using 16S rRNA gene amplicon sequencing. The composition of the gut microbiota clearly reflects diet and the structure of the gastrointestinal system, and it is to a certain degree more similar between closely related animals. Specific clusters of taxa were observed across animals of the same species, diet, and gut morphology. The microbiota retained regardless of captivity status is hypothesized to cover important symbiotic relationships with the host, while the remaining part reflects the artificial living conditions and can therefore be used as a future tool for conservation biologists. For five animal species (giraffes, horses, baboons, elephants, and zebras), it was possible to compare the microbiota of wild and captive individuals. Differences were observed in the proportion of microbiota detected between wild and captive specimens of the same animal species. We propose that the gut microbiota harbours important species, which can potentially serve as indicators for the well-being of the animal and the effect of living in captivity.
Copyright © 2022 de Jonge, Carlsen, Christensen, Pertoldi and Nielsen.
Publication Date: 2022-06-16 PubMed ID: 35783446PubMed Central: PMC9246093DOI: 10.3389/fmicb.2022.886252Google Scholar: Lookup
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Summary
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This research article investigates the makeup of gut microbes in 54 different mammalian species, revealing its dependence on aspects such as diet and digestive system structure. This study suggests that the existing microbial community, even under captive conditions, plays a vital role for the host and could be a useful tool for conservation biologists to assess animal well-being.
Overview of the Study
- The research delves into the gut microbiome of a diverse range of 54 mammalian species. It investigates aspects of animal life such as their diet, gut physiology, and relationship degrees, considering both wild and captive species.
- The research method used was 16S rRNA gene amplicon sequencing, a common technique to study microbial communities.
Key Findings
- The composition of the gut microbiota is dependent on different factors such as the animal’s diet and the structure of their gastrointestinal system. In simpler terms, what the animal eats and how their digestive system is structured shapes their gut bacterial population.
- There is a certain level of similarity in the gut microbiota composition between related animals. Therefore, animals from the same family may harbor similar gut microbes.
- Specific clusters of bacteria were found prevalent across animals of the same species, diet, and gut morphology, pointing to a connection between these factors.
Implications of the Findings
- The microbiota that is retained in an animal irrespective of its captivity status could represent important synergistic relationships with the host that help it to survive and thrive.
- For instance, in the case of five animal species (giraffes, horses, baboons, elephants, and zebras), it was observed that the proportion of gut microbiota differed between wild and captive individuals. This difference may indicate the effects of the living environment, particularly captivity, on the gut microbiome of these animals.
- The researchers thus propose that gut microbiota can serve as important species indicators, potentially serving as a gauge for the well-being of the animal and the impact of being in captivity. Such indicators could be a useful tool for conservation biologists, helping to optimize animal care in captivity.
Cite This Article
APA
de Jonge N, Carlsen B, Christensen MH, Pertoldi C, Nielsen JL.
(2022).
The Gut Microbiome of 54 Mammalian Species.
Front Microbiol, 13, 886252.
https://doi.org/10.3389/fmicb.2022.886252 Publication
Researcher Affiliations
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
- Aalborg Zoo, Aalborg, Denmark.
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
Conflict of Interest Statement
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
References
This article includes 72 references
- Alberdi A, Martin Bideguren G, Aizpurua O. Diversity and compositional changes in the gut microbiota of wild and captive vertebrates: a meta-analysis.. Sci Rep 2021 Nov 22;11(1):22660.
- Albertsen M, Hugenholtz P, Skarshewski A, Nielsen KL, Tyson GW, Nielsen PH. Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes.. Nat Biotechnol 2013 Jun;31(6):533-8.
- Amato KR. Incorporating the gut microbiota into models of human and non-human primate ecology and evolution.. Am J Phys Anthropol 2016 Jan;159(Suppl 61):S196-215.
- Amato KR, Yeoman CJ, Kent A, Righini N, Carbonero F, Estrada A, Gaskins HR, Stumpf RM, Yildirim S, Torralba M, Gillis M, Wilson BA, Nelson KE, White BA, Leigh SR. Habitat degradation impacts black howler monkey (Alouatta pigra) gastrointestinal microbiomes.. ISME J 2013 Jul;7(7):1344-53.
- An C, Okamoto Y, Xu S, Eo KY, Kimura J, Yamamoto N. Comparison of fecal microbiota of three captive carnivore species inhabiting Korea.. J Vet Med Sci 2017 Mar 18;79(3):542-546.
- Andersen KS, Kirkegaard RH, Karst SM, Albertsen M. ampvis2: an R package to analyse and visualise 16S rRNA amplicon data. bioRxiv 1–2.
- Azad MAK, Sarker M, Li T, Yin J. Probiotic Species in the Modulation of Gut Microbiota: An Overview.. Biomed Res Int 2018;2018:9478630.
- Bahrndorff S, Alemu T, Alemneh T, Lund Nielsen J. The Microbiome of Animals: Implications for Conservation Biology.. Int J Genomics 2016;2016:5304028.
- Bahrndorff S, de Jonge N, Hansen JK, Lauritzen JMS, Spanggaard LH, Sørensen MH, Yde M, Nielsen JL. Diversity and metabolic potential of the microbiota associated with a soil arthropod.. Sci Rep 2018 Feb 6;8(1):2491.
- Banerjee S, Schlaeppi K, van der Heijden MGA. Keystone taxa as drivers of microbiome structure and functioning.. Nat Rev Microbiol 2018 Sep;16(9):567-576.
- Barrett HL, Gomez-Arango LF, Wilkinson SA, McIntyre HD, Callaway LK, Morrison M, Dekker Nitert M. A Vegetarian Diet Is a Major Determinant of Gut Microbiota Composition in Early Pregnancy.. Nutrients 2018 Jul 12;10(7).
- Bayané A, Guiot SR. Animal digestive strategies versus anaerobic digestion bioprocesses for biogas production from lignocellulosic biomass. Rev. Environ. Sci. Biotechnol. 10, 43–62.
- Blumstein DT, Rangchi TN, Briggs T, De Andrade FS, Natterson-Horowitz B. A Systematic Review of Carrion Eaters' Adaptations to Avoid Sickness.. J Wildl Dis 2017 Jul;53(3):577-581.
- Borbón-García A, Reyes A, Vives-Flórez M, Caballero S. Captivity Shapes the Gut Microbiota of Andean Bears: Insights into Health Surveillance.. Front Microbiol 2017;8:1316.
- Bray J, Curtis J. An ordination of the upland forest communities of Southern Wisconsin. Ecol. Monogr. 27, 325–349.
- Brice KL, Trivedi P, Jeffries TC, Blyton MDJ, Mitchell C, Singh BK, Moore BD. The Koala (Phascolarctos cinereus) faecal microbiome differs with diet in a wild population.. PeerJ 2019;7:e6534.
- Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Lozupone CA, Turnbaugh PJ, Fierer N, Knight R. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample.. Proc Natl Acad Sci U S A 2011 Mar 15;108 Suppl 1(Suppl 1):4516-22.
- Chao A. Nonparametric estimation of the number of classes in a population author. Scanadinavian J. Stat. 11, 265–270.
- Clayton JB, Vangay P, Huang H, Ward T, Hillmann BM, Al-Ghalith GA, Travis DA, Long HT, Tuan BV, Minh VV, Cabana F, Nadler T, Toddes B, Murphy T, Glander KE, Johnson TJ, Knights D. Captivity humanizes the primate microbiome.. Proc Natl Acad Sci U S A 2016 Sep 13;113(37):10376-81.
- Edgar RC. Search and clustering orders of magnitude faster than BLAST.. Bioinformatics 2010 Oct 1;26(19):2460-1.
- Edgar RC. SINTAX: a simple non-Bayesian taxonomy classifier for 16S and ITS sequences. bioRxiv 74161.
- Edgar RC. UNOISE2: improved error-correction for Illumina 16S and ITS amplicon sequencing. bioRxiv 81257.
- Eisenhofer R, Helgen KM, Taggart D. Signatures of landscape and captivity in the gut microbiota of Southern Hairy-nosed Wombats (Lasiorhinus latifrons).. Anim Microbiome 2021 Jan 6;3(1):4.
- García-Amado MA, Shin H, Sanz V, Lentino M, Martínez LM, Contreras M, Michelangeli F, Domínguez-Bello MG. Comparison of gizzard and intestinal microbiota of wild neotropical birds.. PLoS One 2018;13(3):e0194857.
- Greene LK, Blanco MB, Rambeloson E, Graubics K, Fanelli B, Colwell RR, Drea CM. Gut microbiota of frugo-folivorous sifakas across environments.. Anim Microbiome 2021 May 18;3(1):39.
- Hale VL, Tan CL, Niu K, Yang Y, Zhang Q, Knight R, Amato KR. Gut microbiota in wild and captive Guizhou snub-nosed monkeys, Rhinopithecus brelichi.. Am J Primatol 2019 Oct;81(10-11):e22989.
- Hauffe HC, Barelli C. Conserve the germs: the gut microbiota and adaptive potential. Conserv. Genet. 20, 19–27.
- Henderson G, Cox F, Ganesh S, Jonker A, Young W, Janssen PH. Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range.. Sci Rep 2015 Oct 9;5:14567.
- Houtz JL, Sanders JG, Denice A, Moeller AH. Predictable and host-species specific humanization of the gut microbiota in captive primates.. Mol Ecol 2021 Aug;30(15):3677-3687.
- Kamada N, Seo SU, Chen GY, Núñez G. Role of the gut microbiota in immunity and inflammatory disease.. Nat Rev Immunol 2013 May;13(5):321-35.
- Kartzinel TR, Hsing JC, Musili PM, Brown BRP, Pringle RM. Covariation of diet and gut microbiome in African megafauna.. Proc Natl Acad Sci U S A 2019 Nov 19;116(47):23588-23593.
- Kirkwood JK. Welfare, husbandry and veterinary care of wild animals in captivity: Changes in attitudes, progress in knowledge and techniques. Int. Zoo Yearb. 38, 124–130.
- Kogut MH, Lee A, Santin E. Microbiome and pathogen interaction with the immune system.. Poult Sci 2020 Apr;99(4):1906-1913.
- Kohl KD, Skopec MM, Dearing MD. Captivity results in disparate loss of gut microbial diversity in closely related hosts.. Conserv Physiol 2014;2(1):cou009.
- Levin D, Raab N, Pinto Y, Rothschild D, Zanir G, Godneva A, Mellul N, Futorian D, Gal D, Leviatan S, Zeevi D, Bachelet I, Segal E. Diversity and functional landscapes in the microbiota of animals in the wild.. Science 2021 Apr 16;372(6539).
- Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher JS, Schlegel ML, Tucker TA, Schrenzel MD, Knight R, Gordon JI. Evolution of mammals and their gut microbes.. Science 2008 Jun 20;320(5883):1647-51.
- Li Y, Guo W, Han S, Kong F, Wang C, Li D, Zhang H, Yang M, Xu H, Zeng B, Zhao J. The evolution of the gut microbiota in the giant and the red pandas.. Sci Rep 2015 May 18;5:10185.
- Lozupone CA, Stombaugh JI, Gordon JI, Jansson JK, Knight R. Diversity, stability and resilience of the human gut microbiota.. Nature 2012 Sep 13;489(7415):220-30.
- McFall-Ngai M, Hadfield MG, Bosch TC, Carey HV, Domazet-Lošo T, Douglas AE, Dubilier N, Eberl G, Fukami T, Gilbert SF, Hentschel U, King N, Kjelleberg S, Knoll AH, Kremer N, Mazmanian SK, Metcalf JL, Nealson K, Pierce NE, Rawls JF, Reid A, Ruby EG, Rumpho M, Sanders JG, Tautz D, Wernegreen JJ. Animals in a bacterial world, a new imperative for the life sciences.. Proc Natl Acad Sci U S A 2013 Feb 26;110(9):3229-36.
- McKenzie VJ, Song SJ, Delsuc F, Prest TL, Oliverio AM, Korpita TM, Alexiev A, Amato KR, Metcalf JL, Kowalewski M, Avenant NL, Link A, Di Fiore A, Seguin-Orlando A, Feh C, Orlando L, Mendelson JR, Sanders J, Knight R. The Effects of Captivity on the Mammalian Gut Microbiome.. Integr Comp Biol 2017 Oct 1;57(4):690-704.
- Metcalf JL, Song SJ, Morton JT, Weiss S, Seguin-Orlando A, Joly F, Feh C, Taberlet P, Coissac E, Amir A, Willerslev E, Knight R, McKenzie V, Orlando L. Evaluating the impact of domestication and captivity on the horse gut microbiome.. Sci Rep 2017 Nov 14;7(1):15497.
- Moeller AH, Peeters M, Ndjango JB, Li Y, Hahn BH, Ochman H. Sympatric chimpanzees and gorillas harbor convergent gut microbial communities.. Genome Res 2013 Oct;23(10):1715-20.
- Moeller AH, Sanders JG. Roles of the gut microbiota in the adaptive evolution of mammalian species.. Philos Trans R Soc Lond B Biol Sci 2020 Sep 28;375(1808):20190597.
- Muegge BD, Kuczynski J, Knights D, Clemente JC, González A, Fontana L, Henrissat B, Knight R, Gordon JI. Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans.. Science 2011 May 20;332(6032):970-4.
- Murtagh F, Legendre P. Ward's Hierarchical Agglomerative Clustering Method: Which Algorithms Implement Ward's Criterion?. J. Classif. 31, 274–295.
- Nakamura N, Amato KR, Garber P, Estrada A, Mackie RI, Gaskins HR. Analysis of the hydrogenotrophic microbiota of wild and captive black howler monkeys (Alouatta pigra) in palenque national park, Mexico.. Am J Primatol 2011 Sep;73(9):909-19.
- Nelson TM, Rogers TL, Carlini AR, Brown MV. Diet and phylogeny shape the gut microbiota of Antarctic seals: a comparison of wild and captive animals.. Environ Microbiol 2013 Apr;15(4):1132-45.
- Neumann AP, McCormick CA, Suen G. Fibrobacter communities in the gastrointestinal tracts of diverse hindgut-fermenting herbivores are distinct from those of the rumen.. Environ Microbiol 2017 Sep;19(9):3768-3783.
- O' Donnell MM, Harris HMB, Ross RP, O'Toole PW. Core fecal microbiota of domesticated herbivorous ruminant, hindgut fermenters, and monogastric animals.. Microbiologyopen 2017 Oct;6(5).
- Oksanen AJ, Blanchet FG, Kindt R, Minchin PR, Hara RBO, Simpson GL. Vegan: Community ecology package. R package version 2.3-3 .
- Pascoe EL, Hauffe HC, Marchesi JR, Perkins SE. Network analysis of gut microbiota literature: an overview of the research landscape in non-human animal studies.. ISME J 2017 Dec;11(12):2644-2651.
- Pickard JM, Zeng MY, Caruso R, Núñez G. Gut microbiota: Role in pathogen colonization, immune responses, and inflammatory disease.. Immunol Rev 2017 Sep;279(1):70-89.
- Poulsen AR, de Jonge N, Sugiharto S, Nielsen JL, Lauridsen C, Canibe N. The microbial community of the gut differs between piglets fed sow milk, milk replacer or bovine colostrum.. Br J Nutr 2017 Apr;117(7):964-978.
- Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools.. Nucleic Acids Res 2013 Jan;41(Database issue):D590-6.
- R Development Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria .
- Redford KH, Segre JA, Salafsky N, Martinez del Rio C, McAloose D. Conservation and the microbiome.. Conserv Biol 2012 Apr;26(2):195-7.
- Roggenbuck M, Bærholm Schnell I, Blom N, Bælum J, Bertelsen MF, Sicheritz-Pontén T, Sørensen SJ, Gilbert MT, Graves GR, Hansen LH. The microbiome of New World vultures.. Nat Commun 2014 Nov 25;5:5498.
- Schmidt JM, Henken S, Dowd SE, McLaughlin RW. Analysis of the Microbial Diversity in the Fecal Material of Giraffes.. Curr Microbiol 2018 Mar;75(3):323-327.
- Song C, Wang B, Tan J, Zhu L, Lou D, Cen X. Comparative analysis of the gut microbiota of black bears in China using high-throughput sequencing.. Mol Genet Genomics 2017 Apr;292(2):407-414.
- Song SJ, Lauber C, Costello EK, Lozupone CA, Humphrey G, Berg-Lyons D, Caporaso JG, Knights D, Clemente JC, Nakielny S, Gordon JI, Fierer N, Knight R. Cohabiting family members share microbiota with one another and with their dogs.. Elife 2013 Apr 16;2:e00458.
- Stevens CE, Hume ID. Contributions of microbes in vertebrate gastrointestinal tract to production and conservation of nutrients.. Physiol Rev 1998 Apr;78(2):393-427.
- Stothart MR, Palme R, Newman AEM. It's what's on the inside that counts: stress physiology and the bacterial microbiome of a wild urban mammal.. Proc Biol Sci 2019 Oct 23;286(1913):20192111.
- Stumpf RM, Gomez A, Amato KR, Yeoman CJ, Polk JD, Wilson BA. Microbiomes, metagenomics, and primate conservation: New strategies, tools, and applications. Biol. Conserv. 199, 56–66.
- Tang GS, Liang XX, Yang MY, Wang TT, Chen JP, Du WG, Li H, Sun BJ. Captivity Influences Gut Microbiota in Crocodile Lizards (Shinisaurus crocodilurus).. Front Microbiol 2020;11:550.
- Van Valkenburgh B. Deja vu: the evolution of feeding morphologies in the Carnivora.. Integr Comp Biol 2007 Jul;47(1):147-63.
- Warnes GR, Bolker B, Bonebakker L, Gentleman R, Liaw WHA, Lumley T. gplots: various R programming tools for plotting data. Available online .
- Wickham H. ggplot2: Elegant graphics for data analysis. New York: Springer-Verlag .
- Yatsunenko T, Rey FE, Manary MJ, Trehan I, Dominguez-Bello MG, Contreras M, Magris M, Hidalgo G, Baldassano RN, Anokhin AP, Heath AC, Warner B, Reeder J, Kuczynski J, Caporaso JG, Lozupone CA, Lauber C, Clemente JC, Knights D, Knight R, Gordon JI. Human gut microbiome viewed across age and geography.. Nature 2012 May 9;486(7402):222-7.
- Youngblut ND, Reischer GH, Walters W, Schuster N, Walzer C, Stalder G, Ley RE, Farnleitner AH. Host diet and evolutionary history explain different aspects of gut microbiome diversity among vertebrate clades.. Nat Commun 2019 May 16;10(1):2200.
- Yuan ML, Dean SH, Longo AV, Rothermel BB, Tuberville TD, Zamudio KR. Kinship, inbreeding and fine-scale spatial structure influence gut microbiota in a hindgut-fermenting tortoise.. Mol Ecol 2015 May;24(10):2521-36.
- Zhang C, Xu B, Lu T, Huang Z. Metagenomic Analysis of the Fecal Microbiomes of Wild Asian Elephants Reveals Microflora and Enzymes that Mainly Digest Hemicellulose.. J Microbiol Biotechnol 2019 Aug 28;29(8):1255-1265.
- Zhao Y, Li B, Bai D, Huang J, Shiraigo W, Yang L, Zhao Q, Ren X, Wu J, Bao W, Dugarjaviin M. Comparison of Fecal Microbiota of Mongolian and Thoroughbred Horses by High-throughput Sequencing of the V4 Region of the 16S rRNA Gene.. Asian-Australas J Anim Sci 2016 Sep;29(9):1345-52.
Citations
This article has been cited 45 times.- Mugetti D, Pastorino P, Beltramo C, Audino T, Arillo A, Esposito G, Prearo M, Bertoli M, Pizzul E, Bozzetta E, Acutis PL, Peletto S. The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding. Microorganisms 2023 Jun 22;11(7).
- Rojas CA, Holekamp KE, Viladomat Jasso M, Souza V, Eisen JA, Theis KR. Taxonomic, Genomic, and Functional Variation in the Gut Microbiomes of Wild Spotted Hyenas Across 2 Decades of Study. mSystems 2023 Feb 23;8(1):e0096522.
- Lebeuf-Taylor E, Cottenie K. Marginal link between sociality and gut microbiome in disparate mammalian hosts. FEMS Microbes 2026;7:xtag004.
- Mastrorilli E, Herd P, Rey FE, Goodman AL, Zimmermann M. Linking interpersonal differences in gut microbiota composition and drug biotransformation activity. bioRxiv 2026 Jan 21;.
- Vasconcelos DS, Harris DJ, Tarroso P, Simões C, Rato C, Santos X, Xavier R. Shaped by Fire: Unravelling the Impact of Fire on Lizard Gut Microbiome. Mol Ecol 2026 Jan;35(2):e70255.
- Shaker RAE, Hashem RA, Hassan M, Ibrahim AM, Ragab YM, Khattab RA. Investigation of probiotic, anticancer and antimicrobial activity of Enterococcus bacteria isolated from the gut microbiota of marine snails. Int Microbiol 2026 Feb;29(2):215-230.
- Liu L, Wang H, Minichino A, Xiao R, Du Y, Wang L, He D, Guo S, Mo X, Xiang Y, Wu J, McGuire P, Yue W, Lu L, Cipriani A, Xie P. Mapping the reciprocal interactions between antidepressants and the gut microbiome: novel targets for the personalisation and optimization of drug response. Mol Psychiatry 2025 Nov 19;.
- Ren Y, Tao M, Guo G, Chen K, Pu X, Hou Y, Yang X. Gut Microbiota Provide Co-Existing Strategies for Two Species of Symmetrically Distributed Rodents in Competition for Food. Ecol Evol 2025 Oct;15(10):e72290.
- Winarsih S, Hasanah U, Nuraida L, Andarwulan N, Kusuma WA. Microbial community of civet excreta fed by robusta cherry coffee in Indonesian civet coffee production. J Adv Vet Anim Res 2025 Jun;12(2):565-581.
- Najafpour B, Canario AVM, Power DM. Bacterial 16S Ribosomal Gene Fingerprints as a Tool to Diagnose and Mitigate Fish Larvae Gut Dysbiosis. Environ Microbiol Rep 2025 Oct;17(5):e70187.
- Grant ML, Petri RM, Baecklund TM, Wilson GA, Kyle CJ. Subspecific variation in gut microbiota of North American bison in a sympatric setting reveals differentially abundant taxa. Anim Microbiome 2025 Aug 21;7(1):89.
- Wei Z, Meng L, Du S, Wang F, Jiang A, Lu R, Liu K, Wang X, Xu Q, Mu X, Meng L, Shao C. Metabolic potentials of the gut microbes in Antarctic krill (Euphausia superba). mSystems 2025 Sep 23;10(9):e0037725.
- Zangerolamo L, Carvalho M, Barbosa HCL. The Critical Role of the Bile Acid Receptor TGR5 in Energy Homeostasis: Insights into Physiology and Therapeutic Potential. Int J Mol Sci 2025 Jul 8;26(14).
- Clemente-Suárez VJ, Redondo-Flórez L, Beltrán-Velasco AI, Yáñez-Sepúlveda R, Rubio-Zarapuz A, Martín-Rodríguez A, Navarro-Jimenez E, Tornero-Aguilera JF. Human Digestive Physiology and Evolutionary Diet: A Metabolomic Perspective on Carnivorous and Scavenger Adaptations. Metabolites 2025 Jul 4;15(7).
- Debray R, Tung J, Archie EA. Ecology and evolution of the social microbiome. Annu Rev Ecol Evol Syst 2024;55(1):89-114.
- Liu Y, Huang G, Wei F, Hu Y. Non-negligible role of gut morphology in shaping mammalian gut microbiomes. Sci China Life Sci 2025 Aug;68(8):2408-2419.
- Wang Y, Li X, Li Z, Han Q, Hu T, Zhang Q, Qu H, Zhang H, Qu Y, Shi D, Ma Q, Huang S. Comparative analysis of composition and spatial variations in the foregut microbiota of male and female donkeys. Front Microbiol 2025;16:1532265.
- Murtskhvaladze M, Ninua L, Budagashvili N, Tevdoradze E, Gurgenidze Z, Kotorashvili A, Kotaria N, Gavashelishvili A, Javakhishvili Z. Tracheal and cloacal bacterial diversity of red listed Eastern Imperial Eagle (Aquila heliaca). Front Microbiol 2025;16:1477032.
- Llarena AK, Haverkamp THA, Gulliksen WS, Herstad K, Holst-Jensen A, Skjerve E, Rannem L, Rodriguez-Campos S, Øines Ø. DNA extraction protocols for animal fecal material on blood spot cards. PLoS One 2025;20(5):e0313808.
- Sugden S, Serrouya R, Neufeld L, Schwantje H, St Clair CC, Stein L, Spribille T. Endangered Deep-Snow Mountain Caribou Have a Distinct Winter Diet and Gut Microbiome That May Be Altered by Maternal Penning. Mol Ecol 2025 Jun;34(11):e17783.
- Giacomini A, Lakim MB, Tuh FYY, Hitchings M, Consuegra S, Webster TU, Wells K. Host-Microbiome Associations of Native and Invasive Small Mammals Across a Tropical Urban-Rural Ecotone. Mol Ecol 2025 Jun;34(11):e17782.
- Cao J, Wang S, Ding R, Liu Y, Yuan B. Comparative analyses of the gut microbiome of two sympatric rodent species, Myodes rufocanus and Apodemus peninsulae, in northeast China based on metagenome sequencing. PeerJ 2025;13:e19260.
- Debray R, Dickson CC, Webb SE, Archie EA, Tung J. Shared environments complicate the use of strain-resolved metagenomics to infer microbiome transmission. Microbiome 2025 Feb 28;13(1):59.
- Davison S, Mascellani Bergo A, Ward Z, Sackett A, Strykova A, Jaimes JD, Travis D, Clayton JB, Murphy HW, Danforth MD, Smith BK, Blekhman R, Fuh T, Niatou Singa FS, Havlik J, Petrzelkova K, Gomez A. Cardiometabolic disease risk in gorillas is associated with altered gut microbial metabolism. NPJ Biofilms Microbiomes 2025 Feb 21;11(1):33.
- Apostolou K, Radea C, Meziti A, Kormas KA. Bacterial Diversity Associated with Terrestrial and Aquatic Snails. Microorganisms 2024 Dec 24;13(1).
- Kanika NH, Liaqat N, Chen H, Ke J, Lu G, Wang J, Wang C. Fish gut microbiome and its application in aquaculture and biological conservation. Front Microbiol 2024;15:1521048.
- Klinhom S, Kunasol C, Sriwichaiin S, Kerdphoo S, Chattipakorn N, Chattipakorn SC, Thitaram C. Characteristics of gut microbiota profiles in Asian elephants (Elephas maximus) with gastrointestinal disorders. Sci Rep 2025 Jan 8;15(1):1327.
- Kou X, Liu Y, Xiang F, Zhang X, Khan MZ, Wu B, Wang H, Gong Y, Wang C, Ma Q, Li Y. Insights into the Donkey Hindgut Microbiome Using Metagenome-Assembled Genomes. Animals (Basel) 2024 Dec 16;14(24).
- Singh BK, Thakur K, Kumari H, Mahajan D, Sharma D, Sharma AK, Kumar S, Singh B, Pankaj PP, Kumar R. A review on comparative analysis of marine and freshwater fish gut microbiomes: insights into environmental impact on gut microbiota. FEMS Microbiol Ecol 2025 Jan 7;101(1).
- Yu B, Li H, Chen Q, Yang C, Guo Y, Sun B. Dynamic Changes in Intestinal Microorganisms and Hematological Indices in Giraffes of Different Ages, and the Effect of Diarrhea on Intestinal Microbiota. Animals (Basel) 2024 Nov 24;14(23).
- Arellano-Hernández HD, Montes-Carreto LM, Guerrero JA, Martinez-Romero E. The fecal microbiota of the mouse-eared bat (Myotis velifer) with new records of microbial taxa for bats. PLoS One 2024;19(12):e0314847.
- Degregori S, Wang X, Kommala A, Schulhof N, Moradi S, MacDonald A, Eblen K, Jukovich S, Smith E, Kelleher E, Suzuki K, Hall Z, Knight R, Amato KR. Comparative gut microbiome research through the lens of ecology: theoretical considerations and best practices. Biol Rev Camb Philos Soc 2025 Apr;100(2):748-763.
- Fang M, Yu F, Shu L, Wei H, Mu X, Wang X, Xu M, Gu D. Structural and functional differences of gut microbiota in Pomacea canaliculata from different geographical locations and habitats. Ecol Evol 2024 Oct;14(10):e70283.
- Schmartz GP, Rehner J, Schuff MJ, Molano LG, Becker SL, Krawczyk M, Tagirdzhanov A, Gurevich A, Francke R, Müller R, Keller V, Keller A. Exploring microbial diversity and biosynthetic potential in zoo and wildlife animal microbiomes. Nat Commun 2024 Sep 26;15(1):8263.
- Guan J, Ramírez GA, Eng C, Oakley B. Microbiome resilience of three-toed box turtles (Terrapene carolina triunguis) in response to rising temperatures. Front Vet Sci 2024;11:1276436.
- Lindner BG, Choudhury RA, Pinamang P, Bingham L, D'Amico I, Hatt JK, Konstantinidis KT, Graham KE. Advancing Source Tracking: Systematic Review and Source-Specific Genome Database Curation of Fecally Shed Prokaryotes. Environ Sci Technol Lett 2024 Sep 10;11(9):931-939.
- Manithody C, Denton C, Mehta S, Carter J, Kurashima K, Bagwe A, Swiderska-Syn M, Guzman M, Besmer S, Jain S, McHale M, Qureshi K, Nazzal M, Caliskan Y, Long J, Lin CJ, Hutchinson C, Ericsson AC, Jain AK. Intraduodenal fecal microbiota transplantation ameliorates gut atrophy and cholestasis in a novel parenteral nutrition piglet model. Am J Physiol Gastrointest Liver Physiol 2024 Nov 1;327(5):G640-G654.
- Debray R, Dickson CC, Webb SE, Archie EA, Tung J. Shared environments complicate the use of strain-resolved metagenomics to infer microbiome transmission. bioRxiv 2024 Nov 15;.
- Toyber I, Kumar R, Jami E. Rumen protozoa are a hub for diverse hydrogenotrophic functions. Environ Microbiol Rep 2024 Aug;16(4):e13298.
- Mafra D, Borges NA, Baptista BG, Martins LF, Borland G, Shiels PG, Stenvinkel P. What Can the Gut Microbiota of Animals Teach Us about the Relationship between Nutrition and Burden of Lifestyle Diseases?. Nutrients 2024 Jun 6;16(11).
- Amin A, Mekadim C, Modrackova N, Bolechova P, Mrazek J, Neuzil-Bunesova V. Microbiome composition and presence of cultivable commensal groups of Southern Tamanduas (Tamandua tetradactyla) varies with captive conditions. Anim Microbiome 2024 May 2;6(1):21.
- Gani M, Mohd-Ridwan AR, Sitam FT, Kamarudin Z, Selamat SS, Awang NMZ, Karuppannan KV, Md-Zain BM. Habitat shapes the gut microbiome diversity of Malayan tigers (Panthera tigris jacksoni) as revealed through metabarcoding 16S rRNA profiling. World J Microbiol Biotechnol 2024 Feb 28;40(4):111.
- Kern K, Delaroque N, Boysen A, Puder M, Wendt R, Kölsch A, Ehrentreich-Förster E, Stærk K, Andersen TE, Andersen K, Lund L, Szardenings M. Glycosylation of bacterial antigens changes epitope patterns. Front Immunol 2023;14:1258136.
- Scarafile D, Luise D, Motta V, Spiezio C, Modesto M, Porcu MM, Yitzhak Y, Correa F, Sandri C, Trevisi P, Mattarelli P. Faecal Microbiota Characterisation of Potamochoerus porcus Living in a Controlled Environment. Microorganisms 2023 Jun 9;11(6).
- Levine BH, Hoffman JM. Gut Microbiome Transplants and Their Health Impacts across Species. Microorganisms 2023 Jun 3;11(6).
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