Sympatric chimpanzees and gorillas harbor convergent gut microbial communities

Genome Research

Volumn 23, Issue 10, 2013, Pages 1715-1720

  Moeller, Andrew H ^a   Peeters, Martine ^b   Ndjango, Jean Basco ^c   Li, Yingying ^d   Hahn, Beatrice H ^d   Ochman, Howard ^a  

^a YALE UNIVERSITY   (United States)

^b INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

^c UNIVERSITY OF KISANGANI   (Congo)

^d UNIVERSITY OF PENNSYLVANIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTINOBACTERIA; AFRICA; ALLOPATRY; ARTICLE; BACTEROIDETES; CHIMPANZEE; CONTROLLED STUDY; ENVIRONMENTAL FACTOR; FIRMICUTES; GORILLA; HERITABILITY; HOST; INTESTINE FLORA; MICROBIAL COMMUNITY; MICROBIAL POPULATION DYNAMICS; MOLECULAR EVOLUTION; NONHUMAN; PRIORITY JOURNAL; PROTEOBACTERIA; SYMPATRY;

ACTINOBACTERIA; AFRICA, CENTRAL; ANIMALS; BACTERIA; BACTEROIDETES; ENVIRONMENT; EVOLUTION, MOLECULAR; FECES; GASTROINTESTINAL TRACT; GENETIC SPECIATION; GENOME, MITOCHONDRIAL; GORILLA GORILLA; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; METAGENOME; MICROBIOTA; PAN PANISCUS; PAN TROGLODYTES; PHYLOGENY; PROTEOBACTERIA; RNA, RIBOSOMAL, 16S; SYMPATRY;

EID: 84885060317     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.154773.113     Document Type: Article

References (34)

1. Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto JM, et al. 2011. Enterotypes of the human gut microbiome. Nature 473: 174-180.
2. Campbell JH, FosterCM, Vishnivetskaya T, Campbell AG, Yang ZK, Wymore A, Palumbo AV, Chesler EJ, Podar M. 2012. Host genetic and environmental effects on mouse intestinal microbiota. ISME J 11: 2033-2044.
3. Caporaso JG, Kuczynski J, Strombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Pena AG, Goodrich JK, Gordon JI. 2010. QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7: 335-336.
4. Claesson MJ, Jeffrey IB, Conde S, Power SE, O'Conner EM, Cusack S, Harris HM, Coakley M, Lakshminarayanan B, O'Sullivan O, et al. 2012. Gut microbiota composition correlates with diet and health in the elderly. Nature 488: 178-184.
5. De Filippo C, Cavalieri D, Paola MD, Ramazzotti M, Poullet JB, Massart S, Collini S, Pieraccini G, Lionetti P. 2010. Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa. Proc Natl Acad Sci 107: 14691-14696.
6. Degnan PH, Pusey AE, Wilson ML, Lonsdorf EV, Goodall J, Rudicell RS, Wroblewski EE, Hahn BH, Ochman H. 2012. Factors responsible for the diversification of the gut microbial communities within chimpanzees from Gombe National Park. Proc Natl Acad Sci 109: 13034-13039.
7. FoissnerW. 2006. Biogeography and dispersal ofmicro-organisms: A review emphasizing protists. Acta Protozool 2: 111-136.
8. Glazko GV, Nei M. 2003. Estimation of divergence times for major lineages of primate species. Mol Biol Evol 3: 424-434.
9. Goodman AL, Kallstrom G, Faith JJ, Reyes A, Moore A, Dantas G, Gordon JI. 2011.Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. Proc Natl Acad Sci 108: 6252-6257.
10. Green J, Bohannan BJM. 2006. Spatial scaling of microbial biodiversity. Trends Ecol Evol 9: 501-507.
11. Hanson CA, Fuhrman JA, Horner-Devine MC, Martiny JBH. 2012. Beyond biogeographic patterns: Processes shaping the microbial landscape. Nat Rev Microbiol 10: 497-506.
12. La Serre CB, Ellis CL, Lee J, Hartman AL, Rutledge JC, Raybould HE. 2010. Propensity to high-fat diet-induced obesity in rats is associated with changes in the gut microbiota and gut inflammation. Horm Signal 2: 440-448.
13. Langergraber KE, Prufer K, Rowney C, Boesch C, Crockford C, Fawcett K, Inoue E, Inoue-Muruyama M, Mitani JC, Muller MN. 2012.Generation times in wild chimpanzees and gorillas suggest earlier divergence times in great ape and human evolution. Proc Natl Acad Sci 109: 15716-15721.
14. Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher SJ, Schlegel ML, Tucker TA, Schrenzel MD, Knight R, et al. 2008a. Evolution of mammals and their gut microbes. Science 320: 1647-1651.
15. Ley RE, Lozupone CA, Hamady M, Knight R, Gordon JI. 2008b. Worlds within worlds: Evolution of the vertebrate gut microbiota. Nat Rev Microbiol 6: 776-788.
16. Lindstrom ES, Langenheder S. 2011. Local and regional factors influencing bacterial community assembly. Environ. Microbiol. Reports 1: 1-9.
17. Martiny JBH, Bohannan BJM, Brown JH, Colwell RK, Fuhrman JA, Green JL, Horner-Devine MC, Kane M, Krumins JA, Kuske CR. 2006. Microbial biogeography: Putting microorganisms on the map. Nat Rev Microbiol 4: 102-112.
18. Moeller AH, Degnan PH, Pusey A, Wilson M, Hahn BH, Ochman H. 2012. Chimpanzees and humans harbour compositionally similar gut enterotypes. Nature Comm 3: 1179-1184.
19. Muegge BD, Kuczynski J, Knights D, Clemente JC, González A, Fontana L, Henrissat B, Knight R, Gordon JI. 2011. Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans. Science 332: 970-974.
20. Ochman H, Worobey M, Kuo CH, Ndjango JN, Peeters M, Hahn BH, Hugenholtz P. 2010. Evolutionary relationships of wild hominids recapitulated by gut microbial communities. PLoS Biol 11: e1000546.
21. Qin J, Li Y, Cai Z, Li S, Zhu J, Zhang F, Liang S, Zhang W, Guan Y, Shen D. 2012.A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature 490: 55-60.
22. Ramette A, Tiedje JM. 2007. Multiscale responses of microbial life to spatial distance and environmental heterogeneity in a patchy ecosystem. Proc Natl Acad Sci 104: 2761-2766.
23. Ravussin Y, Koren O, Spor A, LeDuc C, Gutman R, Stombaugh J, Knight R, Ley RE, Leibel RL. 2012. Responses of gut microbiota to diet composition and weight loss in lean and obese mice. Integrative Physiol. 4: 738-747.
24. Serion M, Luche E, Gres S, Baylac A, Berge M, Cenac C, Waget A, Klopp P, Iacovoni J, Klopp C, et al. 2012.Metabolic adaptation to a high-fat diet is associated with a change in the gut microbiota. Gut 61: 543-553.
25. Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Stanford CB. 2006. The behavioral ecology of sympatric African apes: Implications for understanding fossil hominoid ecology. Primates 1: 91-101.
26. Takehisa J, Kraus MH, Ayouba A, Bailes E, Heuverswyn FV, Decker JM, Li Y, Rudicell RS, Learn GH, Neel C, et al. 2009. Origin and biology of simian immunodecifiency virus in wild-living western gorillas. J Virol 4: 1635.
27. Turnbaugh PJ, Backhead F, Fulton L, Gordon JI. 2008. Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome. Cell Host Microbe 4: 213-223.
28. Turnbaugh PJ, Riduara VK, Faith JJ, Rey FE, Knight R, Gordon JI. 2009. The effect of diet on the human gut microbiome: Ametagenomic analysis in humanized gnotobiotic mice. Sci Transl Med 6: 6-14.
29. Tutin CEG, Fernandez M. 1993. Composition of the diet of chimpanzees and comparisons with that of sympatric lowland gorillas in the lope reserve, Gabon. Am J Primatol 3: 195-211.
30. Vaishampayan PA, Kuehl JV, Froula JL, Morgan JL, Ochman H, FrancinoMP. 2010.Comparative metagenomics and population dynamics of the gut microbiota in mother and infant. Genome Biol Evol 2: 53-66.
31. Williamson EA, Tutin CE, Rogers ME, Fernandez M. 1990. Composition of the diet of lowland gorillas at Lope in Gabon. Am J Primatol 4: 265-277.
32. Wu GD, Chen J, Hoffmann C, Bittinger K, Chen YY, Keilbaugh SA, Bewtra M, Knights D, Walters WA, Knight R, et al. 2011. Linking long-term dietary patterns with gut microbial enterotypes. Science 334: 105-108.
33. Yamagiwa J, Basabose AK. 2006.Diet and seasonal changes in sympatric gorillas and chimpanzees at Kahuzi-Biega National Park. Primates 1: 74-90.
34. Yatsunenko T, Rey FE, Manary MJ, Trehan I, Dominguez-Bello MG, Contreras M, Magris M, Hidalgo G, Baldassano RN, Anokhin AP, et al. 2012.Human gut microbiome viewed across age and geography. Nature 486: 222-227.