Comparative analysis of gut microbiota of native Tibetan and Han populations living at different altitudes

PLoS ONE

Volumn 11, Issue 5, 2016, Pages

  Li, Kang ^a,b   Dan, Zeng ^b   Gesang, Luobu ^b   Wang, Hong ^a   Zhou, Yongjian ^a   Du, Yanlei ^a   Ren, Yi ^c   Shi, Yixiang ^c   Nie, Yuqiang ^a  

^a GUANGZHOU MEDICAL UNIVERSITY   (China)

^b People's Hospital of Tibet Autonomous Region   (China)

^c Shanghai Majorbio Bio pharm Technology Co Ltd   (China)

Author keywords

[No Author keywords available]

Indexed keywords

RNA 16S;

ADULT; ALTITUDE; ARTICLE; BACTERIUM; BACTEROIDES; BUTYRATE PRODUCING BACTERIA; COMPARATIVE STUDY; CONTROLLED STUDY; CULTURAL FACTOR; DNA ISOLATION; ETHNIC DIFFERENCE; FECES ANALYSIS; FECES MICROFLORA; GENE AMPLIFICATION; HAN CHINESE; HEREDITY; HUMAN; MICROBIAL DIVERSITY; MICROFLORA; NONHUMAN; NORMAL HUMAN; POLYMERASE CHAIN REACTION; POPULATION ABUNDANCE; PREVOTELLA; RURAL AREA; SEQUENCE ANALYSIS; SPECIES COMPOSITION; TAXONOMIC IDENTIFICATION; TIBETAN (PEOPLE); ASIAN CONTINENTAL ANCESTRY GROUP; BIODIVERSITY; DIET; ETHNIC GROUP; ETHNOLOGY; FECES; FEMALE; INTESTINE FLORA; MALE; MICROBIOLOGY; MIDDLE AGED; TIBET;

ADULT; ALTITUDE; ASIAN CONTINENTAL ANCESTRY GROUP; BIODIVERSITY; DIET; ETHNIC GROUPS; FECES; FEMALE; GASTROINTESTINAL MICROBIOME; HUMANS; MALE; MIDDLE AGED; TIBET;

EID: 84973130804     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0155863     Document Type: Article

References (41)

1. Ottman N, Smidt H, de Vos WM, Belzer C. The function of our microbiota: who is out there and what do they do? Frontiers in cellular and infection microbiology. 2012; 2:104. doi: 10.3389/fcimb.2012.00104 PMID: 22919693; PubMed Central PMCID: PMC3417542.
2. Nicholson JK, Holmes E, Kinross J, Burcelin R, Gibson G, Jia W, et al. Host-gut microbiota metabolic interactions. Science. 2012; 336(6086):1262-7. doi: 10.1126/science.1223813 PMID: 22674330.
3. Gill SR, Pop M, Deboy RT, Eckburg PB, Turnbaugh PJ, Samuel BS, et al. Metagenomic analysis of the human distal gut microbiome. Science. 2006; 312(5778):1355-9. doi: 10.1126/science.1124234 PMID: 16741115; PubMed Central PMCID: PMC3027896.
4. Gosalbes MJ, Durban A, Pignatelli M, Abellan JJ, Jimenez-Hernandez N, Perez-Cobas AE, et al. Metatranscriptomic approach to analyze the functional human gut microbiota. PloS one. 2011; 6(3):e17447. doi: 10.1371/journal.pone.0017447 PMID: 21408168; PubMed Central PMCID: PMC3050895.
5. Tremaroli V, Backhed F. Functional interactions between the gut microbiota and host metabolism. Nature. 2012; 489(7415):242-9. doi: 10.1038/nature11552 PMID: 22972297.
6. Lathrop SK, Bloom SM, Rao SM, Nutsch K, Lio CW, Santacruz N, et al. Peripheral education of the immune system by colonic commensal microbiota. Nature. 2011; 478(7368):250-4. doi: 10.1038/nature10434 PMID: 21937990; PubMed Central PMCID: PMC3192908.
7. Yatsunenko T, Rey FE, Manary MJ, Trehan I, Dominguez-Bello MG, Contreras M, et al. Human gut microbiome viewed across age and geography. Nature. 2012; 486(7402):222-7. doi: 10.1038/nature11053 PMID: 22699611; PubMed Central PMCID: PMC3376388.
8. Claesson MJ, Cusack S, O'Sullivan O, Greene-Diniz R, de Weerd H, Flannery E, et al. Composition, variability, and temporal stability of the intestinal microbiota of the elderly. Proceedings of the National Academy of Sciences of the United States of America. 2011; 108 Suppl 1:4586-91. doi: 10.1073/pnas.1000097107 PMID: 20571116; PubMed Central PMCID: PMC3063589.
9. Koren O, Goodrich JK, Cullender TC, Spor A, Laitinen K, Backhed HK, et al. Host remodeling of the gut microbiome and metabolic changes during pregnancy. Cell. 2012; 150(3):470-80. doi: 10.1016/j.cell.2012.07.008 PMID: 22863002; PubMed Central PMCID: PMC3505857.
10. Claesson MJ, Jeffery IB, Conde S, Power SE, O'Connor EM, Cusack S, et al. Gut microbiota composition correlates with diet and health in the elderly. Nature. 2012; 488(7410):178-84. doi: 10.1038/nature11319 PMID: 22797518.
11. Henao-Mejia J, Elinav E, Jin C, Hao L, Mehal WZ, Strowig T, et al. Inflammasome-mediated dysbiosis regulates progression of NAFLD and obesity. Nature. 2012; 482(7384):179-85. doi: 10.1038/nature10809 PMID: 22297845; PubMed Central PMCID: PMC3276682.
12. Devkota S, Wang Y, Musch MW, Leone V, Fehlner-Peach H, Nadimpalli A, et al. Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10-/- mice. Nature. 2012; 487 (7405):104-8. doi: 10.1038/nature11225 PMID: 22722865; PubMed Central PMCID: PMC3393783.
13. De Filippo C, Cavalieri D, Di Paola M, Ramazzotti M, Poullet JB, Massart S, et al. Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa. Proceedings of the National Academy of Sciences of the United States of America. 2010; 107(33):14691-6. doi: 10.1073/pnas.1005963107 PMID: 20679230; PubMed Central PMCID: PMC2930426.
14. Hehemann JH, Correc G, Barbeyron T, Helbert W, Czjzek M, Michel G. Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota. Nature. 2010; 464(7290):908-12. doi: 10.1038/nature08937 PMID: 20376150.
15. Leon-Velarde F, Maggiorini M, Reeves JT, Aldashev A, Asmus I, Bernardi L, et al. Consensus statement on chronic and subacute high altitude diseases. High altitude medicine & biology. 2005; 6 (2):147-57. doi: 10.1089/ham.2005.6.147 PMID: 16060849.
16. Dan Z, Li K, Wang ZH, Xiangba ZX, Gang Z, Chilie WM, et al. Epidemiological features of gastric cancer in a community population in Lhasa. World Chinese Journal of Digestology. 2013.
17. Liu Z. Inheritance and Vicissitude of the Tibetan Diet - A Case of A Tibetan Rural Community. China Tibetology 2012; No.1:92-110.
18. Shen J, Obin MS, Zhao L. The gut microbiota, obesity and insulin resistance. Molecular Aspects of Medicine. 2013; 34(1):39-58. doi: 10.1016/j.mam.2012.11.001 PMID: 23159341
19. Lilach A, Tamar R, Hagai L, Shikha B, Iris B, Camila A, et al. Gut microbiota, probiotics, and vitamin D: Interrelated exposures influencing allergy, asthma, and obesity? Clinical Cancer Research An Official Journal of the American Association for Cancer Research. 2011; 127(5):: 1087-94.
20. Toivanen P. Normal intestinal microbiota in the aetiopathogenesis of rheumatoid arthritis. Annals of the rheumatic diseases. 2003; 62(9):807-11. PMID: 12922950; PubMed Central PMCID: PMC1754679.
21. Lai-Yu K, Jiachao Z, Zhuang G, Qimu G, Yi Z, Jianmin Q, et al. Characterization of Fecal Microbiota across Seven Chinese Ethnic Groups by Quantitative Polymerase Chain Reaction. PloS one. 2014; 9 (4):e93631-e. doi: 10.1371/journal.pone.0093631 PMID: 24699404
22. Zhang J, Guo Z, Xue Z, Sun Z, Zhang M, Wang L, et al. A phylo-functional core of gut microbiota in healthy young Chinese cohorts across lifestyles, geography and ethnicities. The ISME journal. 2015; 9 (9):1979-90. doi: 10.1038/ismej.2015.11 PMID: 25647347; PubMed Central PMCID: PMC4542028.
23. Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics. 2011; 27(16):2194-200. doi: 10.1093/bioinformatics/btr381 PMID: 21700674; PubMed Central PMCID: PMC3150044.
24. Qiong W, Garrity GM, Tiedje JM, Cole JR. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Applied & Environmental Microbiology. 2007; 73(16):5261-7.
25. Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, et al. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic acids research. 2013; 41 (Database issue):D590-6. doi: 10.1093/nar/gks1219 PMID: 23193283; PubMed Central PMCID: PMC3531112.
26. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, et al. Introducing mothur: opensource, platform-independent, community-supported software for describing and comparing microbial communities. Applied and environmental microbiology. 2009; 75(23):7537-41. doi: 10.1128/AEM.01541-09 PMID: 19801464; PubMed Central PMCID: PMC2786419.
27. Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett WS, et al. Metagenomic biomarker discovery and explanation. Genome biology. 2011; 12(6):R60. doi: 10.1186/gb-2011-12-6-r60 PMID: 21702898; PubMed Central PMCID: PMC3218848.
28. Tyakht AV, Kostryukova ES, Popenko AS, Belenikin MS, Pavlenko AV, Larin AK, et al. Human gut microbiota community structures in urban and rural populations in Russia. Nature communications. 2013; 4:2469. doi: 10.1038/ncomms3469 PMID: 24036685; PubMed Central PMCID: PMC3778515.
29. Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR, et al. Enterotypes of the human gut microbiome. Nature. 2011; 473(7346):174-80. doi: 10.1038/nature09944 PMID: 21508958; PubMed Central PMCID: PMC3728647.
30. Nakayama J, Watanabe K, Jiang J, Matsuda K, Chao SH, Haryono P, et al. Diversity in gut bacterial community of school-age children in Asia. Scientific reports. 2015; 5:8397. doi: 10.1038/srep08397 PMID: 25703686; PubMed Central PMCID: PMC4336934.
31. Moeller AH, Li Y, Mpoudi Ngole E, Ahuka-Mundeke S, Lonsdorf EV, Pusey AE, et al. Rapid changes in the gut microbiome during human evolution. Proceedings of the National Academy of Sciences of the United States of America. 2014; 111(46):16431-5. doi: 10.1073/pnas.1419136111 PMID: 25368157; PubMed Central PMCID: PMC4246287.
32. Wu GD, Chen J, Hoffmann C, Bittinger K, Chen YY, Keilbaugh SA, et al. Linking long-term dietary patterns with gut microbial enterotypes. Science. 2011; 334(6052):105-8. doi: 10.1126/science.1208344 PMID: 21885731; PubMed Central PMCID: PMC3368382.
33. Spaan M, Groothuismink ZM, Koning L, Roomer R, Janssen HL, De Knegt RJ, et al. Erythropoietin administration suppresses human monocyte function in vitro and during therapy-induced anemia in HCV patients. Antiviral research. 2013; 98(3):469-75. Epub 2013/04/16. doi: 10.1016/j.antiviral.2013.04.003 PMID: 23583759.
34. Konstantinov SR, van der Woude CJ, Peppelenbosch MP. Do pregnancy-related changes in the microbiome stimulate innate immunity? Trends in molecular medicine. 2013; 19(8):454-9. Epub 2013/07/13. doi: 10.1016/j.molmed.2013.06.002 PMID: 23845284.
35. Ma X, Hua J, Li Z. Probiotics improve high fat diet-induced hepatic steatosis and insulin resistance by increasing hepatic NKT cells. Journal of hepatology. 2008; 49(5):821-30. doi: 10.1016/j.jhep.2008.05.025 PMID: 18674841; PubMed Central PMCID: PMC2588670.
36. Arthur JC, Perez-Chanona E, Muhlbauer M, Tomkovich S, Uronis JM, Fan TJ, et al. Intestinal inflammation targets cancer-inducing activity of the microbiota. Science. 2012; 338(6103):120-3. doi: 10.1126/science.1224820 PMID: 22903521; PubMed Central PMCID: PMC3645302.
37. Park Y, Hunter DJ, Spiegelman D, Bergkvist L, Berrino F, van den Brandt PA, et al. Dietary fiber intake and risk of colorectal cancer: a pooled analysis of prospective cohort studies. Jama. 2005; 294(22):2849-57. doi: 10.1001/jama.294.22.2849 PMID: 16352792.
38. Hamer HM, Jonkers D, Venema K, Vanhoutvin S, Troost FJ, R-J B. Review article: the role of butyrate on colonic function. Alimentary pharmacology & therapeutics. 2008; 27(2):104-19.
39. Zackular JP, Rogers MA, Ruffin MTt, Schloss PD. The human gut microbiome as a screening tool for colorectal cancer. Cancer prevention research. 2014; 7(11):1112-21. doi: 10.1158/1940-6207.CAPR-14-0129 PMID: 25104642; PubMed Central PMCID: PMC4221363.
40. Chen W, Liu F, Ling Z, Tong X, Xiang C. Human intestinal lumen and mucosa-associated microbiota in patients with colorectal cancer. PloS one. 2012; 7(6):e39743. doi: 10.1371/journal.pone.0039743 PMID: 22761885; PubMed Central PMCID: PMC3386193.
41. Vangylswyk NO, Hippe H, Rainey FA. Pseudobutyrivibrio ruminis gen. nov., sp. nov., a Butyrate-Producing Bacterium from the Rumen That Closely Resembles Butyrivibrio jibrisolvens in Phenotype. International journal of systematic bacteriology. 1996; 46(2):559-63.