561 28529 References Alberti KG.Zin 2002. d its com n of Ama dherence and trans mensal bacteri K.Oshima K.Nakanishi Y ing wane y.Koh Cy Poitou C.Basdevant A 2008 dies in a southern Indian village.Am ICin: 643 IM D WC.Su HC.Cheng 2003 p.f200 CANOCO Refe w for Khir Mau te watery 5)Mic 291:160 omput V Yo m MA M Knauf C neiee9g85ie sity and insulin e.Diabetes 56 Cani PD,N nck AM,Fava F.Knauf C,Burcelin RG ng M.Rantalainen M.Wang S.Zhou H ove high-fa ciated Liu.Richards RM.(2000)ici and other beta 57:1470148 ane Richter I hrough a nism 110 Ya nt of gu Luo CE.Yuan M.Chen MS,Liu SM,Zhu L Huang BY et a community sequencing The ISME JournaProject 81273720 of the National Natural Science Foundation of China (NSFC) and Key program 31330005 of the NSFC. References Alberti KG, Zimmet PZ. (1998). Definition, diagnosis and classification of diabetes mellitus and its complica￾tions. Part 1: diagnosis and classification of diabetes mellitus provisional report of a WHO consultation. Diabet Med 15: 539–553. Amar J, Chabo C, Waget A, Klopp P, Vachoux C, Bermu´dez-Humara´n LG et al. (2011). Intestinal muco￾sal adherence and translocation of commensal bacteria at the early onset of type 2 diabetes: molecular mechanisms and probiotic treatment. EMBO Mol Med 3: 559–572. Backhed F, Ding H, Wang T, Hooper LV, Koh GY, Nagy A et al. (2004). The gut microbiota as an environmental factor that regulates fat storage. Proc Natl Acad Sci USA 101: 15718–15723. Balamurugan R, Janardhan HP, George S, Chittaranjan SP, Ramakrishna BS. (2008). Bacterial succession in the colon during childhood and adolescence: molecular studies in a southern Indian village. Am J Clin Nutr 88: 1643–1647. Bangsgaard Bendtsen KM, Krych L, Sorensen DB, Pang W, Nielsen DS, Josefsen K et al. (2012). Gut microbiota composition is correlated to grid floor induced stress and behavior in the BALB/c mouse. PLoS One 7: e46231. Braak CT, Smilauer P. (2002). CANOCO Reference Manual and CanoDraw for Windows User’s Guide: Software for Canonical Community Ordination (version 4.5). Microcomputer Power: Ithaca, New York. Butler AE, Janson J, Bonner-Weir S, Ritzel R, Rizza RA, Butler PC. (2003). Beta-cell deficit and increased beta-cell apoptosis in humans with type 2 diabetes. Diabetes 52: 102–110. Cani PD, Amar J, Iglesias MA, Poggi M, Knauf C, Bastelica D et al. (2007a). Metabolic endotoxemia initiates obesity and insulin resistance. Diabetes 56: 1761–1772. Cani PD, Neyrinck AM, Fava F, Knauf C, Burcelin RG, Tuohy KM et al. (2007b). Selective increases of bifidobacteria in gut microflora improve high-fat￾diet-induced diabetes in mice through a mechanism associated with endotoxaemia. Diabetologia 50: 2374–2383. Cani PD, Bibiloni R, Knauf C, Waget A, Neyrinck AM, Delzenne NM et al. (2008). Changes in gut microbiota control metabolic endotoxemia-induced inflammation in high-fat diet-induced obesity and diabetes in mice. Diabetes 57: 1470–1481. Cani PD, Possemiers S, Van de Wiele T, Guiot Y, Everard A, Rottier O et al. (2009). Changes in gut microbiota control inflammation in obese mice through a mechanism involving GLP-2-driven improvement of gut permeability. Gut 58: 1091–1103. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK et al. (2010). QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7: 335–336. Collins SM, Kassam Z, Bercik P. (2013). The adoptive transfer of behavioral phenotype via the intestinal microbiota: experimental evidence and clinical impli￾cations. Curr Opin Microbiol 16: 240–245. Davis LM, Martinez I, Walter J, Hutkins R. (2010). A dose dependent impact of prebiotic galactooligo￾saccharides on the intestinal microbiota of healthy adults. Int J Food Microbiol 144: 285–292. Duncan SH, Hold GL, Harmsen HJ, Stewart CS, Flint HJ. (2002). Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov. Int J Syst Evol Microbiol 52: 2141–2146. Fei N, Zhao L. (2013). An opportunistic pathogen isolated from the gut of an obese human causes obesity in germfree mice. ISME J 7: 880–884. Fukuda S, Toh H, Hase K, Oshima K, Nakanishi Y, Yoshimura K et al. (2011). Bifidobacteria can protect from enteropathogenic infection through production of acetate. Nature 469: 543–547. Furet JP, Kong LC, Tap J, Poitou C, Basdevant A, Bouillot JL et al. (2010). Differential adaptation of human gut microbiota to bariatric surgery-induced weight loss: links with metabolic and low-grade inflammation markers. Diabetes 59: 3049–3057. Gossling J, Moore WEC. (1975). Gemmiger formicilis, n. gen., n. sp., an anaerobic budding bacterium from intestines. Int J Syst Bacteriol 25: 202–207. Hotamisligil GS. (2006). Inflammation and metabolic disorders. Nature 444: 860–867. Hsu FL, Liu IM, Kuo DH, Chen WC, Su HC, Cheng JT. (2003). Antihyperglycemic effect of puerarin in streptozotocin-induced diabetic rats. J Nat Prod 66: 788–792. Khin Maung U, Myo K, Nyunt Nyunt W, Aye K, Tin U. (1985). Clinical trial of berberine in acute watery diarrhoea. BMJ (Clin Res Ed) 291: 1601–1605. Larsen N, Vogensen FK, van den Berg FWJ, Nielsen DS, Andreasen AS, Pedersen BK et al. (2010). Gut microbiota in human adults with type 2 diabetes differs from non-diabetic adults. PLoS One 5: e9085. Le Chatelier E, Nielsen T, Qin J, Prifti E, Hildebrand F, Falony G et al. (2013). Richness of human gut microbiome correlates with metabolic markers. Nature 500: 541–546. Li M, Wang B, Zhang M, Rantalainen M, Wang S, Zhou H et al. (2008). Symbiotic gut microbes modulate human metabolic phenotypes. Proc Natl Acad Sci USA 105: 2117–2122. Liu IX, Durham DG, Richards RM. (2000). Baicalin synergy with beta-lactam antibiotics against methicillin￾resistant Staphylococcus aureus and other beta￾lactam-resistant strains of S. aureus. J Pharm Pharmacol 52: 361–366. Lozupone C, Knight R. (2005). UniFrac: a new phyloge￾netic method for comparing microbial communities. Appl Environ Microbiol 71: 8228–8235. Ludwig W, Strunk O, Westram R, Richter L, Meier H, Yadhukumar et al. (2004). ARB: a software environment for sequence data. Nucleic Acids Res 32: 1363–1371. Luo CF, Yuan M, Chen MS, Liu SM, Zhu L, Huang BYet al. (2011). Pharmacokinetics, tissue distribution and relative bioavailability of puerarin solid lipid nano￾particles following oral administration. Int J Pharm 410: 138–144. Microbiota shift in alleviation of type 2 diabetes J Xu et al 561 The ISME Journal