Lynch SV, Pedersen O. The human intestinal microbiome in health and disease. N Engl J Med. 2016;375:2369–79.
Article
PubMed
CAS
Google Scholar
Clemente JC, Ursell LK, Parfrey LW, et al. The impact of the gut microbiota on human health: an integrative view. Cell. 2012;148:1258–70.
Article
PubMed
CAS
PubMed Central
Google Scholar
Kedia S, Rampal R, Paul J, et al. Gut microbiome diversity in acute infective and chronic inflammatory gastrointestinal diseases in North India. J Gastroenterol. 2016;51:660–71.
Article
PubMed
CAS
Google Scholar
Ley RE, Turnbaugh PJ, Klein S, et al. Microbial ecology: human gut microbes associated with obesity. Nature. 2006;444:1022–3.
Article
PubMed
CAS
Google Scholar
Vandeputte D, Falony G, Vieira-Silva S, et al. Stool consistency is strongly associated with gut microbiota richness and composition, enterotypes and bacterial growth rates. Gut. 2016;65:57–62.
Article
PubMed
CAS
Google Scholar
Tigchelaar EF, Bonder MJ, Jankipersadsing SA, et al. Gut microbiota composition associated with stool consistency. Gut. 2016;65:540–2.
Article
PubMed
CAS
Google Scholar
Hadizadeh F, Walter S, Belheouane M, et al. Stool frequency is associated with gut microbiota composition. Gut. 2017;66:559–60.
Article
PubMed
Google Scholar
Longstreth GF, Thompson WG, Chey WD, et al. Functional bowel disorders. Gastroenterology. 2006;130:1480–91.
Article
PubMed
Google Scholar
Degen LP, Phillips SF. How well does stool form reflect colonic transit? Gut. 1996;39:109–13.
Article
PubMed
CAS
PubMed Central
Google Scholar
Consortium THMP. Structure, function and diversity of the healthy human microbiome. Nature. 2012;486:207–14.
Article
CAS
Google Scholar
Arumugam M, Raes J, Pelletier E, et al. Enterotypes of the human gut microbiome. Nature. 2011;473:174–80.
Article
PubMed
CAS
PubMed Central
Google Scholar
Nishijima S, Suda W, Oshima K, Kim SW, Hirose Y, Morita H, et al. The gut microbiome of healthy Japanese and its microbial and functional uniqueness. DNA Res. 2016;23:125–33.
Article
PubMed
CAS
PubMed Central
Google Scholar
Nakayama J, Watanabe K, Jiang J, et al. Diversity in gut bacterial community of school-age children in Asia. Sci Rep. 2015;5:8397.
Article
PubMed
CAS
PubMed Central
Google Scholar
Heaton KW, Radvan J, Cripps H, et al. Defecation frequency and timing, and stool form in the general population: a prospective study. Gut. 1992;33:818–24.
Article
PubMed
CAS
PubMed Central
Google Scholar
Inoue R, Ohue-Kitano R, Tsukahara T, et al. Prediction of functional profiles of gut microbiota from 16S rRNA metagenomic data provides a more robust evaluation of gut dysbiosis occurring in Japanese type 2 diabetic patients. J Clin Biochem Nutr. 2017;61:217–21.
Article
PubMed
CAS
PubMed Central
Google Scholar
Nishino K, Nishida A, Inoue R, et al. Analysis of endoscopic brush samples identified mucosa-associated dysbiosis in inflammatory bowel disease. J Gastroenterol. 2018;53:95–106.
Article
PubMed
Google Scholar
Takagi T, Naito Y, Inoue R, et al. The influence of long-term use of proton pump inhibitors on the gut microbiota: an age-sex-matched case-control study. J Clin Biochem Nutr. 2018;62:100–5.
Article
PubMed
CAS
Google Scholar
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010;7:335–6.
Article
PubMed
CAS
PubMed Central
Google Scholar
Edgar RC. Search and clustering orders of magnitude faster than BLAST. Bioinformatics (Oxford, England). 2010;26:2460–1.
Article
CAS
Google Scholar
Edgar RC, Haas BJ, Clemente JC, et al. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics (Oxford, England). 2011;27:2194–200.
Article
CAS
Google Scholar
Koliada A, Syzenko G, Moseiko V, et al. Association between body mass index and Firmicutes/Bacteroidetes ratio in an adult Ukrainian population. BMC Microbiol. 2017;17:120.
Article
PubMed
CAS
PubMed Central
Google Scholar
Ley RE, Backhed F, Turnbaugh P, et al. Obesity alters gut microbial ecology. Proc Natl Acad Sci USA. 2005;102:11070–5.
Article
PubMed
CAS
Google Scholar
Mathur R, Barlow GM. Obesity and the microbiome. Expert Rev Gastroenterol Hepatol. 2015;9:1087–99.
Article
PubMed
CAS
Google Scholar
Ignacio A, Fernandes MR, Rodrigues VA, et al. Correlation between body mass index and faecal microbiota from children. Clin Microbiol Infect. 2016;22:258.e1–e8.
Article
Google Scholar
Schwiertz A, Taras D, Schafer K, et al. Microbiota and SCFA in lean and overweight healthy subjects. Obesity (Silver Spring, Md). 2010;18:190–5.
Article
Google Scholar
Odamaki T, Kato K, Sugahara H, et al. Age-related changes in gut microbiota composition from newborn to centenarian: a cross-sectional study. BMC Microbiol. 2016;16:90.
Article
PubMed
CAS
PubMed Central
Google Scholar
Wang JJ, Wang J, Pang XY, et al. Sex differences in colonization of gut microbiota from a man with short-term vegetarian and inulin-supplemented diet in germ-free mice. Sci Rep. 2016;6:36137.
Article
PubMed
CAS
PubMed Central
Google Scholar
Markle JG, Frank DN, Mortin-Toth S, et al. Sex differences in the gut microbiome drive hormone-dependent regulation of autoimmunity. Science. 2013;339:1084–8.
Article
PubMed
CAS
Google Scholar
Org E, Mehrabian M, Parks BW, et al. Sex differences and hormonal effects on gut microbiota composition in mice. Gut Microbes. 2016;7:313–22.
Article
PubMed
CAS
PubMed Central
Google Scholar
Fransen F, van Beek AA, Borghuis T, et al. The impact of gut microbiota on gender-specific differences in immunity. Front Immunol. 2017;8:754.
Article
PubMed
CAS
PubMed Central
Google Scholar
Yatsunenko T, Rey FE, Manary MJ, et al. Human gut microbiome viewed across age and geography. Nature. 2012;486:222–7.
Article
PubMed
CAS
PubMed Central
Google Scholar
Sonnenburg JL, Backhed F. Diet-microbiota interactions as moderators of human metabolism. Nature. 2016;535:56–64.
Article
PubMed
CAS
PubMed Central
Google Scholar
Kasai C, Sugimoto K, Moritani I, et al. Comparison of the gut microbiota composition between obese and non-obese individuals in a Japanese population, as analyzed by terminal restriction fragment length polymorphism and next-generation sequencing. BMC Gastroenterol. 2015;15:100.
Article
PubMed
PubMed Central
Google Scholar
Lewis SJ, Heaton KW. Stool form scale as a useful guide to intestinal transit time. Scand J Gastroenterol. 1997;32:920–4.
Article
PubMed
CAS
Google Scholar
Tian H, Ge X, Nie Y, et al. Fecal microbiota transplantation in patients with slow-transit constipation: a randomized, clinical trial. PLoS One. 2017;12:e0171308.
Article
PubMed
CAS
PubMed Central
Google Scholar
Halkjaer SI, Boolsen AW, Gunther S, et al. Can fecal microbiota transplantation cure irritable bowel syndrome? World J Gastroenterol. 2017;23:4112–20.
Article
PubMed
PubMed Central
Google Scholar
Abadi ATB. Fecal microbiota transplantation against irritable bowel syndrome? Rigorous randomized clinical trials are required. World J Gastrointest Pharmacol Ther. 2017;8:208–9.
Article
PubMed
PubMed Central
Google Scholar
Mizuno S, Masaoka T, Naganuma M, et al. Bifidobacterium-rich fecal donor may be a positive predictor for successful fecal microbiota transplantation in patients with irritable bowel syndrome. Digestion. 2017;96:29–38.
Article
PubMed
PubMed Central
Google Scholar
Agrawal A, Houghton LA, Morris J, et al. Clinical trial: the effects of a fermented milk product containing Bifidobacterium lactis DN-173 010 on abdominal distension and gastrointestinal transit in irritable bowel syndrome with constipation. Aliment Pharmacol Ther. 2009;29:104–14.
Article
PubMed
CAS
Google Scholar
Kim HJ, Vazquez Roque MI, Camilleri M, et al. A randomized controlled trial of a probiotic combination VSL# 3 and placebo in irritable bowel syndrome with bloating. Neurogastroenterol Motil. 2005;17:687–96.
Article
PubMed
CAS
Google Scholar