Association of fecal microbial diversity and taxonomy with selected enzymatic functions

PLoS ONE

Volumn 7, Issue 6, 2012, Pages

  Flores, Roberto ^a   Shi, Jianxin ^a   Gail, Mitchell H ^a   Gajer, Pawel ^b   Ravel, Jacques ^b   Goedert, James J ^a  

^a NATIONAL CANCER INSTITUTE   (United States)

^b UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GLUCOSIDASE; BETA GLUCURONIDASE; DNA; RNA 16S;

ADULT; ARTICLE; BACTEROIDETES; CLOSTRIDIUM; CONTROLLED STUDY; DNA EXTRACTION; ENZYME ACTIVITY; FECES ANALYSIS; FEMALE; FIRMICUTES; GENE SEQUENCE; HUMAN; HUMAN EXPERIMENT; LACTOBACILLALES; MICROBIAL DIVERSITY; MICROBIOME; MICROFLORA; NORMAL HUMAN; PYROSEQUENCING; QUESTIONNAIRE; SPECIES RICHNESS; STREPTOCOCCUS; TAXONOMY; WEIGHT REDUCTION;

ADOLESCENT; ADULT; AGED; BIODIVERSITY; FECES; FEMALE; HUMANS; MALE; MIDDLE AGED; QUESTIONNAIRES; REFERENCE VALUES; YOUNG ADULT;

ALISTIPES; BACTERIA (MICROORGANISMS); BACTEROIDETES; CLOSTRIDIA; FIRMICUTES; LACTOBACILLALES; RIKENELLACEAE; STREPTOCOCCUS;

EID: 84862986502     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0039745     Document Type: Article

References (22)

1. Gill SR, Pop M, Deboy RT, Eckburg PB, Turnbaugh PJ, et al. (2006) Metagenomic analysis of the human distal gut microbiome. Science 312: 1355-1359. doi 10.1126/science.1124234.
2. Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, et al. (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464: 59-65. doi 10.1038/nature08821.
3. Kau AL, Ahern PP, Griffin NW, Goodman AL, Gordon JI, (2011) Human nutrition, the gut microbiome and the immune system. Nature 474: 327-336. doi 10.1038/nature10213.
4. Relman DA, (2011) Microbial genomics and infectious diseases. N Engl J Med 365: 347-357. doi 10.1056/NEJMra1003071.
5. Zhu B, Wang X, Li L, (2010) Human gut microbiome: the second genome of human body. Protein Cell 1: 718-725. doi pp. 10.1007/s13238-010-0093-z.
6. Turnbaugh PJ, Henrissat B, Gordon JI, (2010) Viewing the human microbiome through three-dimensional glasses: integrating structural and functional studies to better define the properties of myriad carbohydrate-active enzymes. Acta Crystallogr Sect F Struct Biol Cryst Commun 66: 1261-1264. doi 10.1107/S1744309110029088.
7. Gloux K, Berteau O, El OH, Beguet F, Leclerc M, et al. (2011) A metagenomic beta-glucuronidase uncovers a core adaptive function of the human intestinal microbiome. Proc Natl Acad Sci U S A 108 Suppl 1: 4539-4546. doi 10.1073/pnas.1000066107.
8. Key TJ, Appleby PN, Reeves GK, Roddam AW, Helzlsouer KJ, et al. (2011) Circulating sex hormones and breast cancer risk factors in postmenopausal women: reanalysis of 13 studies. Br J Cancer 105: 709-722. doi 10.1038/bjc.2011.254.
9. Barone M, Lofano K, De TN, Licino R, Albano F, et al. (2012) Dietary, endocrine, and metabolic factors in the development of colorectal cancer. J Gastrointest Cancer 43: 13-19. doi pp. 10.1007/s12029-011-9332-7.
10. Manach C, Scalbert A, Morand C, Remesy C, Jimenez L, (2004) Polyphenols: food sources and bioavailability. Am J Clin Nutr 79: 727-747.
11. Dabek M, McCrae SI, Stevens VJ, Duncan SH, Louis P, (2008) Distribution of beta-glucosidase and beta-glucuronidase activity and of beta-glucuronidase gene gus in human colonic bacteria. FEMS Microbiol Ecol 66: 487-495. doi 10 (1111/j.1574-6941.2008.00520): x.
12. McIntosh FM, Maison N, Holtrop G, Young P, Stevens VJ, et al. (2012) Phylogenetic distribution of genes encoding beta-glucuronidase activity in human colonic bacteria and the impact of diet on faecal glycosidase activities. Environ Microbiol. doi 10 (1111/j.1462-2920.2012.02711): x.
13. Flores R, Shi J, Gail MH, Gajer P, Ravel J, et al. (2012) Assessment of the human faecal microbiota: II. Reproducibility and associations of 16S rRNA pyrosequences. Eur J Clin Invest. doi 10 (1111/j.1365-2362.2012.02659): x.
14. Cole CB, Fuller R, Mallet AK, Rowland IR, (1985) The influence of the host on expression of intestinal microbial enzyme activities involved in metabolism of foreign compounds. J Appl Bacteriol 59: 549-553.
15. Nakamura J, Kubota Y, Miyaoka M, Saitoh T, Mizuno F, et al. (2002) Comparison of four microbial enzymes in Clostridia and Bacteroides isolated from human feces. Microbiol Immunol 46: 487-490.
16. Mroczynska M, Libudzisz Z, (2010) Beta-glucuronidase and beta-glucosidase activity of Lactobacillus and Enterococcus isolated from human feces. Pol J Microbiol 59: 265-269.
17. Tryland I, Fiksdal L, (1998) Enzyme characteristics of beta-D-galactosidase- and beta-D-glucuronidase-positive bacteria and their interference in rapid methods for detection of waterborne coliforms and Escherichia coli. Appl Environ Microbiol 64: 1018-1023.
18. Stringer AM, Gibson RJ, Logan RM, Bowen JM, Yeoh AS, et al. (2008) Faecal microflora and beta-glucuronidase expression are altered in an irinotecan-induced diarrhea model in rats. Cancer Biol Ther 7: 1919-1925.
19. Ling WH, Hanninen O, (1992) Shifting from a conventional diet to an uncooked vegan diet reversibly alters fecal hydrolytic activities in humans. J Nutr 122: 924-930.
20. Koning CJ, Jonkers DM, Stobberingh EE, Mulder L, Rombouts FM, et al. (2008) The effect of a multispecies probiotic on the intestinal microbiota and bowel movements in healthy volunteers taking the antibiotic amoxycillin. Am J Gastroenterol 103: 178-189. doi 10 (1111/j.1572-0241.2007.01547): x.
21. Flores R, Shi J, Gail MH, Ravel J, Goedert JJ, (2012) Assessment of the human faecal microbiota: I. Measurement and reproducibility of selected enzymatic activities. Eur J Clin Invest. doi 10.1111/j.1365-2362.2012.02660 pp. x.
22. Cole JR, Wang Q, Cardenas E, Fish J, Chai B, et al. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37: D141-D145. doi 10.1093/nar/gkn879.