The human jejunum has an endogenous microbiota that differs from those in the oral cavity and colon

BMC Microbiology

Volumn 17, Issue 1, 2017, Pages

  Sundin, Olof H ^a   Mendoza Ladd, Antonio ^b   Zeng, Mingtao ^a   Diaz Arévalo, Diana ^a   Morales, Elisa ^a   Fagan, B Matthew ^a   Ordoñez, Javier ^b   Velez, Philip ^a   Antony, Nishaal ^b   McCallum, Richard W ^b  

^a Texas Tech University Health Sciences Center El Paso   (United States)

^b TEXAS TECH UNIVERSITY HEALTH SCIENCES CENTER   (United States)

Author keywords

Bacterial load; Jejunum; Metagenomics; Microbiome; Small intestine

Indexed keywords

RNA 16S;

ADULT; AGED; ALISTIPES; ANAEROBE; ARTICLE; BACTERIAL COUNT; BACTERIAL FLORA; BACTERIAL GENOME; BACTERIAL LOAD; BACTERIAL VIABILITY; CELL CULTURE TECHNIQUE; CITROBACTER; CLINICAL ARTICLE; COLON; COLONY FORMING UNIT; CONTROLLED STUDY; DYSBIOSIS; ENTEROBACTERIACEAE; ESCHERICHIA COLI; FAECALIBACTERIUM; FEMALE; FUSOBACTERIUM; GRAM NEGATIVE FACULTATIVELY ANAEROBIC RODS; HUMAN; HUMAN TISSUE; JEJUNUM; KLEBSIELLA; MALE; METAGENOMICS; MICROFLORA; MOUTH CAVITY; MOUTH FLORA; PHYLUM; POLYMERASE CHAIN REACTION; PREVOTELLA; QUANTITATIVE ANALYSIS; RUMINOCOCCUS; SMALL INTESTINE; STREPTOCOCCUS; VEILLONELLA; BACTERIUM; CLASSIFICATION; COMPARATIVE STUDY; GENETICS; GROWTH, DEVELOPMENT AND AGING; ISOLATION AND PURIFICATION; MICROBIOLOGY; MIDDLE AGED; MOUTH;

ADULT; AGED; BACTERIA; COLON; FEMALE; HUMANS; JEJUNUM; MALE; MICROBIOTA; MIDDLE AGED; MOUTH;

EID: 85024388637     PISSN: None     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/s12866-017-1059-6     Document Type: Article

References (35)

1. Thomson AB, Drozdowski L, Iordache C, Thomson BK, Vermeire S, Clandinin MT, Wild G. Small bowel review: Normal Physiology, Part 1. Dig Dis Sci. 2003;48:1546-64.
2. Evaldson G, Heimdahl A, Kager L, Nord CE. The normal human anaerobic microflora. Scand J Infect Dis Suppl. 1982;35:9-15.
3. Quigley EM. Small intestinal bacterial overgrowth: what it is and what it is not. Curr Opin Gastroenterol. 2014;30:141-6.
4. Bures J, Cyrany J, Kohoutova D, Förstl M, Rejchrt S, Kvetina J, et al. Small intestinal bacterial overgrowth syndrome. World J Gastroenterol. 2010;16:2978-90.
5. Goulet O. Potential role of the intestinal microbiota in programming health and disease. Nutr Rev. 2015;73(Suppl 1):32-40.
6. Macfarlane S, Dillon JF. Microbial biofilms in the human gastrointestinal tract. J Appl Microbiol. 2007;102:1187-96.
7. Johansson ME, Larsson JM, Hansson GC. The two mucus layers of colon are organized by the MUC2 mucin, whereas the outer layer is a legislator of host-microbial interactions. Proc Natl Acad Sci U S A. 2011;108(Suppl 1):4659-65.
8. Pham TA, Lawley TD. Emerging insights on intestinal dysbiosis during bacterial infections. Curr Opin Microbiol. 2014;17:67-74.
9. McKenney PT, Pamer EG. From hype to hope: the gut microbiota in enteric infectious disease. Cell. 2015;163:1326-32.
10. Khin-Maung-U, Tin-Aye, Ku-Tin-Myint, Tin-Oo, Myo-Khin, Thackway SA, et al. In vitro hydrogen production by enteric bacteria cultured from children with small bowel bacterial overgrowth. J Pediatr Gastroenterol Nutr. 1992; 14:192-197.
11. Bouhnik Y, Alain S, Attar A, Flourié B, Raskine L, Sanson-Le Pors MJ, et al. Bacterial populations contaminating the upper gut in patients with small intestinal bacterial overgrowth syndrome. Am J Gastroenterol. 1999;94:1327-31.
12. Riordan SM, McIver CJ, Wakefield D, Bolin TD, Duncombe VM, Thomas MC. Small intestinal bacterial overgrowth in the symptomatic elderly. Am J Gastroenterol. 1997;92:47-51.
13. 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;486:222-7.
14. Wang M, Ahrné S, Jeppsson B, Molin G. Comparison of bacterial diversity along the human intestinal tract by direct cloning and sequencing of 16S rRNA genes. FEMS Microbiol Ecol. 2005;54:219-31.
15. Dlugosz A, Winckler B, Lundin E, Zakikhany K, Sandström G, Ye W, et al. No difference in small bowel microbiota between patients with irritable bowel syndrome and healthy controls. Sci Rep. 2015;5:8508.
16. Kerckhoffs AP, Visser MR, Samsom M, van der Rest ME, de Vogel J, Harmsen W, Akkermans LM. Critical evaluation of diagnosing bacterial overgrowth in the proximal small intestine. J Clin Gastroenterol. 2008;42:1095-102.
17. Fuchs A, Dressman JB. Composition and physicochemical properties of fasted-state human duodenal and Jejunal fluid: a critical evaluation of the available data. J Pharm Sci. 2014;103:3398-411.
18. Rubio-Tapia A, Barton SH, Rosenblatt JE, Murray JA. Prevalence of small intestine bacterial overgrowth diagnosed by quantitative culture of intestinal aspirate in celiac disease. J Clin Gastroenterol. 2009;43:157-61.
19. Klindworth A, Pruesse E, Schweer T, Peplies J, Quast C, Horn M, et al. Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res. 2013;41:e1.
20. Illumina 16S Metagenomic Sequencing Library Preparation: Preparing 16S Ribosomal RNA Gene Amplicons for the Illumina MiSeq System. 2015 (http://support.illumina.com/).
21. Illumina MiSeq Reporter Metagenomics Workflow Reference Guide. 2015. http://support.illumina.com/.
22. Oh C, Lee K, Cheong Y, Lee SW, Park SY, Song CS, Choi IS, Lee JB. Comparison of the oral microbiomes of canines and their owners using next-generation sequencing. PLoS One. 2015;10:e0131468.
23. Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L, Sargent M, et al. Diversity of the human intestinal microbial flora. Science. 2005;308:1635-8.
24. Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A, Ley RE, et al. A core gut microbiome in obese and lean twins. Nature. 2009;457:480-4.
25. 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. Proc Natl Acad Sci U S A. 2011;108:4586-91.
26. Guerrero-Preston R, Godoy-Vitorino F, Jedlicka A, Rodríguez-Hilario A, González H, Bondy J, et. al. 16S rRNA amplicon sequencing identifies microbiota associated with oral cancer, Human Papilloma Virus infection and surgical treatment. Oncotarget. 2016. doi: 10.18632/oncotarget.9710.
27. Zbinden A, Mueller NJ, Tarr PE, Eich G, Schulthess B, Bahlmann AS, Keller PM, Bloemberg GV. Streptococcus tigurinus, a novel member of the Streptococcus mitis group, causes invasive infections. J Clin Microbiol. 2012;50:2969-73.
28. Nakajima T, Nakanishi S, Mason C, et al. Population structure and characterization of viridans group streptococci (VGS) isolated from the upper respiratory tract of patients in the community. The Ulster Medical Journal. 2013;82(3):164-8.
29. Chang JY, Antonopoulos DA, Kalra A, Tonelli A, Khalife WT, Schmidt TM, Young VB. Decreased diversity of the fecal microbiome in recurrent Clostridium Difficile-associated diarrhea. J Infect Dis. 2008;197:435-8.
30. Zhou J, Jiang N, Wang S, Hu X, Jiao K, He X, Li Z, Wang J. Exploration of human salivary microbiomes-insights into the novel characteristics of microbial community structure in caries and caries-free subjects. PLoS One. 2016;11(1):e0147039.
31. Sokol H, Pigneur B, Watterlot L, Lakhdari O, Bermúdez-Humarán LG, Gratadoux JJ, et al. Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proc Natl Acad Sci U S A. 2008;105:16731-6.
32. Albenberg L, Esipova TV, Judge CP, Bittinger K, Chen J, Laughlin A, et al. Correlation between intraluminal oxygen gradient and radial partitioning of intestinal microbiota. Gastroenterology. 2014;147:1055-63.
33. Maatallah M, Vading M, Kabir MH, Bakhrouf A, Kalin M, Nauclér P, et al. Klebsiella variicola is a frequent cause of bloodstream infection in the Stockholm area, and associated with higher mortality compared to K. pneumoniae. PLoS One. 2014;9:e113539.
34. Gaibani P, Ambretti S, Farruggia P, Bua G, Berlingeri A, Tamburini MV, et al. Outbreak of Citrobacter freundii carrying VIM-1 in an Italian Hospital, identified during the carbapenemases screening actions, June 2012. Int J Infect Dis. 2013;17:e714-7.
35. Andersson AF, Lindberg M, Jakobsson H, Bäckhed F, Nyrén P, Engstrand L. Comparative analysis of human gut microbiota by barcoded pyrosequencing. PLoS One. 2008;3:e2836.