Use of portable enrichment unit in rapid characterization of infantile intestinal enterobacterial microbiota

References

• Ramotar K, Conly JM, Chubb H, Louie TJ. Production of menaquinones by intestinal anaerobes. J Infect Dis 1984;150:213–18.
   PubMed Web of Science ®Google Scholar
• Hooper LV, Gordon JI. Commensal host-bacterial relationships in the gut. Science 2001;292:1115–18.
   PubMed Web of Science ®Google Scholar
• Hakalehto E, Humppi T, Paakkanen H. Dualistic acidic and neutral glucose fermentation balance in small intestine: simulation in vitro. Pathophysiology 2008;15:211–20.
   Google Scholar
• Goldin BR, Gorbach SL. Clinical indications for probiotics: an overview. Clin Infect Dis 2008;46(Suppl 2): S96–100.
   Google Scholar
• Hakalehto E, Santa H, Vepsäläinen J, Laatikainen R, Finne J. Identification of a common structural motif in the disordered N-terminal region of bacterial flagellins. Evidence for a new class of fibril-forming peptides. Eur J Biochem 1997;250:19–29.
   PubMedGoogle Scholar
• Hakalehto E. 2000. Characterization of Pectinatus cerevisiiphilus and P. frisingiensis surface components. Use of synthetic peptides in the detection of some Gram-negative bacteria. PhD Thesis. Kuopio, Finland: Kuopio University Publications C, Natural and Environmental Sciences 112.
   Google Scholar
• Stark PL, Lee A. The microbial ecology of the large bowel of breast-fed and formula-fed infants during the first year of life. J Med Microbiol 1982;15:189–203.
   PubMed Web of Science ®Google Scholar
• Kühn I, Tullus K, Möllby R. Colonization and persistence of Escherichia coli phenotypes in the intestines of children aged 0 to 18 months. Infection 1986;14:7–12.
   PubMed Web of Science ®Google Scholar
• Majamaa H, Isolauri E, Saxelin M, Vesikari T. Lactic acid bacteria in the treatment of acute rotavirus gastroenteritis. J Pediatr Gastroenterol Nutr 1995;20:333–8.
   PubMed Web of Science ®Google Scholar
• Tapiainen T, Ylitalo S, Eerola E, Uhari M. Dynamics of gut colonization and source of intestinal flora in healthy newborn infants. APMIS 2006;114:812–17.
   Web of Science ®Google Scholar
• Ahtonen P, Lehtonen OP, Kero P, Eerola E. Faecal fatty acids and gastrointestinal upset in newborn infants. Lett Appl Microbiol 1997;24:91–4.
   Web of Science ®Google Scholar
• Harmsen HJM, Gibson GR, Elfferich P, Raangs GC, Wildeboer-Veloo ACM, Argaiz A, . Comparison of viable cell counts and fluorescence in situ hybridization using specific rRNA-based probes for the quantification of human fecal bacteria. FEMS Microbiol Lett 2000;183:125–9.
   PubMed Web of Science ®Google Scholar
• Ouwehand AC, Salminen S, Arvola T, Ruuska T, Isolauri E. Microbiota composition of the intestinal mucosa: association with fecal microbiota? Microbiol Immunol 2004;48:497–500.
   PubMed Web of Science ®Google Scholar
• Bernbom N, Nørrung B, Saadbye P, Mølbak L, Vogensen FK, Licht TR. Comparison of methods and animal models commonly used for investigation of fecal microbiota: effects of time, host and gender. J Microbiol Methods 2006;66:87–95.
   Web of Science ®Google Scholar
• Millar MR, Linton CJ, Cade A, Glancy D, Hall M, Jalal H. Application of 16S rRNA gene PCR to study bowel flora of preterm infants with and without necrotizing enterocolitis. J Clin Microbiol 1996;34:2506–10.
   PubMed Web of Science ®Google Scholar
• Conte MP, Schippa S, Zamboni I, Penta M, Chiarini F, Seganti L, . Gut-associated bacterial microbiota in paediatric patients with inflammatory bowel disease. Gut 2006;55:1760–7.
   PubMed Web of Science ®Google Scholar
• Malinen E, Rinttilä T, Kajander K, Mättö J, Kassinen A, Krogius L, . Analysis of the fecal microbiota of irritable bowel syndrome patients and healthy controls with real-time PCR. Am J Gastroenterol 2005;100:373–82.
   PubMed Web of Science ®Google Scholar
• Hakalehto E. Semmelweis’ present day follow-up: updating bacterial sampling and enrichment in clinical hygiene. Pathophysiology 2006;13:257–67.
   Google Scholar
• Hakalehto E. Menetelmä ja laite mikrobiologisten näytteiden rikastamista ja tutkimista varten. [Method for detecting microbes from an enrichment culture.] Finnish Patent No. 106561. 2001.
   Google Scholar
• Hakalehto E, Pesola J, Heitto L, Närvänen A, Heitto A. Aerobic and anaerobic growth modes and expression of type 1 fimbriae in Salmonella. Pathophysiology 2007;14:61–9.
   Google Scholar
• Kühn I. Biochemical fingerprinting of Escherichia coli: a simple system method for epidemiological investigations. J Microbiol Methods 1985;3:159–70.
   Web of Science ®Google Scholar
• Kühn I, Ayling-Smith B, Tullus K, Burman LG. The use of colonization rate and epidemic index as tools to illustrate the epidemiology of faecal Enterobacteriaceae strains in Swedish neonatal wards. J Hosp Infect 1993;23:287–97.
   Web of Science ®Google Scholar
• da Mota FF, Gomes EA, Paiva E, Seldin L. Assessment of the diversity of Paenibacillus species in environmental samples by a novel rpoB-based PCR-DGGE method. FEMS Microbiol Ecol 2005;53:317–28.
   Web of Science ®Google Scholar
• González Á, Guillamón JM, Mas A, Poblet M. Application of molecular methods for routine identification of acetic acid bacteria. Int J Food Microbiol 2006;108:141–6.
   Web of Science ®Google Scholar
• Mai V, Morris JG. Colonic bacterial flora: changing understandings in the molecular age. J Nutr 2003;134:459–64.
   Web of Science ®Google Scholar
• Heitto L, Heitto A, Hakalehto E. 2006. Tracing wastewaters with faecal coliforms and enterococci. Simola H. Seminar on large lakes 2006, University of Joensuu. Publications of the Karelian Institute, 145:101–6 (in Finnish with English abstract).
   Google Scholar
• Ellis-Pegler RB, Crabtree C, Lambert HP. The faecal flora of children in the United Kingdom. J Hyg (Lond) 1975;75:135–42.
   PubMedGoogle Scholar
• Tomkins AM, Bradley AK, Oswald S, Drasar BS. Diet and the faecal microflora of infants, children and adults in rural Nigeria and urban U. K. J Hyg (Lond) 1981;86:285–93.
   PubMedGoogle Scholar
• Pitkänen T, Bräcker J, MIettinen IT, Heitto A, Pesola J, Hakalehto E. Enhanced enrichment and detection of thermotolerant Campylobacter species from water using the Portable Microbe Enrichment Unit and real-time PCR. Can J Microbiol 2009;55:849–58.
   Web of Science ®Google Scholar