Journal
ANAEROBE
Volume 19, Issue -, Pages 62-69Publisher
ELSEVIER SCI LTD
DOI: 10.1016/j.anaerobe.2012.12.005
Keywords
TRFLP; Bifidobacteria; Infants; Gut microbiota; NGS
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Funding
- University of California
- California Dairy Research Foundation
- USDA NRICSREES [2008-35200-18776]
- National Institutes of Health NICHD [R01HD059127, R01HD061923]
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Bifidobacteria are intestinal anaerobes often associated with gut health. Specific bifidobacterial species are particularly common in the gastrointestinal tract of breast-fed infants. Current short read next-generation sequencing approaches to profile fecal microbial ecologies do not discriminate bifidobacteria to the species level. Here we describe a low-cost terminal restriction fragment length polymorphism (TRFLP) procedure to distinguish between the common infant-associated bifidobacterial species. An empirical database of TRF sizes was created from both common reference strains and well-identified isolates from infant feces. Species-specific quantitative PCR validated bifidobacterial-specific TRFLP profiles from infant feces. These results indicate that bifidobacterial-specific TRFLP is a useful method to monitor intestinal bifidobacterial populations from infant fecal samples. When used alongside next generation sequencing methods that detect broader population levels at lower resolution, this high-throughput, low-cost tool can help clarify the role of bifidobacteria in health and disease. (C) 2012 Published by Elsevier Ltd.
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