Evaluation of the bacterial diversity in the feces of cattle using 16S rDNA bacterial tag-encoded FLX amplicon pyrosequencing (bTEFAP)
By Scot E. Dowd, T. Callaway, R. Wolcott, Yan Sun, Trevor McKeehan, R. Hagevoort, T. Edrington. BMC Microbiology, 2008
1,164 citations recorded by the source corpus.
BackgroundThe microbiota of an animal's intestinal tract plays important roles in the animal's overall health, productivity and well-being. There is still a scarcity of information on the microbial diversity in the gut of livestock species such as cattle. The primary reason for this lack of data relates to the expense of methods needed to generate such data. Here we have utilized a bacterial tag-encoded FLX 16s rDNA amplicon pyrosequencing (bTEFAP) approach that is able to perform diversity analyses of gastrointestinal populations. bTEFAP is relatively inexpensive in terms of both time and labor due to the implementation of a novel tag priming method and an efficient bioinformatics pipeline. We have evaluated the microbiome from the feces of 20 commercial, lactating dairy cows.ResultsUbiquitous bacteria detected from the cattle feces included Clostridium, Bacteroides, Porpyhyromonas, Ruminococcus, Alistipes, Lachnospiraceae, Prevotella, Lachnospira, Enterococcus, Oscillospira, Cytophage, Anaerotruncus, and Acidaminococcus spp. Foodborne pathogenic bacteria were detected in several of the cattle, a total of 4 cows were found to be positive for Salmonella spp (tentative enterica) and 6 cows were positive for Campylobacter spp. (tentative lanienae).ConclusionUsing bTEFAP we have examined the microbiota in the feces of cattle. As these methods continue to mature we will better understand the ecology of the major populations of bacteria the lower intestinal tract. This in turn will allow for a better understanding of ways in which the intestinal microbiome contributes to animal health, productivity and wellbeing.
Subfields: Agronomy and Crop Science, Endocrinology, Water Science and Technology
View Paper: https://www.semanticscholar.org/paper/3fba02c21e55ffeb0fc931d1bd3a21c04a9fd790
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Citations in the corpus
- Tag-encoded pyrosequencing analysis of bacterial diversity in a single soil type as affected by management and land use (2008, methodology): “The use of pyrosequencing for evaluating microbial diversity has been described recently as promising to be less labor intensive (Cristea-Fernstrom et al., 2007; Huse et al., 2007; Liu et al., 2007; Roesch et al., 2007; Sundquist et al., 2007; Dowd et al., 2008a).”
- 454‐sequencing reveals stochastic local reassembly and high disturbance tolerance within arbuscular mycorrhizal fungal communities (2012, background): “Additionally, three different 10-base tags were included between linker A and the glo454 primer (Dowd et al. 2008), allowing all 48 samples to be distributed among sixteen 454-sectors with three samples in each sector.”
- Exploring the bovine rumen bacterial community from birth to adulthood (2013, methodology): “The tagging and sequencing protocol was performed as previously described by (Dowd et al., 2008).”
- Exposure to a Social Stressor Alters the Structure of the Intestinal Microbiota: Implications for Stressor-Induced Immunomodulation (2010, methodology): “NET and C# analysis pipeline the resulting BLASTn outputs were compiled, validated using taxonomic distance methods, and data reduction analysis performed as described previously (Dowd et al., 2008b).”
- Analysis of the Lung Microbiome in the “Healthy” Smoker and in COPD (2011, methodology): “454 Pyrosequencing The bacterial tag-encoded FLX-Titanium amplicon pyrosequencing (bTEFAP) method targeting the V1-V3 variable regions of 16S rRNA was used to create amplicon libraries [20].”