By a News Reporter-Staff News Editor at Life Science Weekly -- Current study results on Life Science Research have been published. According to news reporting from Newark, Delaware, by NewsRx journalists, research stated, "Longer sequences of the bacterial 16S rRNA gene could provide greater phylogenetic and taxonomic resolutions and advance knowledge of population dynamics within complex natural communities. We assessed the accuracy of a Pacific Biosciences (PacBio) single molecule, real time (SMRT) sequencing based on DNA polymerization, a promising 3rd generation high-throughput technique, and compared this to the 2nd generation Roche 454 pyrosequencing platform."
The news correspondents obtained a quote from the research from the University of Delaware, "Amplicons of the 16S rRNA gene from a known isolate, Shewanella oneidensis MR1, and environmental samples from two streambed habitats, rocks and sediments, and a riparian zone soil, were analyzed. On the PacBio we analyzed similar to 500 bp amplicons that covered the V1-V3 regions and the full 1500 bp amplicons of the V1-V9 regions. On the Roche 454 we analyzed the similar to 500 bp amplicons. Error rates associated with the isolate were lowest with the Roche 454 method (2%), increased by more than 2-fold for the 500 bp amplicons with the PacBio SMRT chip (4-5%), and by more than 8-fold for the full gene with the PacBio SMRT chip (17 similar to 18%). Higher error rates with the PacBio SMRT chip artificially inflated estimates of richness and lowered estimates of coverage for environmental samples."
According to the news reporters, the research concluded: "The 3rd generation sequencing technology we evaluated does not provide greater phylogenetic and taxonomic resolutions for studies of microbial ecology."
For more information on this research see: Efficacy of a 3rd generation high-throughput sequencing platform for analyses of 16S rRNA genes from environmental samples. Journal of Microbiological Methods, 2013;95(2):175-181. Journal of Microbiological Methods can be contacted at: Elsevier Science Bv, PO Box 211, 1000 Ae Amsterdam, Netherlands. (Elsevier - www.elsevier.com; Journal of Microbiological Methods - www.elsevier.com/wps/product/cws_home/506034)
Our news journalists report that additional information may be obtained by contacting J.J. Mosher, University of Delaware, Delaware Biotechnol Inst, Newark, DE 19711, United States. Additional authors for this research include E.L. Bernberg, O. Shevchenko, J. Kan and L.A. Kaplan (see also Life Science Research).
Keywords for this news article include: Newark, Delaware, United States, Life Science Research, North and Central America
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