Journal Title
Title of Journal: Biodegradation
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Abbravation: Biodegradation
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Publisher
Springer Netherlands
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Authors: Bryan F Staley Pascal E Saikaly Francis L de los Reyes Morton A Barlaz
Publish Date: 2010/07/21
Volume: 22, Issue: 1, Pages: 189-204
Abstract
Landfills represent a unique microbial ecosystem and play a significant role in global biogeochemical processes The study of complex ecosystems such as landfills using DNAbased techniques can be advantageous since they allow for analysis of uncultured organisms and offer higher resolution in measuring demographic and metabolic functional diversity However sample acquisition and processing from refuse is challenging due to material heterogeneity Decomposed refuse was used to evaluate the effect of seven sample processing methods on Bacteria and Archaea community structure using TRFLP Bias was assessed using measured richness and by comparing community structure using multidimensional scaling MDS Generally direct methods were found to be most biased while indirect methods ie removal of cellular material from the refuse matrix before DNA extraction were least biased An indirect method using PO4 buffer gave consistently high bacterial and archaeal richness and also resulted in 28 and 34 recovery of R albus and M formicicum spiked into refuse respectively However the highest recovery of less abundant TRFs was achieved using multiple processing methods Results indicate differences in measured TRF diversity from studies of landfill ecosystems could be caused by methodological ie processing method variation rather than refuse heterogeneity or true divergence in community structureThis work was funded by Waste Management Inc We would like to thank Dr Jose Barcena and the NC State University Biotechnology Training and Education Center for use of the realtime PCR machine Dr Stefan Franzen NC State Chemistry Dept for use of the fluorometer and Dr Kenneth Pollock NC State Zoology Dept for his kind review of the approach used to measure bias and Xia He for help with statistical analysis Bryan Staley’s work was partially funded through a scholarship from the Environmental Research Education Foundation and a fellowship from NC Beautiful
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