Comparison of three DNA extraction kits to establish maximum yield and quality of coral-associated microbial DNA

Open-File Report 2014-1066
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Abstract

Coral microbiology is an expanding field, yet there is no standard DNA extraction protocol. Although many researchers depend on commercial extraction kits, no specific kit has been optimized for use with coral samples. Both soil and plant DNA extraction kits from MO BIO Laboratories, Inc., have been used by many research groups for this purpose. MO BIO recently replaced their PowerPlant® kit with an improved PowerPlantPro kit, but it was unclear how these changes would affect the kit’s use with coral samples. In order to determine which kit produced the best results, we conducted a comparison between the original PowerPlant kit, the new PowerPlantPro kit, and an alternative kit, PowerSoil, using samples from several different coral genera. The PowerPlantPro kit had the highest DNA yields, but the lack of 16S rRNA gene amplification in many samples suggests that much of the yield may be coral DNA rather than microbial DNA. The most consistent positive amplifications came from the PowerSoil kit.

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Additional publication details

Publication type Report
Publication Subtype USGS Numbered Series
Title Comparison of three DNA extraction kits to establish maximum yield and quality of coral-associated microbial DNA
Series title Open-File Report
Series number 2014-1066
DOI 10.3133/ofr20141066
Year Published 2014
Language English
Publisher U.S. Geological Survey
Publisher location Reston, VA
Contributing office(s) St. Petersburg Coastal and Marine Science Center
Description iii, 14 p.
Country United States
Online Only (Y/N) Y