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      Magnetic Mineral Diagenesis in a High Temperature and Deep Methanic Zone in Izu Rear Arc Marine Sediments, Northwest Pacific Ocean

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          Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

          Background The study of microbial communities has been revolutionised in recent years by the widespread adoption of culture independent analytical techniques such as 16S rRNA gene sequencing and metagenomics. One potential confounder of these sequence-based approaches is the presence of contamination in DNA extraction kits and other laboratory reagents. Results In this study we demonstrate that contaminating DNA is ubiquitous in commonly used DNA extraction kits and other laboratory reagents, varies greatly in composition between different kits and kit batches, and that this contamination critically impacts results obtained from samples containing a low microbial biomass. Contamination impacts both PCR-based 16S rRNA gene surveys and shotgun metagenomics. We provide an extensive list of potential contaminating genera, and guidelines on how to mitigate the effects of contamination. Conclusions These results suggest that caution should be advised when applying sequence-based techniques to the study of microbiota present in low biomass environments. Concurrent sequencing of negative control samples is strongly advised. Electronic supplementary material The online version of this article (doi:10.1186/s12915-014-0087-z) contains supplementary material, which is available to authorized users.
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            Sedimentary pyrite formation: An update

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              Trace metals as paleoredox and paleoproductivity proxies: An update

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                Author and article information

                Contributors
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                Journal
                Journal of Geophysical Research: Solid Earth
                J. Geophys. Res. Solid Earth
                American Geophysical Union (AGU)
                2169-9313
                2169-9356
                October 2018
                October 29 2018
                October 2018
                : 123
                : 10
                : 8331-8348
                Affiliations
                [1 ]Center for Advanced Marine Core Research Kochi University Nankoku Japan
                [2 ]Geological Survey of New South Wales NSW Department of Planning and Environment Maitland New South Wales Australia
                [3 ]School of Geosciences The University of Sydney Sydney New South Wales Australia
                [4 ]PALM Laboratory, Centre for Frontier Geoscience, Newcastle Institute for Energy and Resources The University of Newcastle Newcastle New South Wales Australia
                [5 ]Geomicrobiology Group Kochi Institute for Core Sample Research, Japan Agency for Marine‐Earth Science and Technology Nankoku Japan
                [6 ]Research and Development Center for Submarine Resources Japan Agency for Marine‐Earth Science and Technology Nankoku Japan
                [7 ]Department of Organic Geochemistry, Institute of Geosciences Christian‐Albrechts‐University Kiel Germany
                [8 ]Research and Development Center for Ocean Drilling Science Japan Agency for Marine‐Earth Science and Technology Yokohama Japan
                [9 ]Research Center for Knowledge Science in Cultural Heritage Doshisha University Kyoto Japan
                Article
                10.1029/2018JB015861
                274290c4-3521-43a7-bb6a-ab5a8a331cf5
                © 2018

                http://onlinelibrary.wiley.com/termsAndConditions#vor

                http://doi.wiley.com/10.1002/tdm_license_1.1

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