host-associated and free-living phage communities differ profoundly in phylogenetic compositionhost-associated系统组成和独立生存的噬菌体社区已经有了很大的不同.pdfVIP

host-associated and free-living phage communities differ profoundly in phylogenetic compositionhost-associated系统组成和独立生存的噬菌体社区已经有了很大的不同.pdf

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host-associated and free-living phage communities differ profoundly in phylogenetic compositionhost-associated系统组成和独立生存的噬菌体社区已经有了很大的不同

Host-Associated and Free-Living Phage Communities Differ Profoundly in Phylogenetic Composition 1 1,2 3 J. Gregory Caporaso , Rob Knight , Scott T. Kelley * 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, Colorado, United States of America, 2 Howard Hughes Medical Institute, Boulder, Colorado, United States of America, 3 Department of Biology, San Diego State University, San Diego, California, United States of America Abstract Phylogenetic profiling has been widely used for comparing bacterial communities, but has so far been impossible to apply to viruses because of the lack of a single marker gene analogous to 16S rRNA. Here we developed a reference tree approach for matching viral sequences and applied it to the largest viral datasets available. The resulting technique, Shotgun UniFrac, was used to compare host-associated and non-host-associated phage communities (130 total metagenomes), and revealed a profound split similar to that found with bacterial communities. This new informatics approach complements analysis of bacterial communities and promises to provide new insights into viral community dynamics, such as top-down versus bottom-up control of bacterial communities by viruses in a range of systems. Citation: Caporaso JG, Knight R, Kelley ST (2011) Host-Associated and Free-Living Phage Communities Differ Profoundly in Phylogenetic Composition. PLoS ONE 6(2): e16900. doi:10.1371/journal.pone.0016900 Editor: Jack Gilbert, Argonne National Laboratory, United States of America Received December 7, 2010; Accepted January 14, 2011; Published February 24, 2011 Copyright: 2011 Caporaso et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which

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