Ashley Campbell edited Results & Discussion.tex  over 9 years ago

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All cellulose responders for day 30 (n = 15) had been identified as responders at earlier time points in this study except two; a Deltaproteobacteria (Sandaracinaceae family) and a Bacteroidetes (Cytophagaceae family). While there are known cellulose degraders in the Bacteroidetes Cytophagaceae family, there are currently no known cellulose degraders in the Sandaracinaceae family although its sister family Polyangiaceae has known cellulose degraders (\cite{Reichenbach_2006}, Bergey's ISBN:978-0-387-24145-6). Throughout the time series, cellulose responders with the greatest enrichment were Verrucomicrobia (Verrucomicrobiaceae), Chloroflexi, Cyanobacteria, Proteobacteria (Cellvibrio, Brevundimonas, Stenotrophomonas, Devosia), and Planctomycetes (Planctomycetaceae) (\href{https://authorea.com/users/3537/articles/3612/master/file/figures/bacteria_tree/bacteria_tree.png}{Fig. 4}).   Verrucomicrobia, a phylum found to be ubiquitous and in high abundance in soil \cite{Fierer_2013}, have been noted for degradation of polysaccharides in soil, aquatic, and anoxic rice patty soils \cite{Fierer_2013,Herlemann_2013,10543821}. In this study, Verrucomicrobia comprise ~11\% of the total cellulose responder OTUs detected (\href{https://www.authorea.com/users/3537/articles/3612/master/file/figures/l2fc_fig1/l2fc_fig.pdf}{Figs. 2}, \href{https://authorea.com/users/3537/articles/8459/master/file/figures/l2fc_fig_pVal/l2fc_fig_pVal.png}{S4}, \href{https://authorea.com/users/3537/articles/8459/master/file/figures/cellulose_resp_profiles/cellulose_resp_profiles.png}{S6}) most of which belong to the uncultured FukuN18 clade originally identified in freshwater lakes \cite{Parveen_2013}. Yet the largest enrichment measured (l2fc = 3.7) during the whole time series for \textsuperscript{13}C-cellulose assimilation was by an uncultured Verrucomicrobia in the Verrucomicrobiaceae family on day 14 d14  (\href{https://authorea.com/users/3537/articles/3612/master/file/figures/bacteria_tree/bacteria_tree.png}{Fig. 4}). Chloroflexi, ubitiquous across many diverse environments, are traditionally known for their metabolically dynamic lifestyles ranging from anoxygenic phototropy to organohalide respiration \cite{Yamada_2009,14527284,Hug_2013,Seshadri_2005,Tang_2011,dworkin2006the}. Yet, only recently have we shifter focus towards the metabolic functions of Chloroflexi in C cycling \cite{Hug_2013,Goldfarb_2011,Cole_2013}. In this study, we identified a previously undescribed clade within the Chloroflexi class (closest relative at a 96\% identity being Herpetosiphon) that exhibited a high substrate specificity based on a density shift peak between 0.03-0.04 gmL\textsuperscript{-1} (\href{https://authorea.com/users/3537/articles/8459/master/file/figures/cellulose_resp_profiles/cellulose_resp_profiles.png}{Fig. S6}). We observed no other cellulose utilization in Chloroflexi outside of this clade although many members of this phylum have previously been demonstrated or implicated in cellulose utilization \cite{Goldfarb_2011,Cole_2013,Hug_2013}.