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...
total C in the soil. The cellulose-C (0.88 mg C g$^{-1}$ soil d.w.) and
xylose-C (0.42 mg C g$^{-1}$ soil d.w.) in the amendment comprised 6\% and 3\%
of the total C in the soil, respectively. The soil microbial community respired
65\% of the xylose within one day
(Figure S1) (Figure~\ref{fig:setup}) and 29\% of the
added xylose remained in the soil at day 30
(Figure S1). (Figure~\ref{fig:setup}). In
contrast, cellulose-C declined at a constant rate of approximately 18 $\mu$g
C d $^{-1}$ g $^{-1}$ soil d.w. and 40\% of added cellulose-C remained in the
soil at
day 30 (Figure S1). day~30 (Figure~\ref{fig:setup}).
\subsection{Soil microcosm microbial community changes with time}
% Fakesubsubsection:Changes in the soil microcosm microbial community structure
...
annotated as \textit{Paenibacillus}, had a strong signal of $^{13}$C
assimilation from $^{13}$C-xylose into DNA at day 1 coinciding with its maximum
relative abundance in non-fractionated DNA. The relative abundance of "OTU.57"
declined until day 14 and did not appear to be $^{13}$C labeled after
day
1 (Figure X). day~1
(Figure~\ref{fig:example}). On day 3, \textit{Bacteroidetes} OTUs comprised
63\% of xylose responders (Figure~\ref{fig:xyl_count}) and these OTUs were
closely related to cultured representatives of the \textit{Flavobacteriales}
and \textit{Sphingobacteriales} (Table~\ref{tab:xyl}). For example, ``OTU.14'',
annotated as a Flavobacterium, had a strong signal for $^{13}$C labeling in the
$^{13}$C-xylose treatment at days 1 and 3 coinciding with its maximum relative
abundance in non-fractionated DNA. The relative abundance of ``OTU.14'' then
declined until day 14 and did not show evidence of $^{13}$C labeling beyond
day~3
(Figure X). (Figure~\ref{fig:example}). Finally, on day~7, \textit{Actinobacteria}
OTUs represented 53\% of the xylose responders and these OTUs were closely
related to cultured representatives of \textit{Micrococcales}
(Table~\ref{tab:xyl}). For example, ``OTU.4'', annotated as \textit{Agromyces},
had signal of $^{13}$C labeling in the $^{13}$C-xylose treatment on days 1,
3 and 7 with the strongest evidence of $^{13}$C labeling at day~7 and did not
appear $^{13}$C labeled at days~14 and~30. ``OTU.4'' relative abundance in
non-fractionated DNA increased until day~3 and then declined gradually until
day~30
(Figure X). (Figure\ref{fig:example}). \textit{Proteobacteria} were also common
among xylose responders at day~7 where they comprised 40\% of xylose responder
OTUs. Notably, \textit{Proteobacteria} represented the majority (6 of 8) of
OTUs that responded to both cellulose and xylose.
%Fakesubsubsection:Cellulose responders were
The phylogenetic composition of cellulose responders did not change with time
...
\textit{Verrucomicrobia} cellulose responders fell within unidentified
\textit{Spartobacteria} clades, and these shared $<$ 85\% SSU rRNA gene
sequence identity to any characterized isolate. The \textit{Spartobacteria} OTU
``OTU.2192'' exemplified many cellulose responders
(Figure X). (Figure~\ref{:fig:example}).
``OTU.2192'' gradually increased in non-fractionated DNA relative abundance
with time and evidence for $^{13}$C labeling of ``OTU.2192'' in the
$^{13}$C-cellulose treatment increased gradually over time with the strongest
evidence at days~14 and~30
(Figure X). (Figure\ref{fig:example}). \textit{Choloflexi}
cellulose responders predominantly belonged to an unidentified clade within the
\textit{Herpetosiphonales} and they shared $<$ 89\% SSU rRNA gene sequence
identity to any characterized isolate. Characteristic of \textit{Chloroflexi}
cellulose responders, "OTU.64" increased in relative abundance over 30 days and
evidence for $^{13}$C labeling of ``OTU.64'' in the $^{13}$C-cellulose
treatment peaked days 14
and
30 (Figure X). and~30 (Figure~\ref{fig:example}). Cellulose
responders found within the \textit{Bacteroidetes} fell within the
\textit{Cytophagales} contrasting with \textit{Bacteroidetes} xylose responders
that fell instead within the \textit{Flavobacteria} or
\textit{Sphingobacteriales}. \textit{Bacteroidetes} cellulose responders
included one OTU that shared 100\% SSU rRNA gene sequence identity to species
of \textit{Sporocytophaga}, a genus that includes known cellulose degraders.