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Chuck begin ecol strategy re-write
about 9 years ago
Commit id: d19f8490756abfc3730b7997e18704a2af9d9e4e
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\subsection{Ecological strategies of soil microorganisms participating in the
decomposition of organic matter}
We assessed the ecology of $^{13}$C-responsive OTUs by estimating each OTU's
\textit{rrn} gene copy number and the BD shift upon labeling. \textit{rrn} gene
copy number is positively correlated with growth rate and BD shift is
indicative of substrate specificity. We also observed how $^{13}$C-substrate
responsive OTUs changed in relative abundance with time in the microcosms and
the abundance rank of $^{13}$C-substrate responsive OTUs in the bulk DNA.
$^{13}$C-cellulose responsive OTUs grow slower (Figure~XX), have greater
substrate specificity (Figure~XX), and are generally lower abundance than
$^{13}$C-xylose responsive OTUs (Figure~XX). There are only faint ecological
differences between $^{13}$C-cellulose responsive OTUs but the combination of
\textit{rrn} gene copy number, BD shift, abundance rank and relative abundance
change over time does appears to be consistent with phylum membership
(Figure~XX). $^{13}$C-xylose responsive OTU growth rate was negatively
correlated with the time at which the OTU was first found to incorporate
$^{13}$C into DNA (Figure~XX).
Ecological metrics suggest cellulose degraders are substrate specialists that
grow slow and are in low bulk abundance. Labile C responder ecology is more
varied perhaps because some $^{13}$C labeled microorganisms did not primarily
assimilate xylose but became labeled via predatory interactions or are
saprophytes. $^{13}$C-xylose responsive OTUs are generalists, grow faster and
are more abundant when compared to $^{13}$C-cellulose responders.
$^{13}$C-xylose responders vary in growth rate and while generally lower
abundance than $^{13}$C-cellulose responders can also be low abundance
microorganisms. It's not clear whether the observed activity succession from
\textit{Firmicutes} to \textit{Bacteroidetes} and finally
\textit{Actinobacteria} in response to $^{13}$C-xylose addition
marks trophic interactions or functional groups tuned to different substrate
concentrations. Each temporally defined response group appeared to be
phylogenetically clustered suggesting a uniform ecological strategy, however
(Figure~XX). It's also clear that some of the non-\textit{Firmicutes}
$^{13}$C-xylose responders are closely related to known predators
(\textit{Agromyces}) and many marine predatory bacteria are members of the
\textit{Bacteroidetes} (CITE). Predatory interactions could impact soil
C storage and turnover. Our results suggest that are large group of soil
microorganisms may be predators that consume fast-growing opportunistic
spore-formers that are primary labile C utilizers.
% Fakesubsubsection:Ecological strategies of soil microorganisms
We quantified the \textit{rrn} gene copy number, relative abundance changes
with time in the bulk community and substrate specificity for the