deletions | additions       diff --git a/Results.tex b/Results.tex  index 3ad01d9..286e2ce 100644  --- a/Results.tex  +++ b/Results.tex 
...
In bacterial libraries, sequences were distributed into 636 total OTUs; 58\% of quality controlled sequences fell into the top 25 OTUs in order of decreasing sum of relative abundance across all samples. 23S plastid rRNA gene sequences were distributed into 359 total OTUs; 71\% of sequences fell into the top 25 OTUs sorted by mean relative abundance across all samples. Rank abundance curves for each mesocosm specific pair of planktonic and biofilm samples showed planktonic communities to be more sharply skewed in both the algal and bacterial datasets (Figure 9).   We used the RNA-Seq differential expression framework developed by \citet{deseq} (for review of RNA-Seq differential expression statistics applied to microbiome OTU count data see \cite{24699258}). We use the term "differential abundance" (coined by \citet{24699258}) to denote OTUs that have different mean proportions across sample classes. We are particularly interested in two sample classes: 1) environment type (biofilm or planktonic) and, 2) high carbon (C:P = 500) versus not high carbon (C:P = 10, C:P = 100 and C:P = control). A differentially abundant OTU, for instance, would have a mean proportion in one class that is statistically different from its mean in another. This differential abundance could mark an enrichment in either classwhich  and the direction of the enrichment is apparent in the sign (positive or negative) of the metric used summarize the mean proportion difference. Here we use log$_{2}$ of the mean proportion ratio (means are derived from OTU proportions for all samples in each given class) as our differential abundance metric. It is also important to note that the DESeq2 R package we're using to calculate the differential abundance metric Highest absolute OTU relative abundance mean ratios grouped by environment type (plantonic versus biofilm) were found for OTUs enriched in planktonic samples (with respect to biofilm) (Figure 6) which is consistent ith the higher alpha diversity in biofilm communities compared to planktonic communities. That is, sequence counts were spread across a greater diversty of taxa in the biofilm libraries compared to the planktonic libraries. Of the top five OTUs ordered by absolute environment type OTU mean ratios, one is annotated as in the \textit{Bacteroidetes}, two \textit{Gammaproteobacteria}, one \textit{Betaproteobacteria} and one \textit{Alphaproteobacteria}; all five are enriched in the planktonic liraries relative to biofilm. Table 1 lists the top 25 OTUs ordered by absolute environment type mean ratios. Only five bacterial OTU centroid sequences for the top 25 environment type enriched OTUs (ordered by absolute environment type mean ratio) share high sequence identity (>= 97\%) with cultured isolates (Table 1). Environment type OTU mean ratios are consistent with positions of OTUs in the sample ordination space (see Figures 5 and 6).