Union of TB and NTM gene sets: network 1.

<p>Grey: Network identified genes; Blue: TB or NTM focus genes.</p

Database-derived TB and NTM-associated genes.

<p>Database-derived TB and NTM-associated genes.</p

TB network.

<p>Grey: Network identified genes; Blue: TB focus genes.</p

Network-identified nutrients.

<p>Grey: Network identified vitamins; Blue: Network identified genes.</p

Network-identified immune-modulating chemicals.

<p>Grey: Network identified chemicals; Blue: Network identified genes.</p

Intersection of TB and NTM gene sets.

<p>Grey: Network identified genes; Blue: TB and NTM focus genes.</p

NTM network.

<p>Grey: Network identified genes; Blue: NTM focus genes.</p

Differential protein abundance behaviors observed in both experiments.

<p>Two-way hierarchical clustering (Euclidian) of Log2 fold changes for each pairwise comparison was performed in the Perseus software for on only the differentially abundant proteins observed in both experiments. Here, we highlight discrete clusters representing those proteins that behaved similarly <b>(A-B)</b> or differently <b>(C)</b> between the two experiments. Proteins not observed in a pairwise comparison are represented by a grey color. In parentheses following each <i>Populus</i> accession number is the protein group index. To the right of each cluster, we provided the observed <i>A</i>. <i>thaliana</i> homologs. <b>(D)</b> A scatterplot matrix of protein fold changes highlights the similarity between the water deficit treatments. A fitted line, nonparametric density and Pearson correlation coefficient is provided for each scatterplot.</p

Functional profiles for differential abundance patterns observed in acute drought treatment (continued).

<p>Functional profiles for differential abundance patterns observed in acute drought treatment (continued).</p

Label-free quantitative proteomic analysis of water deficit in <i>P</i>. <i>deltoides</i> leaves.

<p><b>(A)</b> Large-scale characterization of proteome behavioral response to prolonged cyclic drought (red) vs acute drought (blue) treatment was achieved by two-dimensional liquid chromatography tandem mass spectrometry (2D-LC-MS/MS). For the cyclic drought treatment, three samples were collected to profile a well-watered leaf versus mild and severe drought deficit conditions. The acute drought stress treatment provides a complementary perspective, in which four samples capture prolonged water deficit conditions across an 8-day period. The average water potential and standard error of the mean are provided for each sample. <b>(B)</b> The total number of identified proteins and protein groups are highlighted, with the lighter color shade and the offset darker color representing the number of proteins and protein groups, respectively. <b>(C)</b> Partial least squares analysis highlights the discrete grouping of biological replicates and the two treatments.</p