Cunning_PLoSONE_Dryad_Archive

This archive file contains all data and scripts necessary to reproduce the analyses and figures presented in this manuscript

<i>Symbiodinium</i> clade composition for complete dataset.

<p>Bars represent the proportion of sequences in each sample from each clade.</p

Altered compartmental distributions of <i>Symbiodinium</i> between pools.

<p>The inner ring shows <i>Symbiodinium</i> taxa (clade A = green, C = yellow, D = purple, F = red, G = orange) that were differentially abundant in each compartment (middle ring: water = blue, sediment = gray, coral = pink, <i>Pavona venosa</i> = Pv, <i>Psammocora contigua</i> = Pc) between pools. The outer ring indicates whether taxa were more or less abundant in each pool, and ribbons connect instances where taxa were differentially abundant in multiple compartments. Ribbons reveal different compartmental distributions of taxa in each pool: in pool 300 (vs. 400), 8 taxa (including 4 clade D) were less abundant in sediments and more abundant in water and/or coral, while 2 other clade C taxa were more abundant in sediments and less abundant in water.</p

Location and <i>Symbiodinium</i> clade composition of water, coral, and sediment samples in each pool.

<p>Points represent sample positions and pie charts represent clade composition (A = green, C = yellow, D = purple, F = red, G = orange). Water samples (A) showed more clade A near shore, while sediments (C) showed more clade A further from shore, and clusters of more similar communities (e.g., clades D and F in the northeast and clade G in the southwest corners of pool 300; similar mixtures of C, D, and A in northwest corner of pool 400). Corals (B) tended to have more clade D near pool edges, especially in pool 400. Clade composition for <i>Porites</i> spp. (i.e., species with the lowest dissimilarity, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0145099#pone.0145099.t001" target="_blank">Table 1</a>) is not shown here, but can be seen in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0145099#pone.0145099.g001" target="_blank">Fig 1</a>. While data are visualized at the clade level, spatial autocorrelation tests reflect patterns in total diversity.</p

Differentiation of <i>Symbiodinium</i> communities between pools.

<p>NMDS biplots on Bray-Curtis dissimilarities are shown for water (A), sediment (B), and coral (C). Samples from pool 300 and pool 400 are represented by circles and triangles, respectively. Taxa are plotted in the same ordination space and colored by clade (A = green, C = yellow, D = purple, F = red, G = orange) to show their role in driving the differentiation between samples (e.g., clade D in association with sediment samples from pool 400). Three sediment samples are plotted with arrows indicating they lie outside the plot range. For corals, 90% confidence ellipses surround groups of species categorized qualitatively as low (< 0.4), intermediate (0.4–0.6), or high (> 0.6) overall dissimilarity (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0145099#pone.0145099.t001" target="_blank">Table 1</a>) to illustrate the range of observed variability in different coral species. Coral species whose symbiont communities were significantly different between pools (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0145099#pone.0145099.t001" target="_blank">Table 1</a>) are represented by filled symbols (gray = <i>Psammacora contigua</i>, black = <i>Pavona venosa</i>).</p