Appendix A. Qualitative analysis of model stability and predictions of press perturbation response.

Qualitative analysis of model stability and predictions of press perturbation response

Average growth (number of polyps) of coral recruits in the different treatments (uncaged, partially caged and caged) over a nine month period in the post settlement experiment.

<p>Average growth (number of polyps) of coral recruits in the different treatments (uncaged, partially caged and caged) over a nine month period in the post settlement experiment.</p

Average volume of macroalgae and number of coral recruits on settlement tiles in the caged and uncaged treatments in the larval settlement experiment.

<p>Average volume of macroalgae and number of coral recruits on settlement tiles in the caged and uncaged treatments in the larval settlement experiment.</p

Average volume of macroalgae in the different treatments (uncaged, partially caged and caged) in the post settlement experiment over a 14 month period.

<p>Note that coral recruits were introduced to the treatments at time 0.</p

Results of PERMANOVA and two way ANOVA’s comparing the volume of macroalgae and coral size in caged, uncaged cage controls in the post settlement experiment.

<p>Results of PERMANOVA and two way ANOVA’s comparing the volume of macroalgae and coral size in caged, uncaged cage controls in the post settlement experiment.</p

Total numbers of trawl days, hours and individual trawls in the PTF.

<p>*Not all trawl data for calendar year provided. These figures represent the subset subject to analyses, not the annual totals.</p><p>Numbers refer to those conducted by calendar year (January to December) in the Pilbara Trawl Fishery from 2003 until 2009 (source = Department of Fisheries <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0093178#pone.0093178-Department1" target="_blank">[27]</a>).</p

Schematic of trawler and trawl net on or near the seabed.

<p>Also illustrated are the typical positions of dolphins in and around the net, as well as following the trawler on the surface. The detailed net diagram represents the typical net specifications used in the Pilbara Trawl Fishery in 2008 and 2009, showing the side and top views, location of the Bycatch Reduction Device and the skirt covering the escape hatch. The lengths of the different panels are given as number of meshes, mesh length (in inches) and diameter of twine (in mm). In the side view, the height of each panel is given as the number of meshes. Diagram not to scale. Modified from Stephenson et al. <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0093178#pone.0093178-Stephenson2" target="_blank">[29]</a> and Jaiteh et al. <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0093178#pone.0093178-Jaiteh1" target="_blank">[35]</a> following plans by H. McKenna for the ‘Magnet Box Diamond Net’ with short neck.</p

Summary of full models to predict dolphin bycatch by fitting multiple factors for a) skippers' logbook data and b) independent observer data.

<p>Results from binary logistic generalised linear models for predicting the occurrence of dolphin bycatch in the Pilbara Trawl fishery using time of day, net type, vessel and the net type×vessel interaction as predictors from a) skippers' logbook data (number of trawls, n = 27,914) and b) observer data (n = 4,178).</p

Dolphin bycatch rates net type x vessel interaction.

<p>Mean (±1 SE) dolphin bycatch rates illustrating the net type (No BRD vs BRD) x vessel (1-4) interaction based on skippers' logbook data.</p

Dolphin bycatch rates reported by skippers and observers.

<p>Number of dolphins caught, number of trawls observed, and dolphin bycatch rate/1,000 trawls in Australian financial years of July to June (as per presented by industry in logbooks) and divided by net type (i.e. No BRD, after the introduction of BRDs, and then BRDs being moved forward in the extension).</p