Download Published figures arising out of FISH507H: Beautiful

Published figures arising directly out
of FISH554: Beautiful graphics in R
Figure 4. (a) Contour plot of LSD (linear
selection differential) values, the product of
different exploitation rates and length
selectivity values (the difference in the
average length of fish caught vs. those not
caught), of a fishery. LSD values are the
difference in length of fish before fishing vs.
after fishing (not caught). Actual (b) female
and (c) male annual exploitation rates and
length selectivity values, along with the
resulting LSDs, produced in a total of 283
years by the nine Alaskan sockeye salmon
fisheries examined in our study. The
grayscale legend refers to these LSD values
produced. Background contour lines in
panels (b) and (c) show where the product
of a fishery’s exploitation rate and lengthselectivity value equals a given LSD value.
Created by Neala Kendall as part of the Fall
2011 course.
Kendall NW & Quinn TP (2012) Quantifying
and comparing size selectivity among
Alaskan sockeye salmon fisheries.
Ecological Applications 22:804-816
Figure 3 Directional differences between (a) free-flowing and flow-regulated rivers for per cent opportunistic and
equilibrium life history strategies and (b) a principal components ordination summarising variation among rivers according
to the six major flow metrics. Dam types are coded by line type where solid lines indicate hydropower, dashed lines indicate
flood control, and dotted lines indicate locks. Sites are labelled at the base of each arrow, and labels correspond to Fig. 1.
Created by student Meryl Mims as part of the Fall 2011 course.
Mims MC & Olden JD (2013) Fish assemblages respond to altered flow regimes via ecological filtering of life history
strategies. Freshwater Biology 58:50-62. doi: 10.1111/fwb.12037
Figure 4 Pairwise per cent differences of (a) opportunistic, (b) periodic and (c) equilibrium proportional life history strategies
and (d) % nonnative species versus the Flow Alteration Index. Symbols indicate dam type, and symbol fill indicates release
type.
Created by student Meryl Mims as part of the Fall 2011 course.
Mims MC & Olden JD (2013) Fish assemblages respond to altered flow regimes via ecological filtering of life history
strategies. Freshwater Biology 58:50-62. doi: 10.1111/fwb.12037
Figure 1. (a) Map of Wood River
basin showing sockeye salmon
spawning locations and
corresponding average summer
water temperature as indicated by
dot colour. (b) Relationship between
water temperature and sockeye
salmon spawning date. (c,d)
Cumulative distribution functions
(cdf), representing the proportion
of the cumulative seasonal activity
observed at any site on a specific
date, for (c) gulls and (d ) bears at
sockeye salmon spawning locations.
Colours of lines correspond to water
temperatures, and insets show
relationship between the mean of
the cdf for gulls and bears, and
sockeye salmon spawn timing among
study sites (see the electronic
supplementary material, table S1).
Created by student Peter Lisi as part
of the Fall 2011 course.
Schindler DE et al. 2013. Rising the
crimson tide: mobile terrestrial
consumers track phenological
variation in spawning of an
anadromous fish. Biology Letters
9:20130048. doi:
10.1098/rsbl.2013.0048
Figure 6. This figure shows how hole
proportion can lower the degree
mean of forest landscapes. Loesssmoothed degree means (d) from 20
000 simulations are plotted in the
top graph with sample landscapes
below. The order of the lines in the
top graph, from top to bottom,
is uniform, cluster, SSI, and lattice.
This ordering is consistent
throughout the domain, with
landscapes generated using the
lattice method having noticeably
lower degree means than landscapes
generated from other point
processes. This example uses
landscapes generated using each
point process exclusively to highlight
the differences between them. In
practice, landscapes will generally
use a mixture of point processes. The
shaded filled polygons indicate
management units that have been
deleted during the editing process.
Created by Gregor Passolt as part of
the Fall 2011 course.
Passolt G. et al. (2013) A Voronoi
tessellation-based approach to
generate hypothetical forest
landscapes. Canadian Journal of
Forest Research 43:78-89. doi:
10.1139/cjfr-2012-0265
Figure 3. Total price flexibilities
are calculated as a weighted sum
of statistically significant (p ≤
0.05) individual price flexibilities.
Red (green) indicates negative
(positive) total price flexibility;
colour is scaled to the maximum
absolute total flexibility value
(Fpollock, pollock = –0.4860). Species
are ordered left-to-right/bottomto-top by FY 2010 revenue
importance among multispecies
groundfish (southwest corner)
and other species.
Created by Andrew Scheld as part
of the Fall 2012 course.
Scheld AM & Anderson CM
(2014) Market effects of catch
share management: the case of
New England multispecies
groundfish. ICES Journal of
Marine Science
doi:10.1093/icesjms/fsu001
Fig. 5. Spatial distributions of days 108C in the surface waters of Lake Superior. The top panel represents the
average of the years 1979–1984 and the bottom panel the years of 2001–2006.
Created by Timothy Cline as part of the Winter 2014 course.
Cline, T. J., J. F. Kitchell, V. Bennington, G. A. McKinley, E. K. Moody, and B. C. Weidel. 2014. Climate impacts on landlocked sea lamprey:
implications for host-parasite interactions and invasive species management. Ecosphere 5(6):68. http://dx.doi.org/10.1890/ES14-00059.1
Fig. 3. Spatial distribution of ln-standardized daily prey fish catch in minnow traps along the lake edge in Peter Lake (manipulated system)
between 2008 and 2011. Each circular plot is the spatial distribution of catch within an individual year. Each segment of a circle represents an
individual trap location located along the lake perimeter. The color scale indicates daily ln-standardized catch. Daily measurements through time
at each location proceed along each segment from the perimeter toward the center of the circle. Dashed circles indicate dates of predator
additions. As the system approaches the regime shift prey fish catch should become patchier in space and time.
Created by Timothy Cline as part of the Winter 2014 course.
Cline, T. J., D. A. Seekell, S. R. Carpenter, M. L. Pace, J. R. Hodgson, J. F. Kitchell, and B. C. Weidel. 2014. Early warnings of regime shifts: evaluation
of spatial indicators from a whole-ecosystem experiment. Ecosphere 5(8). 102. http://dx.doi.org/10.1890/ES13-00398.1
Fig. 2. Example population
trajectories with predation on
recruits and lognormal
recruitment deviations with a c.v.
of 04. Trajectories begin at the
grey triangle, grow darker as time
progresses, end at the black
square and cover one 20-year
predator cycle. Dotted line is the
equilibrium annual production
curve under average predator
abundance. MSY is maximum
sustainable yield of that curve;
BMSY is its associated biomass.
Production dynamics were most
variable for silver hake and
Atlantic menhaden.
Created by Kiva Oken as part of
the Winter 2014 course.
Oken, K.L. & Essington, T.E. 2015
How detectable is predation in
stage-structured populations?
Insights from a simulation-testing
analysis. Journal of Animal
Ecology 84:60-70 doi:
10.1111/1365-2656.12274.