Professional Documents
Culture Documents
14481465
q 2004 by the Ecological Society of America
AND
GLENN DEATH
Australian Institute of Marine Science, PMB No. 3, Townsville MC, Qld 4810, Australia
INTRODUCTION
Early detection of ecological change and identification of factors causing such change are essential for
successful ecosystem management. Despite the availability of the best scientific data, interested parties often
disagree about the existence of ecological change and
its causes. There are many reasons for this, including
(1) the selective use of scientific data and other information by interested parties to support individual
claims and objectives, (2) the misinterpretation and
abuse of technical concepts such as probability and
causality (Newman and Evans 2002), (3) the complexities of large-scale ecosystems which cannot be simply
explained or reliably predicted, and (4) the exploitation
of disagreement amongst scientists by stakeholders.
The resulting lack of consensus can lead successively
Manuscript received 15 October 2003; accepted 23 February
2004. Corresponding Editor: P. K. Dayton.
1 E-mail: k.fabricius@aims.gov.au
to conflict, confusion over policy development, government inaction and environmental degradation.
To overcome these problems, we developed a framework based on (1) the use of improved methods for
determining change through estimation of effect sizes,
as opposed to the usual use of hypothesis tests
(McCullagh and Nelder 1989, Nelder 1999), and (2)
the use of epidemiological criteria to attribute causality.
The framework can synthesize and evaluate scientific
and other data according to criteria that are both scientifically rigorous and widely accepted. Application
of the framework is simple and transparent in order to
effectively communicate scientific evidence to decision
makers and the public. This enables the detection of
change and judgments about causality to be made in a
rigorous, structured, and open manner, and thus the
agreement among stakeholders, necessary for successful implementation of management strategies, can be
obtained. An application of the framework follows in
a case study on the effects of water pollution on coral
reef benthos in the Great Barrier Reef, Australia.
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Attribution of causality
The concept of causality has a long and complex
history and it has many meanings. Its everyday usage
is often straightforward, but as a philosophical or scientific concept, its definition and use are often contentious. At this level, at least three notions of causality
are supported (Pearl 2000, Gillies 2001). First, some
deny the existence of causality or view it as scientifically unnecessary. Second, some acknowledge causality as a useful concept, but do not give it a central role
in their models. Causality is thus seen as a useful way
of explaining some aspects of empirical laws. Third,
some advocate causality as a fundamental construct.
Cause is assumed rather than demonstrated, and in the
formulation of mathematical models, causality takes
Ecological Applications
Vol. 14, No. 5
precedence over probability. Of course, there is no conclusive argument giving universal support to any one
of the three views, and different phenomena can be
used to support differing views, e.g., our everyday experiences support the concept of causality as something
fundamental, but few mathematical models require it.
Statistics is widely accepted within ecology as a primary empirical methodology, yet statisticians are typically not strong advocates of causality as a fundamental construct, favoring probability models instead.
There are statistical approaches that do promote cause
over probability (Pearl 2000), but equally there are
warnings against the causal interpretations (Speed
1990). The randomized experiment is often invoked as
one method for unambiguously determining causality,
but even that is questionable when outcomes are stochastic and we rely on statistical interpretation.
Causal arguments are needed in ecosystem management in order to convince interested parties that management actions should be implemented and will be
effective. These arguments need to balance scientific
rigor with ease of communication to nonscientists. This
situation is not novel and we can borrow from epidemiology, which deals with issues of comparable complexity to the ecological and environmental sciences
and also has similar requirements of scientific rigor and
communication. Epidemiologists developed criteria to
assess causality as part of the research into the link
between cigarette smoking and lung cancer. This link
was accepted by the Surgeon General after decades of
research (U.S. Department of Health, Education, and
Welfare 1964) when evidence compiled from multiple
sources of information and numerous studies fulfilled
a set of criteria (Hill 1965), the main ones being:
1) The relationship between the dose (the putative
cause) and the response should be monotonic.
2) The association between the dose and the response
should be strong.
3) The response should be specific to the cause.
4) There should be a logical time sequence of events;
i.e., the response should occur after the dose has been
applied.
5) There should be consistency both across populations within a study, and with results from other studies.
6) The observations should agree with known biological facts.
These criteria (or subsets, extended sets, or redefined
sets of them) are routinely used in epidemiology to
judge whether or not an association is causal. None of
the criteria are taken as indicative by themselves, but
equally, none are seen as absolutely necessary to evaluate causal significance of associations (Roth et al.
1982). The more criteria that are satisfied and the stronger the association, the more confidence we should
have in our judgment that the association is causal.
Similar criteria have been proposed for ecoepidemiological studies (Fox 1991) and impact assessment stud-
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1451
FIG. 1. Maps of the northern Great Barrier Reef and the study regions. (a) The risk of exposure to agricultural runoff is
shown in four shades of gray indicating (from dark to light) high, moderate, small, and minimal risk (from Devlin et al.
2002). Boxes surround the two study regions (PC, Princess Charlotte Bay; WT, wet tropics). Also shown are the locations
and names of inshore target reefs (black circles) in (b) PC and (c) WT, and locations of additional reef surveys across the
continental shelf (smaller gray circles), and estuaries of the main rivers affecting the regions.
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Vol. 14, No. 5
PLATE 1. A naturally turbid but highly diverse inshore reef in Princess Charlotte Bay.
Photo credit: K. Fabricius.
METHODS
Field data
The study is based on water quality analyses, and
ecological surveys of benthic cover, biodiversity, and
octocoral community structure. Only summaries of the
relevant water quality and ecological surveys are presented here; other laboratory and field studies have
been or will be described in greater detail elsewhere
(Fabricius et al. 2003, Phillips and Fabricius 2003,
Diaz-Pulido and McCook 2003; K. E. Fabricius, G.
Death, E. Turak, and D. Williams, unpublished manuscript).
Study sites and survey methods.The field research
was carried out in two regions within the Great Barrier
Reef (GBR), with one-off surveys characterizing 54
reef sites across the whole continental shelf, and targeted research on 13 inshore reefs (Fig. 1). The wet
tropics (WT) lies between Tully and Port Douglas, and
inshore reefs experience local river plumes from agricultural catchments on an almost annual basis, and
large plumes from the distant Burdekin River on a decadal basis (Furnas 2003). This region has the highest
exposure to runoff from agricultural areas within the
GBR (Fig. 1a; Devlin et al. 2002). The second region
lies north of Princess Charlotte Bay (PC) and ;400
km north of WT, and the inshore reefs are exposed to
runoff from sparsely populated catchments that have
received little or no fertilizer and pesticides to date,
but have low-density cattle grazing in some parts (see
Plate 1). Both regions contain turbid inshore reefs in
similar geophysical settings, located within 20 km of
the coast at 1218 m depth of the surrounding sea floor,
and protected by a barrier of mid- and outer-shelf reefs
up to 40 km offshore (Fig. 1b and 1c). In WT, most
discharged material is eventually transported northward away from the reefs, whereas the large northfacing PC creates anticyclonic eddies which result in
trapped and deposited sediment (Torgersen et al. 1983).
The research on the inshore target reefs was conducted
between 2000 and 2002. An additional 40 mid- and
October 2004
outer-shelf reef sites were visited within the two regions for cross-shelf one-off surveys of benthic cover
and octocoral communities.
The detailed disturbance histories of individual reefs
are largely unknown. In the WT, some reefs experienced outbreaks of the coral-eating crown-of-thorns
seastar Acanthaster planci in the late 1990s, tropical
cyclones in 1986 and 1990, and mortality through coral
bleaching (the expulsion of symbiotic algae from the
coral tissue, primarily caused by high temperatures) in
1998, with bleaching estimated as moderate to extreme on most reefs (Berkelmans and Oliver 1999).
In PC, no data exist for crown-of-thorns seastar (high
numbers were observed on a reef neighboring the inshore target reefs in 1991), but four tropical cyclones
have passed through the region within the last two decades. It is likely that the PC inshore target reefs did
not bleach in 1998 since satellite-based estimates of
sea surface temperatures were near-normal, but some
reefs did suffer severe bleaching mortality in early
2002 after the surveys were completed and during the
coral settlement experiment. The data on crown-ofthorns, cyclone, and bleaching disturbance history
were insufficient to assess or attribute effects on the
scale of individual reefs. In order to distinguish between the potential causes of change, a combination of
ecological attributes with contrasting responses to
bleaching, crown-of-thorns seastar predation, runoff,
and cyclones were chosen for the study. The chosen
attributes were:
1) Benthic cover of hard corals, octocorals, and macroalgae. These are the main groups of organisms usually measured in the assessment of coral reefs, and were
expected to respond to changing environmental conditions and disturbances in contrasting ways.
2) Taxonomic richness of zooxanthellate and azooxanthellate octocorals (Anthozoa, Octocorallia; commonly termed soft corals and sea fans). This
group contains genera with and without symbiotic algae (called zooxanthellae) in their tissue, the former
group depending on water clarity and light for photosynthetic nutrition, whereas the latter group is independent of water clarity (Fabricius and Death 2001).
Octocorals were chosen as indicators for ecological
attributes because of their abundance, and because they
respond more specifically to water quality than hard
corals; azooxanthellate octocorals (which constitute
about half of the genera) do not suffer from coral
bleaching, while zooxanthellate octocorals respond
strongly to turbidity, probably because of low photosynthetic efficiency (Fabricius and Klumpp 1995). Octocorals are also rarely eaten by crown-of-thorns seastar (Death and Moran 1998).
3) Community structure of octocorals on both the
inshore target reefs and along the cross-shelf chlorophyll gradient. This measure was chosen because communities are known to respond more strongly to en-
1453
Statistical methods
The analytical methods of this study did not include
the use of hypothesis tests for the reasons argued in
the Introduction. Instead, we estimated effect sizes and
predicted values with interval coverages. Inferences
were based on model averaging, cross-validated
smoothing splines and bootstrap estimation. For each
of these methods, the numerical results can be interpreted from either frequentist or Bayesian perspectives,
but of course the interpretations differ in each case.
All data analyses used S-Plus (Statistical Sciences
1999).
The relationships between chlorophyll concentrations and octocoral richness (zooxanthellate and azooxanthellate) were modeled for each region (WT and
PC) as a function of relative cross-shelf distance (de-
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Ecological Applications
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Synthesis
To successfully use the causal criteria, both the ecological attributes and the criteria have to be defined for
each study individually. Our ecological attributes were
cover of hard corals, octocorals, and macroalgae, species richness of zooxanthellate and azooxanthellate octocorals, and community structure, across the shelf
along the chlorophyll gradient and on the inshore target
reefs along the water quality gradient. The criteria were
slightly modified from Hills initial list (Hill 1965) to
best reflect the nature of the case study, using the following definitions:
1) Doseresponse relationship was satisfied if the
probability of gradient effect was .0.99. This corresponds to a Bayes factor of 100:1 and can be taken as
strong evidence for a relationship between dose and
response (Raftery 1995).
2) Strength of association was defined by effect size.
A strong effect was defined as .100% increase (or 50%
decrease) along 80% of the length (to exclude extreme
values) of the inshore water quality gradient within WT.
3) Logical time sequence indicates that the change
did not precede exposure to the disturbance. An assessment of this criterion relies on historic data from
the study regions, which were sparse in our case (no
data exist from the remote PC, and only a few observations exist from WT; Ayling and Ayling 2002; AIMS
Long-Term Monitoring Program, unpublished data).
4) Consistency across populations was defined as
consistency with other studies (i.e., responses recorded in our study were similar to those reported from
other regions in independent published studies).
October 2004
TABLE 1.
(PC).
1455
Comparison of water quality values around inshore reefs of the wet tropics (WT) and Princess Charlotte Bay
PC
WT
Mean
SE
Mean
SE
Ratio
1.40
0.40
0.19
1.41
0.024
0.16
0.012
8.46
0.096
0.43
4.04
31.8
0.13
0.04
0.03
0.13
0.01
0.02
0.002
0.59
0.012
0.06
1.19
0.48
3.77
0.56
0.32
2.55
0.14
0.24
0.019
8.38
0.16
0.56
9.46
29.1
0.84
0.09
0.06
0.38
0.07
0.08
0.003
1.01
0.03
0.06
2.59
1.54
2.69
1.40
1.68
1.81
5.83
1.50
1.58
0.99
1.67
1.30
2.34
0.93
CI
3.99
1.99
2.73
2.49
27.4
2.67
2.46
1.34
2.55
1.92
6.38
1.01
.0.99
0.93
0.96
0.99
0.88
0.83
0.96
0.49
0.97
0.93
0.99
0.02
95%
1.49,
0.93,
0.97,
1.27,
0.71,
0.55,
0.99,
0.75,
1.01,
0.95,
1.08,
0.82,
Notes: The table lists means and standard errors for each region together with the ratio for WT/PC, 95% confidence
(credibility) intervals based on bootstrap resampling, and the probability that the WT/PC ratio is .1. The intervals can be
treated as confidence intervals or credibility intervals with a non-informative prior.
tions of suspended solids, particulate nitrogen, and particulate phosphorus were 170270% higher in the water
around the WT reefs than in the water around PC reefs,
and mean nitrate levels were 580% higher in WT than
in PC (Table 1). Concentrations of other dissolved and
particulate nutrients were also at least as high or higher
in WT than in PC. All water quality variables except
salinity were highly correlated, and most of the inshore
target reefs in WT were exposed to higher nutrient and
sediment concentrations than in PC (Fig. 2).
The ecological attributes of WT also differed substantially from those of PC. On WT reefs 67.7% 6
5.6% (mean 6 1 SE) of space was covered in algae
(turf, coralline, and macroalgae). In contrast, algae occupied 39.6% 6 5.4% of space on PC reefs. Coral cover
was lower in WT than in PC (mean hard coral cover,
15.1% 6 2.4% vs. 43.4% 6 1.0%; octocorals, 2.8% 6
0.8% vs. 5.2% 6 1.5%). The richness of octocorals
was also lower in WT than in PC (25.5 6 2.4 vs. 35.6
6 2.3 genera per reef). In contrast, dead coral cover
in WT was higher than in PC (17.2% 6 6.0% vs. 3.8%
6 0.4%).
Changes in ecological attributes along the chlorophyll gradient across the continental shelf.The gradients in mean water column chlorophyll concentrations across the continental shelf differed between PC
and WT (Fig. 3). In WT, chlorophyll increased steeply
towards the coast, and was up to three times higher in
the innermost 20 km of the region than offshore or in
PC. In PC, chlorophyll remained constant and relatively low across the shelf. Changes in the taxonomic
richness of octocorals across the continental shelf also
showed clear patterns. Richness of zooxanthellate octocorals (genera that contain symbiotic algae in their
tissue and depend on water clarity and light for their
nutrition) declined by 30% in the WT inshore region
within the innermost 20 km of the shelf where chlorophyll was high (Fig. 3). In contrast, no clear crossshelf changes in richness of the zooxanthellate genera
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Synthesis
We combined the results of our field study with results from other regions and from laboratory experiments, and used Hills causality criteria to evaluate the
potential link between water quality and the condition
of the inshore coral reefs. The results were expressed
concisely in matrix format with the rows of the matrix
(Table 4) defined by the criteria, and the columns by
the ecological attributes, namely, cover of the main
benthos groups, richness of zooxanthellate and azooxanthellate octocorals, and community structure.
Doseresponse relationship.There was strong evidence for doseresponse relationships for three of the
five ecological attributes both along the cross-shelf
October 2004
1457
FIG. 3. Cross-shelf gradients in mean chlorophyll concentrations, based on 10 years of chlorophyll monitoring data and
taxonomic richness in octocorals with and without zooxanthellae (PC, Princess Charlotte Bay; WT, wet tropics). Thick solid
lines indicate cross-validated smoothing splines; thinner lines are 95% confidence intervals. Vertical light gray bands indicate
the locations of the inshore target reefs across the shelf.
chlorophyll gradient and along the water quality gradient on the inshore target reefs (Fig. 4, Tables 2 and
3). Doseresponse relationships were established for
macroalgal cover, octocoral cover, generic richness of
zooxanthellate octocorals, and octocoral community
structure. In contrast, hard coral cover, although much
lower in WT than in PC, was unrelated to the chlorophyll and inshore water quality gradients, possibly
due to the effect of other disturbances. The richness of
azooxanthellate octocorals was also unrelated to water
quality, as expected from their biological requirements.
In all of the relationships, the directions of change (i.e.,
increase or decrease along the water quality gradient,
or differences between regions) agreed with those expected from existing biological knowledge.
Strength of association.Some of the effects along
the water quality gradient across the shelf and within
the WT inshore region were large and ecologically significant (Fig. 4, Table 2). Macroalgal cover was 3.1
times higher on the reefs with highest nutrient and particle loads compared with those in clearest water in
WT. The number of octocoral genera was 2.4 times
higher on WT reefs with clearest water compared with
those in the least clear water. Associations between
community structure and the water quality and chlorophyll gradients were stronger than the differences
between the regions (Table 3), with depauperate communities recorded in the reefs with highest nutrient and
particle loads.
Logical time sequence.The assessment of this criterion is limited by the scarcity of historic data. Few
data exist to compare the ecological attributes on any
of the inshore target reefs with those from the past, and
some differences between the two regions in biodiversity are likely to have always existed due to the natural
decline in biodiversity with increasing latitudes. The
only historic data available are for one reef in the WT
region where hard coral cover decreased from ;80%
in 1989 to the present state due to a number of disturbances (Ayling and Ayling 2002). The logical time
sequence criterion of water quality effects on coral
reefs has however been met in other places, e.g., in
Hawaii, where coral cover increased and algal cover
decreased following offshore diversion of a coastal
sewage outfall site (Smith et al. 1981, Hunter and Evans
1995).
Consistency across different studies.The findings
of increased macroalgal cover and low hard coral cover
are consistent with previous work in other coral reef
regions exposed to terrestrial runoff (e.g., Tomascik et
al. 1993, Edinger et al. 2000, Hodgson and Yau 1997,
van Woesik et al. 1999, West and Van Woesik 2001).
Few studies have included octocorals, but species richness in response to disturbance have been reported for
other groups of reef organisms (Edinger et al. 1998).
The response of zooxanthellate octocorals, and the absence of a response in azooxanthellate octocorals are
consistent with a study on larger scale on the relation-
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FIG. 4. Relationship between ecological reef attributes and chlorophyll and water quality. Gray and black lines and circles
indicate reefs within the PC and WT regions, respectively. Solid lines indicate the model-averaged predictions from loglinear model fits, dashed lines indicate 95% confidence (credibility) intervals derived by bootsrapping, and the (pseudo-) R2
are the explained deviance of the model-averaged fit divided by the deviance of the null model. The left column of plots
shows variation of ecological attributes along the chlorophyll gradient across the continental shelf, and the right column
similarly for the water quality index, calculated as the sum of the z scores of all water quality variables excepting salinity
of each reef at inshore target reefs (high index values, high nutrient concentrations; low values, cleaner water). Ecological
attributes are: HC, hard corals; OC, octocorals; MA, macroalgae; zoox, zooxanthellate; azoox, azooxanthellate. Richness is
defined as the number of genera of octocorals per reef encountered during swim surveys.
October 2004
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TABLE 2. Analyses of models relating ecological responses to (a) chlorophyll gradients and cross-shelf regions and (b)
inshore water quality gradients and regions.
R1G
)
exp(G
a) Cross-shelf (chlorophyll)
MA cover (%)
0.03
HC cover (%)
0.00
OC cover (%)
0.19
OC richness (zoox)
0.10
OC richness (azoox)
0.07
0.17
0.02
0.44
0.15
0.40
0.80*
0.10
0.37*
0.75*
0.00
0.00
0.14
0.00
0.00
0.52*
0.00
0.73*
0.00
0.00
0.01
0.91
20.01
21.49
20.75
0.29
2.48
0.99
0.23
0.47
1.34
0.21
0.27
0.28
0.19
0.29
0.24
0.00
0.21
0.72*
0.26
0.06
0.62*
0.25*
0.02
0.36*
0.10*
0.00
0.02
0.01
0.00
1.12
0.03
20.01
20.34
20.24
3.06
1.03
0.99
0.71
0.79
Variable
R3G
CI
1.93,
0.92,
0.15,
0.38,
0.95,
3.18
1.07
0.34
0.60
1.95
.0.99
0.61
.0.99
.0.99
0.04
1.61,
0.82,
0.60,
0.59,
0.55,
6.71
1.32
1.61
0.87
1.13
.0.99
0.39
0.51
.0.99
0.91
95%
Notes: Abbreviations: MA, macroalgae; HC, hard coral; OC, octocoral; zoox, zooxanthellate; azoox, azooxanthellate. Loglinear models were used for all analyses. In the models, the gradient (G) effects are linear, and the region (R) effects are
categorical. For each ecological response, five models are compared: R 3 G, different gradient effects (slopes) within each
region and different region effects (intercepts); R 1 G, same slope but different region effects; G, single slope common to
both regions; R, no gradient effect but regional effects; and 1, no gradient or regional effects. The best model (most likely
according to Bayes information criteria [BIC]) is denoted by boldface text, and the best model selected by backward elimination
of nonsignificant terms (P . 0.05) is indicated by an asterisk. For four of the 10 models, the most likely model was not
selected by backward elimination. For four of the models, the relative probability for the most likely model is low (,0.5).
), proportional change (exp(G
)),
Models were averaged, weighted by the relative probabilities, and the estimated gradient (G
and 95% confidence (credibility) interval (CI) were estimated. For macroalgal cover (expected to increase along the gradient),
the probability (P) that proportional change was .1 is shown; for other responses, the probabilities of decline are shown.
For each response, the predicted values weighted by the relative probabilities and averaged across models are shown in Fig. 3.
ship between octocoral richness and water clarity (Fabricius and Death 2001).
The response is specific for the cause, thus an association should be stronger if there are few rather
than many causal factors.Some, but not all of the
responses were specific to water quality. In particular,
total hard coral cover is a nonspecific response, as it
may be low after a bleaching or crown-of-thorns disturbance, or it may be high even in chronically adverse
conditions due to the asexual spread of a few resistant
species. Macroalgal growth increases with nutrients,
and unlike corals is not known to be affected by periods
of high temperatures. Macroalgal cover remains low
despite high nutrient levels at high grazing pressure
(McCook 1999), however macroalgal cover is rarely
high in low-nutrient environments, and macroalgae
have established dominance on reefs in some areas of
FIG. 5. Redundancy analysis biplot of octocoral coral communities, showing the dependence on chlorophyll, relative distance across
the continental shelf (across) and region
(gray, Princess Charlotte Bay; black, wet tropics). The first two components shown in the
biplot accounted for 78.6% of the explained variation in octocoral abundances. Each symbol
represents a reef, and the fill of the symbol represents the generic richness in octocorals of that
reef. Chlorophyll and distance of the reefs
across the shelf are represented as vectors and
point in the directions of highest chlorophyll
loads and offshore reefs, respectively.
Ecological Applications
Vol. 14, No. 5
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TABLE 3. ANOVA of community composition of octocoral genera showing the effects of (a)
relative distance across the shelf, the chlorophyll cross-shelf gradient and regions (WT and
PC), and (b) the inshore water quality gradient and regions.
Effect
df
SS
a) Cross-shelf
Across
Chlorophyll
Region
Residuals
1
1
1
51
53.3
28.1
17.5
285.5
b) Inshore
Water quality index
Region
Residuals
1
1
10
16.969
6.285
50.048
MS
SS
(%)
Pseudo-F
95%
CI
53.3
28.1
17.5
5.6
13.9
7.3
4.5
74.3
9.52
5.02
3.13
6.77, 12.82
3.47, 7.44
1.24, 4.92
.0.99
.0.99
0.99
16.9
6.3
5.0
23.1
8.6
68.3
3.39
1.25
1.32, 6.66
0.45, 5.56
.0.99
0.61
Notes: For panel (a) 66 genera were analyzed, and for panel (b) 57 genera were analyzed;
the sequential sums of squares were summed over the responses to give ANOVA tables. The
pseudo-F statistic was bootstrapped and bias-adjusted to give 95% intervals. P denotes the
probability that the true value of pseudo-F was .1 (the expected value of pseudo-F, given
that a variable has no effect). For (a) there were strong effects of relative distance across the
shelf and chlorophyll, and weaker regional differences. For (b) there was a strong effect of
water quality and no effect of region. Reversing the order of inclusion of chlorophyll and
region, and water quality and region, slightly increased the strength of the region effects (;30%)
and correspondingly reduced the chlorophyll and water gradient effects.
DISCUSSION
Identifying anthropogenic causes of ecological
change and distinguishing such change from natural
dynamics is a nontrivial task. However causal attribution profoundly enhances the ability of scientists to
contribute to environmental management, and increases the effectiveness of management action. For example, in coral reef ecology the cause(s) of outbreaks
of the crown-of-thorns seastar Acanthaster planci are
still being debated by scientists 40 years after the first
observations of outbreaks. Costly local eradication programs are now in place to protect some tourism sites;
funding that might have been spent on preventative
measures if causes had been identified with a reasonable level of certainty. A contrasting example is that
high sea surface temperatures are now accepted by
most scientists as the major cause of coral bleaching
(Strong et al. 1997), and agreement on the cause of
predicted massive ecosystem changes by coral bleaching is adding momentum to the call for political action
FIG. 6. Redundancy analysis biplot of octocoral coral communities at the inshore target reefs in PC (gray symbols) and
WT (black symbols). The first two components shown in the biplot accounted for all of the explained variation in octocoral
abundances. Each symbol represents a reef, and the fill of the symbol represents the generic richness of octocorals at that
reef. The water quality index vector points in the direction of highest nutrient loads.
October 2004
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TABLE 4. Synthesis matrix defined by causality criteria and ecological attributes, summarizing
ecological evidence of terrestrial runoff effects on reefs within the wet tropical region of the
Great Barrier Reef (Fig. 1).
Benthic cover
Richness
Communities
OC Z OC A
OC C OC I
Criteria
HC
OC
MA
2
2
2
2
1
0
2
1
23/8
1
1
2
2
1
1
1
1
1
1
1
1
2
2
2
0
1
1
1
1
1
1
1
1
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
1
0
1
2/7
1
1
1
7/7
1
1
1
7/7
1
1
1
0/8
1
5/5
1
5/5
Notes: Data from this region are compared with those from reefs at low risk from runoff in
the Princess Charlotte Bay. Criteria A and B address responses observed in this study (Figs.
46, Tables 23). Criteria CF address the agreement between responses in this study and
results from other runoff-exposed regions and from laboratory studies on pollution effects.
Symbols in the matrix indicate the following: agreement with the criterion (1), inconclusive
(0, inconsistent or weak), disagreement (2), and not addressed due to the lack of data (NA).
Abbreviations: HC, hard coral; OC, octocorals; Z, zooxanthellate; A, azooxanthellate; C, crossshelf; I, inshore. The final row is the sum of scores as the proportion of all scores for each
attribute, scoring 1 as 11, 2 as 21, and ignoring NA.
1462
apparent that community structure responded more sensitively to water quality than summary parameters such
as benthic cover, indicating that substantial information
is contained in the responses of individual species that
will require follow-up laboratory exposure-effects experiments. It also became apparent that there was little
species replacement in octocorals from clean to turbid
water, rather species increasingly dropped out towards
high nutrient conditions, and only two species appeared
to grow well in the waters with the least clean water.
Although octocorals do not contribute to the formation
of coral reefs, they are the second-most abundant group
of macrobenthos in coral reefs. The disappearance of
a large number of octocoral genera in areas of high
loads of nutrients and suspended particles may be taken
as an indicator for severe deterioration of environmental conditions, with potential consequences for other
organism groups that were not included in the study.
What remained unresolved in our study is the origin
of the high nutrient levels in the water around the inshore target reefs, and thus the direct link between
terrestrial runoff and nutrient enrichment. It may be
argued that nutrient, chlorophyll, and sediment levels
in the marine inshore region of the WT may have always been high. Rivers discharging from catchments
with heavily fertilized sugar crops into the wet tropical
marine system carry levels of nutrients, sediments and
pesticides that are several times higher than estimated
levels in pre-European times and than rivers discharging into Princess Charlotte Bay (Furnas 2003). The
relatively high levels of nitrate measured around the
WT reefs (Table 1) indicate fresh supply of this nutrient, as concentrations of dissolved inorganic nitrogen
are rapidly taken up by nutrient-limited algae and bacteria in tropical marine systems. This supply is likely
to have come from the rivers, which are the largest
source of new nutrients in the GBR lagoon away from
upwelling areas (Furnas et al. 1997, Mitchell et al.
2001). Combined with flood-plume dispersal models
(Devlin et al. 2002), the limited existing data therefore
suggest that modern agrochemicals do reach the target
inshore reefs of the WT where they may contribute to
the measurably higher concentrations of water nutrients. Similarly, it may be argued that coral cover and
biodiversity on the WT reefs may have always been
low. However, the widths of the reef flats around the
islands in both regions indicate positive reef accretion
over extended periods in earlier times (Hopley et al.
1983). Observations on one WT reef group (the Russell-Normanby Islands) show declining coral cover
since 1990 due to a series of disturbances by bleaching,
cyclones, and a crown-of thorns seastar outbreak (Ayling and Ayling 2002), and it appears that the reefs have
failed to recover from these disturbances. Coral cover
has also been monotonously declining on a number of
other WT inshore reefs since 1985 to ;10% cover in
2002 (AIMS Long-Term Monitoring Program, unpublished data). Coral cover can increase by 10% per year
Ecological Applications
Vol. 14, No. 5
October 2004
in the field studies. The research was funded by the Cooperative Research Centre for the Great Barrier Reef World
Heritage Area (CRC Reef), and the Australian Institute of
Marine Science (AIMS).
LITERATURE CITED
Ayling, A. M., and A. L. Ayling. 2002. The dynamics of
Cairns section fringing reefs: 2002 final report. Great Barrier Reef Marine Park Authority, Townsville, Australia.
Bell, P. R. F. 1991. Status of eutrophication in the Great
Barrier Reef Lagoon. Marine Pollution Bulletin 22:8993.
Berger, J. O., B. Boukai, and Y. Wang. 1997. Unified frequentist and Bayesian testing of a precise hypothesis (with
discussion). Statistical Science 12:133160.
Berger, J. O., and L. Pericchi. 2001. Objective Bayesian
methods for model selection: introduction and comparison
(with discussion). Pages 135207 in P. Lahiri, editor. Model
selection. Institute of Mathematical Statistics Lecture
NotesMonograph Series. Institute of Mathematical Statistics, Beachwood, Ohio, USA.
Berger, J. O., and T. Sellke. 1987. Testing a point null hypothesis: the irreconcilability of p-values and evidence.
Journal of the American Statistical Association 82:112
139.
Berkelmans, R., and J. K. Oliver. 1999. Large-scale bleaching
of corals on the Great Barrier Reef. Coral Reefs 18:5560.
Bodansky, D. 1991. Law: scientific uncertainty and the precautionary principle. Environment 33:4344.
Bozdogan, H. 1987. Model selection and Akaikes information criterion (AIC): the general theory and its analytical
extensions. Psychometrika 52:345370.
Brodie, J. E. 2003. Keeping the wolf from the door: managing
land-based threats to the Great Barrier Reef. Pages 705
714 in M. K. Kasim Moosa, S. Soemodihardjo, A. Nontji,
A. Soegiarto, K. Romimohtarto, Sukarno, and Suharsono,
editors. Proceedings of the Ninth International Coral Reef
Symposium. Indonesian Institute of Sciences in cooperation with the State Ministry for Environment, Bali, Indonesia.
Brodie, J. E., C. Christie, M. Devlin, D. Haynes, S. Morris,
M. Ramsay, J. Waterhouse, and H. Yorkston. 2001. Catchment management and the Great Barrier Reef. Water Science and Technology 43:203211.
Bryant, D., L. Burke, J. McManus, and M. Spalding. 1998.
Reefs at risk. A map-based indicator of threats to the
worlds coral reefs. World Resources Institute, Cambridge,
UK.
Burnham, K. P., and D. R. Anderson. 1998. Model selection
and inference: a practical information theoretic approach.
Springer-Verlag, New York, New York, USA.
Burnham, K. P., D. R. Anderson, and W. L. Thompson. 2000.
Null hypothesis testing: problems, prevalence, and an alternative. Journal of Wildlife Management 64:912923.
Cohen, J. 1988. Statistical power analysis for the behavioural
sciences. Erlbaum Publishing, Hillsdale, New York, USA.
Cohen, J. 1994. The earth is round (p , .05). American
Psychologist 49:9971003.
Davison, A. C., and D. V. Hinkley. 1997. Bootstrap methods
and their application. Cambridge University Press, Cambridge, UK.
Dayton, P. K. 1998. Reversal of the burden of proof in fisheries management. Science 279:821822.
Death, G., and P. Moran. 1998. Factors affecting behaviours
of crown-of-thorns seastar (Acanthaster planci). 2: Feeding
preferences. Journal of Experimental Marine Biology and
Ecology 220:107126.
Devantier, L. M. 1994. The structure of assemblages of massive corals in the central Great Barrier Reef and assessment
of the effects of predation by the crown-of-thorns seastar
Acanthaster planci. Dissertation. Queensland University,
Brisbane, Australia.
1463
1464
Ecological Applications
Vol. 14, No. 5
October 2004
Coral Reef Symposium. Smithsonian Tropical Research Institute, Balboa, Republic of Panama.
Szmant, A. M. 2002. Nutrient enrichment on coral reefs: is
it a major cause of coral reef decline? Estuaries 25:753
766.
ter Braak, C. J. F. 1992. Permutation versus bootstrap significance tests in multiple regression and ANOVA. Pages
7986 in K. H. Jockel, G. Rothe, and W. Sendler, editors.
Bootstrapping and related techniques. Springer-Verlag,
Berlin, Germany.
Tomascik, T., T. Suharsono, and A. Mah. 1993. Case histories: a historical perspective of the natural and anthropogenic impacts in the Indonesian archipelago with a focus
on the Kepulauan Seribu, Java Sea. Pages 2632 in R. N.
Ginsburg, editor. Global aspects of coral reefs. University
of Miami Rosenstiel School of Marine and Atmospheric
Sciences, Miami, Florida, USA.
Torgersen, T., A. R. Chivas, and A. Chapman. 1983. Chemical and isotopic characterization and sedimentation rates
in Princess Charlotte Bay, Queensland. Journal of Australian Geology and Geophysics 8:191200.
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APPENDIX
A table showing simulation results to determine analysis methods for small data sets is available in ESAs Electronic Data
Archive: Ecological Archives A014-031-A1.