PREDATOR-AVOIDANCE BEHAVIOR EXTENDS TROPHIC CASCADES TO REFUGE HABITATS

Consideration of how trait-mediated indirect interactions (TMIIs) affect community dynamics is recognized as an important focus for ecological research. Although these indirect effects have been shown to mediate trophic cascades in ecological communities, our understanding of how habitat refuge influences the strength and direction of cascading effects is limited. We examined whether or not oyster toadfish (top predator) affect mud crab (intermediate predator) foraging on juvenile hard clams (infaunal prey) in oyster reefs, a physically complex habitat that can provide refuge for both intermediate predators and basal prey. In particular, we manipulated toadfish presence in mesocosms containing experimental oyster reefs and quantified both mud crab and juvenile clam mortality. Toadfish significantly reduced mud crab foraging on clams and increased clam survivorship even though mud crabs foraging on the surface of the reef sought refuge from toadfish deeper within the oyster-shell matrix where they were more proximal to clams. This counterintuitive result suggests that toadfish suppression of mud crab foraging activity is far stronger than toadfish-avoidance behavior that potentially increases crab-clam encounter rates. Therefore, TMIIs can reinforce trophic cascades even in refuge habitats where intermediate predators and their prey are physically isolated from top predators. Determining the generality of cascading effects on lower trophic levels within refugia will require investigating how habitat refuge affects the relative importance of TMIIs

HABITAT COMPLEXITY INFLUENCES CASCADING EFFECTS OF MULTIPLE PREDATORS

Although multiple predator effects and trophic cascades have both been demonstrated in a wide variety of ecosystems, ecologists have yet to incorporate these studies into an experimental framework that also manipulates a common and likely important factor, spatial heterogeneity. We manipulated habitat complexity, the presence of two top predators (toadfish and blue crabs), and one intermediate predator (mud crabs) to determine whether habitat complexity influences the strength of multiple predator interactions across multiple trophic levels in experimental oyster reef communities. In the absence of toadfish, blue crabs caused significant mud crab mortality. Despite also directly consuming mud crabs, toadfish indirectly benefited this intermediate predator by decreasing blue crab consumption of mud crabs. Toadfish suppression of mud crab foraging activity, and thus decreased mud crab encounters with blue crabs, is likely responsible for this counterintuitive result. Contrary to previous investigations which suggest that more complex habitats reduce interference interactions among predators, reef complexity strengthened emergent multiple predator effects (MPEs) on mud crabs. The degree to which these MPEs cascaded down to benefit juvenile oysters (basal prey) depended on both habitat complexity and nonconsumptive effects derived from predator-predator interactions. Habitat complexity reduced the foraging efficiency of each crab species individually but released crab interference interactions when together, so that the two crabs collectively consumed more oysters on complex reefs. Regardless of reef complexity, toadfish consistently decreased consumption of oysters by both crab species individually and when together. Therefore, interactions between predator identity and habitat complexity structure trophic cascades on oyster reefs. Furthermore, these cascading effects of multiple predators were largely mediated by nonconsumptive effects in this system

Predators, environment and host characteristics influence the probability of infection by an invasive castrating parasite

Not all hosts, communities or environments are equally hospitable for parasites. Direct and indirect interactions between parasites and their predators, competitors and the environment can influence variability in host exposure, susceptibility and subsequent infection, and these influences may vary across spatial scales. To determine the relative influences of abiotic, biotic and host characteristics on probability of infection across both local and estuary scales, we surveyed the oyster reef-dwelling mud crab Eurypanopeus depressus and its parasite Loxothylacus panopaei, an invasive castrating rhizocephalan, in a hierarchical design across >900 km of the southeastern USA. We quantified the density of hosts, predators of the parasite and host, the host's oyster reef habitat, and environmental variables that might affect the parasite either directly or indirectly on oyster reefs within 10 estuaries throughout this biogeographic range. Our analyses revealed that both between and within estuary-scale variation and host characteristics influenced L. panopaei prevalence. Several additional biotic and abiotic factors were positive predictors of infection, including predator abundance and the depth of water inundation over reefs at high tide. We demonstrate that in addition to host characteristics, biotic and abiotic community-level variables both serve as large-scale indicators of parasite dynamics

Genetic by environmental variation but no local adaptation in oysters ( Crassostrea virginica )

Functional trait variation within and across populations can strongly influence population, community, and ecosystem processes, but the relative contributions of genetic vs. environmental factors to this variation are often not clear, potentially complicating conservation and restoration efforts. For example, local adaptation, a particular type of genetic by environmental (G*E) interaction in which the fitness of a population in its own habitat is greater than in other habitats, is often invoked in management practices, even in the absence of supporting evidence. Despite increasing attention to the potential for G*E interactions, few studies have tested multiple populations and environments simultaneously, limiting our understanding of the spatial consistency in patterns of adaptive genetic variation. In addition, few studies explicitly differentiate adaptation in response to predation from other biological and environmental factors. We conducted a reciprocal transplant experiment of first-generation eastern oyster (Crassostrea virginica) juveniles from six populations across three field sites spanning 1000 km in the southeastern Atlantic Bight in both the presence and absence of predation to test for G*E variation in this economically valuable and ecologically important species. We documented significant G*E variation in survival and growth, yet there was no evidence for local adaptation. Condition varied across oyster cohorts: Offspring of northern populations had better condition than offspring from the center of our region. Oyster populations in the southeastern Atlantic Bight differ in juvenile survival, growth, and condition, yet offspring from local broodstock do not have higher survival or growth than those from farther away. In the absence of population-specific performance information, oyster restoration and aquaculture may benefit from incorporating multiple populations into their practices

Fish and Invertebrate Use of Restored vs. Natural Oyster Reefs in a Shallow Temperate Latitude Estuary

Coastal marine habitats continue to be degraded, thereby compelling largescale restoration in many parts of the world. Whether restored habitats function similarly to natural habitats and fully recover lost ecosystem services is unclear. In estuaries, oyster reefs have been degraded by multiple anthropogenic activities including destructive fishing practices and reduced water quality, motivating restoration to maintain oyster fisheries and other ecosystem services, often at relatively high cost. We compared fish and invertebrate communities on recently restored (0–1 year post-restoration), older restored (3–4 years post-restoration), and natural oyster reefs to determine if and when restored reefs support functionally similar faunal communities. To test the influence of landscape setting on the faunal communities, the restored and natural reefs, as well as a control without reef present, were distributed among three landscapes (on the edge of salt marsh away from seagrass [salt marsh landscape], on mudflats [mudflat landscape], and near to seagrass and salt marsh [seagrass landscape]). Oyster density and biomass were greatest on restored reef habitat, as were those of non-oyster bivalve species. Total abundance of invertebrates was much greater on oyster reefs than in control plots, regardless of reef or landscape type, yet were frequently highest on older restored reefs. Meanwhile, juvenile fish densities were greatest on natural reefs, at intermediate densities on older restored reefs, and least abundant on controls. When comparing the effects of reef age and landscape setting, juvenile fish densities were greatest on younger reefs within the mudflat landscape. Collectively, these results indicate that oyster reefs harbor higher densities of resident invertebrate prey, which may explain why reef habitat is also important for juvenile fish. Laboratory and field experiments supported the notion that gag grouper (a predatory demersal fish) forage more effectively on oyster reefs than on unstructured mud bottom, whereas our experiments suggest that flounders that utilize oyster reefs likely forage on adjacent mud bottom. Because landscape setting influenced fish and invertebrate communities on restored reefs, the ecological consequences of landscape setting should be incorporated into restoration decision making and site selection to enhance the recovery of ecosystem goods and services

Local and regional stressors interact to drive a salinization-induced outbreak of predators on oyster reefs

Predator outbreaks are predicted to increasingly decimate economically and ecologically important prey populations because global climate change and food-web modifications frequently facilitate predators and stress prey. Natural systems are organized hierarchically, with processes operating at multiple scales giving rise to patterns of biodiversity, so predicting and managing outbreaks requires a framework that accounts for the effects of both local and regional stressors. Here, we used the comparative experimental approach to investigate whether the collapse of a nationally important oyster fishery in the Gulf of Mexico (Apalachicola Bay, Florida) could have been (1) caused proximally by a predator outbreak and (2) whether this outbreak was mediated by local-and/or regional-scale forces. During the fishery collapse, we paired experiments with monitoring in Apalachicola Bay and found elevated water salinity, high abundance of predatory snails, and intense oyster mortality due to predation. By repeating these experiments over 4 yr, we found that periods of reduced water salinity inhibited predation on oysters. To partition the influence of local-versus-regional factors on this predator outbreak, we simultaneously replicated the paired experiments and monitoring in a nearby bay (Ochlockonee Bay) that shares the same regional-scale rainfall conditions. Increasing freshwater withdrawals from the watershed that drains into Apalachicola Bay have increased salinities in that bay, but there have not been similar withdrawals in the Ochlockonee Bay watershed. Therefore, Apalachicola Bay experienced a localized anthropogenic stress, while both bays experienced regional stress from drought. In Ochlockonee Bay, our experiments demonstrated that the river maintained sufficiently low salinity to provide similar to 50% of oyster reefs with a refuge from predation. In contrast, salinity-dependent predation in Apalachicola Bay extended up to the river mouth. Given the stark differences in upstream water withdrawals between these watersheds, it is reasonable to surmise that these withdrawals exacerbated the stress of regional drought, created the difference in predation between the two bays, and thus may have precipitated the oyster fishery collapse. Our study provides empirical support for recent theory about the hierarchical organization of ecosystems, which predicts that stressors will interact across scales to cause localized predator outbreaks

Interaction among apoptosis-associated sequence variants and joint effects on aggressive prostate cancer

<p>Abstract</p> <p>Background</p> <p>Molecular and epidemiological evidence demonstrate that altered gene expression and single nucleotide polymorphisms in the apoptotic pathway are linked to many cancers. Yet, few studies emphasize the interaction of variant apoptotic genes and their joint modifying effects on prostate cancer (PCA) outcomes. An exhaustive assessment of all the possible two-, three- and four-way gene-gene interactions is computationally burdensome. This statistical conundrum stems from the prohibitive amount of data needed to account for multiple hypothesis testing.</p> <p>Methods</p> <p>To address this issue, we systematically prioritized and evaluated individual effects and complex interactions among 172 apoptotic SNPs in relation to PCA risk and aggressive disease (i.e., Gleason score ≥ 7 and tumor stages III/IV). Single and joint modifying effects on PCA outcomes among European-American men were analyzed using statistical epistasis networks coupled with multi-factor dimensionality reduction (SEN-guided MDR). The case-control study design included 1,175 incident PCA cases and 1,111 controls from the prostate, lung, colo-rectal, and ovarian (PLCO) cancer screening trial. Moreover, a subset analysis of PCA cases consisted of 688 aggressive and 488 non-aggressive PCA cases. SNP profiles were obtained using the NCI Cancer Genetic Markers of Susceptibility (CGEMS) data portal. Main effects were assessed using logistic regression (LR) models. Prior to modeling interactions, SEN was used to pre-process our genetic data. SEN used network science to reduce our analysis from > 36 million to < 13,000 SNP interactions. Interactions were visualized, evaluated, and validated using entropy-based MDR. All parametric and non-parametric models were adjusted for age, family history of PCA, and multiple hypothesis testing.</p> <p>Results</p> <p>Following LR modeling, eleven and thirteen sequence variants were associated with PCA risk and aggressive disease, respectively. However, none of these markers remained significant after we adjusted for multiple comparisons. Nevertheless, we detected a modest synergistic interaction between <it>AKT3 rs2125230-PRKCQ rs571715 </it>and disease aggressiveness using SEN-guided MDR (p = 0.011).</p> <p>Conclusions</p> <p>In summary, entropy-based SEN-guided MDR facilitated the logical prioritization and evaluation of apoptotic SNPs in relation to aggressive PCA. The suggestive interaction between <it>AKT3-PRKCQ </it>and aggressive PCA requires further validation using independent observational studies.</p

Evolutionary History, Predation, and Coastal Upwelling Interactively Influence Native Oyster Habitat in Tomales Bay, California

Certain structurally complex species such as corals and trees can create habitat that provides the foundation upon which ecological communities are built. Thus, understanding the biotic and abiotic limits of these “foundation species” may provide a means for conserving biodiversity and key ecosystem functions. For my dissertation, I studied native oyster habitat (Ostrea lurida) in Tomales Bay, CA, which acts as a foundation species by increasing community species richness and densities. Much of this habitat, however, has been depleted in areas where native crabs and whelks have been replaced by invasive crabs and whelks (Chapter 1). This work shows that in many cases invaders lack a shared evolutionary history and do not recognize each other as predator and prey. Therefore, predator-prey interactions like trophic cascades that normally benefit oysters have been short-circuited. Underlying these potentially important “top- down controls” is a spatial gradient in phytoplankton abundance that is tied to coastal upwelling (Chapter 2). During the summer-upwelling months, the lack of fresh water flowing into the estuary allows the daily pumping of water with each high and low tide (i.e., tidal excursion) to lengthen water residence times as distance from the ocean increases. The tidal excursion’s exchange with coastal waters creates a gradient of coastal nutrients that interacts with water residence times to promote consistent phytoplankton blooms in the middle portion of the estuary. These food subsidies influence oyster habitat from the “bottom-up” by allowing juvenile oysters to grow faster in the middle-bay region when compared to oysters in the outer- and inner-bay regions. In addition to phytoplankton, recruitment of oyster larvae is another important bottom-up control (Chapter 3). But the 4-6 week planktonic stage of these larvae allows them to accumulate in the inner bay where residence times are higher. Because high abundances of recruitment and phytoplankton are decoupled in space and because recruitment is inconsistent, the top-down and bottom-up controls identified in this system interact differently over time. These interactions then create temporally varying gradients of oyster density and size that cannot be understood without simultaneously considering the effects and underlying mechanisms of mortality, growth, and recruitment

Appendix D. Model selection summary for analysis of snail survivorship.

Model selection summary for analysis of snail survivorship

Appendix C. Model selection summary for analysis of snail behavior.

Model selection summary for analysis of snail behavior