David J. Yurkowski

Fast fitting of non‐Gaussian state‐space models to animal movement data via Template Model Builder

State-space models (SSM) are often used for analyzing complex ecological processes that are not observed directly, such as marine animal movement. When outliers are present in the measurements, special care is needed in the analysis to obtain reliable location and process estimates. Here we recommend using the Laplace approximation combined with automatic differentiation (as implemented in the novel R package Template Model Builder; TMB) for the fast fitting of continuous-time multivariate non-Gaussian SSMs. Through Argos satellite tracking data, we demonstrate that the use of continuous-time t-distributed measurement errors for error-prone data is more robust to outliers and improves the location estimation compared to using discretized-time t-distributed errors (implemented with a Gibbs sampler) or using continuous-time Gaussian errors (as with the Kalman filter). Using TMB, we are able to estimate additional parameters compared to previous methods, all without requiring a substantial increase in computational time. The model implementation is made available through the R package argosTrack.

H-Print: a new chemical fingerprinting approach for distinguishing primary production sources in Arctic ecosystems

The unambiguous identification of discrete sources of organic matter is critical for understanding the processes that affect ecosystem structure. Here, we demonstrate how changes in the relative proportions of highly branched isoprenoid lipids can provide a straightforward analytical method to distinguish between organic matter derived from sea ice and seawater within an Arctic ecosystem. In combination with stable isotope analysis, we reconstruct the organic matter pathway across trophic levels, thereby elucidating specific organic matter energy transfers. Combined, these methods will provide a useful analytical approach for determining ecosystem structure in the future. This is likely to become increasingly important as the Arctic continues to experience a phase of rapid climate change.

Latitudinal variation in ecological opportunity and intraspecific competition indicates differences in niche variability and diet specialization of Arctic marine predators

Abstract Individual specialization (IS), where individuals within populations irrespective of age, sex, and body size are either specialized or generalized in terms of resource use, has implications on ecological niches and food web structure. Niche size and degree of IS of near‐top trophic‐level marine predators have been little studied in polar regions or with latitude. We quantified the large‐scale latitudinal variation of population‐ and individual‐level niche size and IS in ringed seals (Pusa hispida) and beluga whales (Delphinapterus leucas) using stable carbon and nitrogen isotope analysis on 379 paired ringed seal liver and muscle samples and 124 paired beluga skin and muscle samples from eight locations ranging from the low to high Arctic. We characterized both within‐ and between‐individual variation in predator niche size at each location as well as accounting for spatial differences in the isotopic ranges of potential prey. Total isotopic niche width (TINW) for populations of ringed seals and beluga decreased with increasing latitude. Higher TINW values were associated with greater ecological opportunity (i.e., prey diversity) in the prey fish community which mainly consists of Capelin (Mallotus villosus) and Sand lance (Ammodytes sp.) at lower latitudes and Arctic cod (Boreogadus saida) at high latitudes. In beluga, their dietary consistency between tissues also known as the within‐individual component (WIC) increased in a near 1:1 ratio with TINW (slope = 0.84), suggesting dietary generalization, whereas the slope (0.18) of WIC relative to TINW in ringed seals indicated a high degree of individual specialization in ringed seal populations with higher TINWs. Our findings highlight the differences in TINW and level of IS for ringed seals and beluga relative to latitude as a likely response to large‐scale spatial variation in ecological opportunity, suggesting species‐specific variation in dietary plasticity to spatial differences in prey resources and environmental conditions in a rapidly changing ecosystem.

Conservation of reef manta rays (Manta alfredi) in a UNESCO World Heritage Site : large-scale island development or sustainable tourism?

A large reef manta ray (Manta alfredi) aggregation has been observed off the north Sudanese Red Sea coast since the 1950s. Sightings have been predominantly within the boundaries of a marine protected area (MPA), which was designated a UNESCO World Heritage Site in July 2016. Contrasting economic development trajectories have been proposed for the area (small-scale ecotourism and large-scale island development). To examine space-use, Wildlife Computers® SPOT 5 tags were secured to three manta rays. A two-state switching Bayesian state space model (BSSM), that allowed movement parameters to switch between resident and travelling, was fit to the recorded locations, and 50% and 95% kernel utilization distributions (KUD) home ranges calculated. A total of 682 BSSM locations were recorded between 30 October 2012 and 6 November 2013. Of these, 98.5% fell within the MPA boundaries; 99.5% for manta 1, 91.5% for manta 2, and 100% for manta 3. The BSSM identified that all three mantas were resident during 99% of transmissions, with 50% and 95% KUD home ranges falling mainly within the MPA boundaries. For all three mantas combined (88.4%), and all individuals (manta 1–92.4%, manta 2–64.9%, manta 3–91.9%), the majority of locations occurred within 15 km of the proposed large-scale island development. Results indicated that the MPA boundaries are spatially appropriate for manta rays in the region, however, a close association to the proposed large-scale development highlights the potential threat of disruption. Conversely, the focused nature of spatial use highlights the potential for reliable ecotourism opportunities.

Validating fin tissue as a non-lethal proxy to liver and muscle tissue for stable isotope analysis of yellow perch (Perca flavescens)

ABSTRACT Stable isotope ecology typically involves sacrificing the animal to obtain tissues. However, with threatened species or in long-term longitudinal studies, non-lethal sampling techniques should be used. The objectives of this study were to (1) determine if caudal fin tissue could be used as a non-lethal proxy to liver and muscle for stable isotope analysis, and (2) assess the effects of ethanol preservation on δ15N and δ13C in fin tissue of juvenile yellow perch Perca flavescens. The δ13C of caudal fin was not significantly different from liver (t23 = −0.58; p = 0.57), and was more correlated with δ15N in liver (r2 = 0.78) than muscle (r2 = 0.56). Ethanol preservation enriched 15N and 13C for caudal fins, but by using our developed regression models, these changes in δ15N and δ13C can now be corrected. Overall, caudal fin tissue is a more reliable proxy to liver than muscle for δ15N and δ13C in yellow perch.

Supplementary material from "Temporal shifts in intraguild predation pressure between beluga whales and Greenland halibut in a changing Arctic"

Asymmetrical intraguild predation (AIGP), which combines both predation and competition between predator species, is pervasive in nature with relative strengths varying by prey availability. But with species redistributions associated with climate change, the response by endemic predators within an AIGP context to changing biotic–abiotic conditions over time (i.e. seasonal and decadal) has yet to be quantified. Furthermore, little is known on AIGP dynamics in ecosystems undergoing rapid directional change such as the Arctic. Here, we investigate the flexibility of AIGP among two predators in the same trophic guild: beluga ( Delphinapterus leucas ) and Greenland halibut ( Reinhardtius hippoglossoides ), by season and over 30-years in Cumberland Sound—a system where forage fish capelin ( Mallotus villosus ) have recently become more available. Using stable isotopes, we illustrate different predator responses to temporal shifts in forage fish availability. On a seasonal cycle, beluga consumed less Greenland halibut and increased consumption of forage fish during summer, contrasting a constant consumption rate of forage fish by Greenland halibut year-round leading to decreased AIGP pressure between predators. Over a decadal scale (1982–2012), annual consumption of forage fish by beluga increased with a concomitant decline in the consumption of Greenland halibut, thereby indicating decreased AIGP pressure between predators in concordance with increased forage fish availability. The long-term changes of AIGP pressure between endemic predators illustrated here highlights climate-driven environmental alterations to interspecific intraguild interactions in the Arctic.