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Diaz Gomez M, Rosen DA, Trites AW. Net energy gained by northern fur seals (Callorhinus ursinus) is impacted more by diet quality than by diet diversity. CAN J ZOOL 2016. [DOI: 10.1139/cjz-2015-0143] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Understanding whether northern fur seals (Callorhinus ursinus (L., 1758)) are negatively affected by changes in prey quality or diversity could provide insights into their on-going population decline in the central Bering Sea. We investigated how six captive female fur seals assimilated energy from eight different diets consisting of four prey species (walleye pollock (Gadus chalcogrammus Pallas, 1814, formerly Theragra chalcogrammus (Pallas, 1814)), Pacific herring (Clupea pallasii Valenciennes in Cuvier and Valenciennes, 1847), capelin (Mallotus villosus (Müller, 1776)), and magister armhook squid (Berryteuthis magister (Berry, 1913))) fed alone or in combination. Net energy was quantified by measuring fecal energy loss, urinary energy loss, and heat increment of feeding. Digestible energy (95.9%–96.7%) was high (reflecting low fecal energy loss) and was negatively affected by ingested mass and dietary protein content. Urinary energy loss (9.3%–26.7%) increased significantly for high-protein diets. Heat increment of feeding (4.3%–12.4%) was significantly lower for high-lipid diets. Overall, net energy gain (57.9%–83.0%) was affected by lipid content and varied significantly across diets. Mixed-species diets did not provide any energetic benefit over single-species diets. Our study demonstrates that diet quality was more important in terms of energy gain than diet diversity. These findings suggest that fur seals consuming low-quality prey in the Bering Sea would be more challenged to obtain sufficient energy to satisfy energetic and metabolic demands, independent of high prey abundance.
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Thomas AC, Deagle BE, Eveson JP, Harsch CH, Trites AW. Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material. Mol Ecol Resour 2015; 16:714-26. [DOI: 10.1111/1755-0998.12490] [Citation(s) in RCA: 147] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2015] [Revised: 11/12/2015] [Accepted: 11/17/2015] [Indexed: 11/26/2022]
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Goundie ET, Rosen DAS, Trites AW. Dive behaviour can predict metabolic expenditure in Steller sea lions. CONSERVATION PHYSIOLOGY 2015; 3:cov052. [PMID: 27293736 PMCID: PMC4778462 DOI: 10.1093/conphys/cov052] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Revised: 10/14/2015] [Accepted: 10/27/2015] [Indexed: 06/06/2023]
Abstract
Quantification of costs associated with foraging contributes to understanding the energetic impact that changes in prey availability have on the energy balance of an animal and the fitness of populations. However, estimating the costs of foraging is difficult for breath-hold divers, such as Steller sea lions, that feed underwater. We developed models parameterized with data from free-diving captive Steller sea lions to estimate the costs incurred by wild animals while foraging. We measured diving metabolic rate of trained sea lions performing four types of dives to 10 and 40 m in the open ocean and estimated the separate costs of different dive components: surface time; bottom time; and transiting to and from depth. We found that the sea lions' diving metabolic rates were higher while transiting (20.5 ± 13.0 ml O2 min(-1) kg(-1)) than while swimming at depth (13.5 ± 4.1 ml O2 min(-1) kg(-1)), and both were higher than metabolism at the surface (9.2 ± 1.6 ml O2 min(-1) kg(-1)). These values were incorporated into an energetic model that accurately predicted oxygen consumption for dives only (within 9.5%) and dive cycles (within 7.7%), although it consistently overestimated costs by 5.9% for dives and 21.8% for dive cycles. Differences in the costs of individual components of dives also explained differences in the efficiency of different dive strategies. Single dives were energetically less costly than bout dives; however, sea lions were more efficient at replenishing oxygen stores after bout dives and could therefore spend a greater portion of their time foraging than when undertaking single dives. The metabolic rates we measured for the different behavioural components of diving can be applied to time-depth recordings from wild Steller sea lions to estimate the energy expended while foraging. In turn, this can be used to understand how changes in prey availability affect energy balance and the health of individuals in declining populations.
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Volpov BL, Rosen DAS, Trites AW, Arnould JPY. Validating the relationship between 3-dimensional body acceleration and oxygen consumption in trained Steller sea lions. J Comp Physiol B 2015; 185:695-708. [PMID: 26002519 DOI: 10.1007/s00360-015-0911-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2014] [Revised: 05/01/2015] [Accepted: 05/08/2015] [Indexed: 11/27/2022]
Abstract
We tested the ability of overall dynamic body acceleration (ODBA) to predict the rate of oxygen consumption ([Formula: see text]) in freely diving Steller sea lions (Eumetopias jubatus) while resting at the surface and diving. The trained sea lions executed three dive types-single dives, bouts of multiple long dives with 4-6 dives per bout, or bouts of multiple short dives with 10-12 dives per bout-to depths of 40 m, resulting in a range of activity and oxygen consumption levels. Average metabolic rate (AMR) over the dive cycle or dive bout calculated was calculated from [Formula: see text]. We found that ODBA could statistically predict AMR when data from all dive types were combined, but that dive type was a significant model factor. However, there were no significant linear relationships between AMR and ODBA when data for each dive type were analyzed separately. The potential relationships between AMR and ODBA were not improved by including dive duration, food consumed, proportion of dive cycle spent submerged, or number of dives per bout. It is not clear whether the lack of predictive power within dive type was due to low statistical power, or whether it reflected a true absence of a relationship between ODBA and AMR. The average percent error for predicting AMR from ODBA was 7-11 %, and standard error of the estimated AMR was 5-32 %. Overall, the extensive range of dive behaviors and physiological conditions we tested indicated that ODBA was not suitable for estimating AMR in the field due to considerable error and the inconclusive effects of dive type.
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Hui TCY, Gryba R, Gregr EJ, Trites AW. Assessment of Competition between Fisheries and Steller Sea Lions in Alaska Based on Estimated Prey Biomass, Fisheries Removals and Predator Foraging Behaviour. PLoS One 2015; 10:e0123786. [PMID: 25950178 PMCID: PMC4424003 DOI: 10.1371/journal.pone.0123786] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2014] [Accepted: 03/08/2015] [Indexed: 11/18/2022] Open
Abstract
A leading hypothesis to explain the dramatic decline of Steller sea lions (Eumetopias jubatus) in western Alaska during the latter part of the 20th century is a change in prey availability due to commercial fisheries. We tested this hypothesis by exploring the relationships between sea lion population trends, fishery catches, and the prey biomass accessible to sea lions around 33 rookeries between 2000 and 2008. We focused on three commercially important species that have dominated the sea lion diet during the population decline: walleye pollock, Pacific cod and Atka mackerel. We estimated available prey biomass by removing fishery catches from predicted prey biomass distributions in the Aleutian Islands, Bering Sea and Gulf of Alaska; and modelled the likelihood of sea lions foraging at different distances from rookeries (accessibility) using satellite telemetry locations of tracked animals. We combined this accessibility model with the prey distributions to estimate the prey biomass accessible to sea lions by rookery. For each rookery, we compared sea lion population change to accessible prey biomass. Of 304 comparisons, we found 3 statistically significant relationships, all suggesting that sea lion populations increased with increasing prey accessibility. Given that the majority of comparisons showed no significant effect, it seems unlikely that the availability of pollock, cod or Atka mackerel was limiting sea lion populations in the 2000s.
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Joy R, Dowd MG, Battaile BC, Lestenkof PM, Sterling JT, Trites AW, Routledge RD. Linking northern fur seal dive behavior to environmental variables in the eastern Bering Sea. Ecosphere 2015. [DOI: 10.1890/es14-00314.1] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Battaile BC, Sakamoto KQ, Nordstrom CA, Rosen DAS, Trites AW. Accelerometers identify new behaviors and show little difference in the activity budgets of lactating northern fur seals (Callorhinus ursinus) between breeding islands and foraging habitats in the eastern Bering Sea. PLoS One 2015; 10:e0118761. [PMID: 25807552 PMCID: PMC4373933 DOI: 10.1371/journal.pone.0118761] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2013] [Accepted: 01/23/2015] [Indexed: 11/18/2022] Open
Abstract
We tagged 82 lactating northern fur seals (Callorhinus ursinus) with tri-axial accelerometers and magnetometers on two eastern Bering Sea islands (Bogoslof and St. Paul) with contrasting population trajectories. Using depth data, accelerometer data and spectral analysis we classified time spent diving (30%), resting (~7%), shaking and grooming their pelage (9%), swimming in the prone position (~10%) and two types of previously undocumented rolling behavior (29%), with the remaining time (~15%) unspecified. The reason for the extensive rolling behavior is not known. We ground-truthed the accelerometry signals for shaking and grooming and rolling behaviors—and identified the acceleration signal for porpoising—by filming tagged northern fur seals in captivity. Speeds from GPS interpolated data indicated that animals traveled fastest while in the prone position, suggesting that this behavior is indicative of destination-based swimming. Very little difference was found in the percentages of time spent in the categorical behaviors with respect to breeding islands (Bogoslof or St. Paul Island), forager type (cathemeral or nocturnal), and the region where the animals foraged (primarily on-shelf <200m, or off-shelf > 200m). The lack of significant differences between islands, regions and forager type may indicate that behaviors summarized over a trip are somewhat hardwired even though foraging trip length and when and where animals dive are known to vary with island, forager type and region.
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Spitz J, Becquet V, Rosen DAS, Trites AW. A nutrigenomic approach to detect nutritional stress from gene expression in blood samples drawn from Steller sea lions. Comp Biochem Physiol A Mol Integr Physiol 2015; 187:214-23. [PMID: 25700740 DOI: 10.1016/j.cbpa.2015.02.006] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2014] [Revised: 02/04/2015] [Accepted: 02/08/2015] [Indexed: 02/07/2023]
Abstract
Gene expression profiles are increasingly being used as biomarkers to detect the physiological responses of a number of species to disease, nutrition, and other stressors. However, little attention has been given to using gene expression to assess the stressors and physiological status of marine mammals. We sought to develop and validate a nutrigenomic approach to quantify nutritional stress in Steller sea lions (Eumetopias jubatus). We subjected 4 female Steller sea lions to 3 feeding regimes over 70-day trials (unrestricted food intake, acute nutritional stress, and chronic nutritional stress), and drew blood samples from each animal at the end of each feeding regime. We then extracted the RNA of white blood cells and measured the response of 8 genes known to react to diet restriction in terrestrial mammals. Overall, we found that the genomic response of Steller sea lions experiencing nutritional stress was consistent with how terrestrial mammals respond to dietary restrictions. Our nutritionally stressed sea lions down-regulated some cellular processes involved in immune response and oxidative stress, and up-regulated pro-inflammatory responses and metabolic processes. Nutrigenomics appears to be a promising means to monitor nutritional status and contribute to mitigation measures needed to assist in the recovery of Steller sea lions and other at-risk species of marine mammals.
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Marshall CD, Rosen D, Trites AW. Feeding kinematics and performance of basal otariid pinnipeds, Steller sea lions (Eumetopias jubatus), and northern fur seals (Callorhinus ursinus): implications for the evolution of mammalian feeding. J Exp Biol 2015; 218:3229-40. [DOI: 10.1242/jeb.126573] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2015] [Accepted: 08/18/2015] [Indexed: 12/16/2022]
Abstract
Feeding performance studies can address questions relevant to feeding ecology and evolution. Our current understanding of feeding mechanisms for aquatic mammals is poor. Therefore, we characterized the feeding kinematics and performance of 5 Steller sea lions (Eumetopias jubatus) and 6 northern fur seals (Callorhinus ursinus). We tested the hypotheses that both species use suction as their primary feeding mode, and that rapid jaw opening was related to suction generation. Steller sea lions used suction as their primary feeding mode, but also used a biting feeding mode. In contrast, Northern fur seals only used a biting feeding mode. Kinematic profiles of Steller sea lions were all indicative of suction feeding (i.e., a small gape, small gape angle, large depression of the hyolingual apparatus and lip pursing). However, jaw opening as measured by Gape Angle Opening Velocity (GAOV) was relatively slow in Steller sea lions. In contrast to Steller sea lions, the GAOV of Northern fur seals was extremely fast, but their kinematic profiles indicated a biting feeding mode (i.e., northern fur seals exhibited a greater gape, a greater gape angle, and minimal depression of the hyolingual apparatus compared to Steller sea lions). Steller sea lions produced both subambient and suprambient pressures at 45 kPa, respectively. In contrast, northern fur seals produced no detectable pressure measurements. Steller sea lions have a broader feeding repertoire than northern fur seals, which likely enables them to feed on a greater variety of prey, in more diverse habitats. Based on the basal phylogenetic position of northern fur seals, craniodental morphological data of the Callorhinus lineage, and the performance data provided in this study, we suggest that a northern fur seals may be exhibiting their ancestral feeding mode.
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Fahlman A, Loring SH, Johnson SP, Haulena M, Trites AW, Fravel VA, Van Bonn WG. Inflation and deflation pressure-volume loops in anesthetized pinnipeds confirms compliant chest and lungs. Front Physiol 2014; 5:433. [PMID: 25426080 PMCID: PMC4226140 DOI: 10.3389/fphys.2014.00433] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2014] [Accepted: 10/22/2014] [Indexed: 11/13/2022] Open
Abstract
We examined structural properties of the marine mammal respiratory system, and tested Scholander's hypothesis that the chest is highly compliant by measuring the mechanical properties of the respiratory system in five species of pinniped under anesthesia (Pacific harbor seal, Phoca vitulina; northern elephant seal, Mirounga angustirostris; northern fur seal Callorhinus ursinus; California sea lion, Zalophus californianus; and Steller sea lion, Eumetopias jubatus). We found that the chest wall compliance (CCW) of all five species was greater than lung compliance (airways and alveoli, CL) as predicted by Scholander, which suggests that the chest provides little protection against alveolar collapse or lung squeeze. We also found that specific respiratory compliance was significantly greater in wild animals than in animals raised in an aquatic facility. While differences in ages between the two groups may affect this incidental finding, it is also possible that lung conditioning in free-living animals may increase pulmonary compliance and reduce the risk of lung squeeze during diving. Overall, our data indicate that compliance of excised pinniped lungs provide a good estimate of total respiratory compliance.
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Suzuki I, Sato K, Fahlman A, Naito Y, Miyazaki N, Trites AW. Drag, but not buoyancy, affects swim speed in captive Steller sea lions. Biol Open 2014; 3:379-86. [PMID: 24771620 PMCID: PMC4021360 DOI: 10.1242/bio.20146130] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
Abstract
Swimming at an optimal speed is critical for breath-hold divers seeking to maximize the time they can spend foraging underwater. Theoretical studies have predicted that the optimal swim speed for an animal while transiting to and from depth is independent of buoyancy, but is dependent on drag and metabolic rate. However, this prediction has never been experimentally tested. Our study assessed the effects of buoyancy and drag on the swim speed of three captive Steller sea lions (Eumetopias jubatus) that made 186 dives. Our study animals were trained to dive to feed at fixed depths (10–50 m) under artificially controlled buoyancy and drag conditions. Buoyancy and drag were manipulated using a pair of polyvinyl chloride (PVC) tubes attached to harnesses worn by the sea lions, and buoyancy conditions were designed to fall within the natural range of wild animals (∼12–26% subcutaneous fat). Drag conditions were changed with and without the PVC tubes, and swim speeds were recorded and compared during descent and ascent phases using an accelerometer attached to the harnesses. Generalized linear mixed-effect models with the animal as the random variable and five explanatory variables (body mass, buoyancy, dive depth, dive phase, and drag) showed that swim speed was best predicted by two variables, drag and dive phase (AIC = −139). Consistent with a previous theoretical prediction, the results of our study suggest that the optimal swim speed of Steller sea lions is a function of drag, and is independent of dive depth and buoyancy.
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Gerlinsky CD, Rosen DAS, Trites AW. Sensitivity to hypercapnia and elimination of CO2 following diving in Steller sea lions (Eumetopias jubatus). J Comp Physiol B 2014; 184:535-44. [PMID: 24604293 DOI: 10.1007/s00360-014-0819-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2013] [Revised: 02/05/2014] [Accepted: 02/14/2014] [Indexed: 11/28/2022]
Abstract
The diving ability of marine mammals is a function of how they use and store oxygen and the physiological control of ventilation, which is in turn dependent on the accumulation of CO2. To assess the influence of CO2 on physiological control of dive behaviour, we tested how increasing levels of inspired CO2 (hypercarbia) and decreasing inspired O2 (hypoxia) affected the diving metabolic rate, submergence times, and dive recovery times (time to replenish O2 stores and eliminate CO2) of freely diving Steller sea lions. We also measured changes in breathing frequency of diving and non-diving individuals. Our findings show that hypercarbia increased breathing frequency (as low as 2 % CO2), but did not affect metabolic rate, or the duration of dives or surface intervals (up to 3 % CO2). Changes in breathing rates indicated respiratory drive was altered by hypercarbia at rest, but blood CO2 levels remained below the threshold that would alter normal dive behaviour. It took the sea lions longer to remove accumulated CO2 than it did for them to replenish their O2 stores following dives (whether breathing ambient air, hypercarbia, or hypoxia). This difference between O2 and CO2 recovery times grew with increasing dive durations, increasing hypercarbia, and was greater for bout dives, suggesting there could be a build-up of CO2 load with repeated dives. Although we saw no evidence of CO2 limiting dive behaviour, the longer time required to remove CO2 may eventually exhibit control over the overall time they can spend in apnoea and overall foraging duration.
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Rosen DAS, Volpov BL, Trites AW. Short-term episodes of imposed fasting have a greater effect on young northern fur seals (Callorhinus ursinus) in summer than in winter. CONSERVATION PHYSIOLOGY 2014; 2:cou021. [PMID: 27293642 PMCID: PMC4732476 DOI: 10.1093/conphys/cou021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2014] [Revised: 05/05/2014] [Accepted: 05/08/2014] [Indexed: 05/11/2023]
Abstract
An unexpected shortage of food may affect wildlife in a different way depending on the time of year when it occurs. We imposed 48 h fasts on six female northern fur seals (Callorhinus ursinus; ages 6-24 months) to identify times of year when they might be particularly sensitive to interruptions in food supply. We monitored changes in their resting metabolic rates and their metabolic response to thermal challenges, and also examined potential bioenergetic causes for seasonal differences in body mass loss. The pre-fast metabolism of the fur seals while in ambient air or submerged in water at 4°C was higher during summer (June to Sepember) than winter (November to March), and submergence did not significantly increase metabolism, indicating a lack of additional thermoregulatory costs. There was no evidence of metabolic depression following the fasting periods, nor did metabolism increase during the post-fast thermal challenge, suggesting that mass loss did not negatively impact thermoregulatory capacity. However, the fur seals lost mass at greater rates while fasting during the summer months, when metabolism is normally high to facilitate faster growth rates (which would ordinarily have been supported by higher food intake levels). Our findings suggest that summer is a more critical time of year than winter for young northern fur seals to obtain adequate nutrition.
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Gerlinsky CD, Trites AW, Rosen DAS. Steller sea lions (Eumetopias jubatus) have greater blood volumes, higher diving metabolic rates and a longer aerobic dive limit when nutritionally stressed. ACTA ACUST UNITED AC 2013; 217:769-78. [PMID: 24198263 DOI: 10.1242/jeb.089599] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Marine mammal foraging behaviour inherently depends on diving ability. Declining populations of Steller sea lions may be facing nutritional stress that could affect their diving ability through changes in body composition or metabolism. Our objective was to determine whether nutritional stress (restricted food intake resulting in a 10% decrease in body mass) altered the calculated aerobic dive limit (cADL) of four captive sea lions diving in the open ocean, and how this related to changes in observed dive behaviour. We measured diving metabolic rate (DMR), blood O2 stores, body composition and dive behaviour prior to and while under nutritional restriction. We found that nutritionally stressed sea lions increased the duration of their single long dives, and the proportion of time they spent at the surface during a cycle of four dives. Nutritionally stressed sea lions lost both lipid and lean mass, resulting in potentially lower muscle O2 stores. However, total body O2 stores increased due to rises in blood O2 stores associated with having higher blood volumes. Nutritionally stressed sea lions also had higher mass-specific metabolic rates. The greater rise in O2 stores relative to the increase in mass-specific DMR resulted in the sea lions having a longer cADL when nutritionally stressed. We conclude that there was no negative effect of nutritional stress on the diving ability of sea lions. However, nutritional stress did lower foraging efficiency and require more foraging time to meet energy requirements due to increases in diving metabolic rates and surface recovery times.
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Thomas AC, Jarman SN, Haman KH, Trites AW, Deagle BE. Improving accuracy of DNA diet estimates using food tissue control materials and an evaluation of proxies for digestion bias. Mol Ecol 2013; 23:3706-18. [PMID: 24102760 DOI: 10.1111/mec.12523] [Citation(s) in RCA: 86] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2013] [Revised: 08/30/2013] [Accepted: 09/09/2013] [Indexed: 11/30/2022]
Abstract
Ecologists are increasingly interested in quantifying consumer diets based on food DNA in dietary samples and high-throughput sequencing of marker genes. It is tempting to assume that food DNA sequence proportions recovered from diet samples are representative of consumer's diet proportions, despite the fact that captive feeding studies do not support that assumption. Here, we examine the idea of sequencing control materials of known composition along with dietary samples in order to correct for technical biases introduced during amplicon sequencing and biological biases such as variable gene copy number. Using the Ion Torrent PGM(©) , we sequenced prey DNA amplified from scats of captive harbour seals (Phoca vitulina) fed a constant diet including three fish species in known proportions. Alongside, we sequenced a prey tissue mix matching the seals' diet to generate tissue correction factors (TCFs). TCFs improved the diet estimates (based on sequence proportions) for all species and reduced the average estimate error from 28 ± 15% (uncorrected) to 14 ± 9% (TCF-corrected). The experimental design also allowed us to infer the magnitude of prey-specific digestion biases and calculate digestion correction factors (DCFs). The DCFs were compared with possible proxies for differential digestion (e.g. fish protein%, fish lipid%) revealing a strong relationship between the DCFs and percent lipid of the fish prey, suggesting prey-specific corrections based on lipid content would produce accurate diet estimates in this study system. These findings demonstrate the value of parallel sequencing of food tissue mixtures in diet studies and offer new directions for future research in quantitative DNA diet analysis.
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Robertson FC, Koski WR, Thomas TA, Richardson WJ, Würsig B, Trites AW. Seismic operations have variable effects on dive-cycle behavior of bowhead whales in the Beaufort Sea. ENDANGER SPECIES RES 2013. [DOI: 10.3354/esr00515] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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Jemison LA, Pendleton GW, Fritz LW, Hastings KK, Maniscalco JM, Trites AW, Gelatt TS. Inter-population movements of steller sea lions in Alaska with implications for population separation. PLoS One 2013; 8:e70167. [PMID: 23940543 PMCID: PMC3734025 DOI: 10.1371/journal.pone.0070167] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2013] [Accepted: 06/15/2013] [Indexed: 11/25/2022] Open
Abstract
Genetic studies and differing population trends support the separation of Steller sea lions (Eumetopias jubatus) into a western distinct population segment (WDPS) and an eastern DPS (EDPS) with the dividing line between populations at 144° W. Despite little exchange for thousands of years, the gap between the breeding ranges narrowed during the past 15–30 years with the formation of new rookeries near the DPS boundary. We analyzed >22,000 sightings of 4,172 sea lions branded as pups in each DPS from 2000–2010 to estimate probabilities of a sea lion born in one DPS being seen within the range of the other DPS (either ‘West’ or ‘East’). Males from both populations regularly traveled across the DPS boundary; probabilities were highest at ages 2–5 and for males born in Prince William Sound and southern Southeast Alaska. The probability of WDPS females being in the East at age 5 was 0.067 but 0 for EDPS females which rarely traveled to the West. Prince William Sound-born females had high probabilities of being in the East during breeding and non-breeding seasons. We present strong evidence that WDPS females have permanently emigrated to the East, reproducing at two ‘mixing zone’ rookeries. We documented breeding bulls that traveled >6,500 km round trip from their natal rookery in southern Alaska to the northern Bering Sea and central Aleutian Islands and back within one year. WDPS animals began moving East in the 1990s, following steep population declines in the central Gulf of Alaska. Results of our study, and others documenting high survival and rapid population growth in northern Southeast Alaska suggest that conditions in this mixing zone region have been optimal for sea lions. It is unclear whether eastward movement across the DPS boundary is due to less-optimal conditions in the West or a reflection of favorable conditions in the East.
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Rechsteiner EU, Rosen DAS, Trites AW. Energy requirements of Pacific white-sided dolphins (Lagenorhynchus obliquidens) as predicted by a bioenergetic model. J Mammal 2013. [DOI: 10.1644/12-mamm-a-206.1] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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Deagle BE, Thomas AC, Shaffer AK, Trites AW, Jarman SN. Quantifying sequence proportions in a DNA-based diet study using Ion Torrent amplicon sequencing: which counts count? Mol Ecol Resour 2013; 13:620-33. [PMID: 23590207 DOI: 10.1111/1755-0998.12103] [Citation(s) in RCA: 119] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2012] [Revised: 02/26/2013] [Accepted: 03/07/2013] [Indexed: 11/28/2022]
Abstract
A goal of many environmental DNA barcoding studies is to infer quantitative information about relative abundances of different taxa based on sequence read proportions generated by high-throughput sequencing. However, potential biases associated with this approach are only beginning to be examined. We sequenced DNA amplified from faeces (scats) of captive harbour seals (Phoca vitulina) to investigate whether sequence counts could be used to quantify the seals' diet. Seals were fed fish in fixed proportions, a chordate-specific mitochondrial 16S marker was amplified from scat DNA and amplicons sequenced using an Ion Torrent PGM™. For a given set of bioinformatic parameters, there was generally low variability between scat samples in proportions of prey species sequences recovered. However, proportions varied substantially depending on sequencing direction, level of quality filtering (due to differences in sequence quality between species) and minimum read length considered. Short primer tags used to identify individual samples also influenced species proportions. In addition, there were complex interactions between factors; for example, the effect of quality filtering was influenced by the primer tag and sequencing direction. Resequencing of a subset of samples revealed some, but not all, biases were consistent between runs. Less stringent data filtering (based on quality scores or read length) generally produced more consistent proportional data, but overall proportions of sequences were very different than dietary mass proportions, indicating additional technical or biological biases are present. Our findings highlight that quantitative interpretations of sequence proportions generated via high-throughput sequencing will require careful experimental design and thoughtful data analysis.
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Benoit-Bird KJ, Battaile BC, Heppell SA, Hoover B, Irons D, Jones N, Kuletz KJ, Nordstrom CA, Paredes R, Suryan RM, Waluk CM, Trites AW. Prey patch patterns predict habitat use by top marine predators with diverse foraging strategies. PLoS One 2013; 8:e53348. [PMID: 23301063 PMCID: PMC3536749 DOI: 10.1371/journal.pone.0053348] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2012] [Accepted: 11/27/2012] [Indexed: 11/18/2022] Open
Abstract
Spatial coherence between predators and prey has rarely been observed in pelagic marine ecosystems. We used measures of the environment, prey abundance, prey quality, and prey distribution to explain the observed distributions of three co-occurring predator species breeding on islands in the southeastern Bering Sea: black-legged kittiwakes (Rissa tridactyla), thick-billed murres (Uria lomvia), and northern fur seals (Callorhinus ursinus). Predictions of statistical models were tested using movement patterns obtained from satellite-tracked individual animals. With the most commonly used measures to quantify prey distributions - areal biomass, density, and numerical abundance - we were unable to find a spatial relationship between predators and their prey. We instead found that habitat use by all three predators was predicted most strongly by prey patch characteristics such as depth and local density within spatial aggregations. Additional prey patch characteristics and physical habitat also contributed significantly to characterizing predator patterns. Our results indicate that the small-scale prey patch characteristics are critical to how predators perceive the quality of their food supply and the mechanisms they use to exploit it, regardless of time of day, sampling year, or source colony. The three focal predator species had different constraints and employed different foraging strategies – a shallow diver that makes trips of moderate distance (kittiwakes), a deep diver that makes trip of short distances (murres), and a deep diver that makes extensive trips (fur seals). However, all three were similarly linked by patchiness of prey rather than by the distribution of overall biomass. This supports the hypothesis that patchiness may be critical for understanding predator-prey relationships in pelagic marine systems more generally.
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Fortune SME, Trites AW, Perryman WL, Moore MJ, Pettis HM, Lynn MS. Growth and rapid early development of North Atlantic right whales (Eubalaena glacialis). J Mammal 2012. [DOI: 10.1644/11-mamm-a-297.1] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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Walker KA, Trites AW, Haulena M, Weary DM. A review of the effects of different marking and tagging techniques on marine mammals. WILDLIFE RESEARCH 2012. [DOI: 10.1071/wr10177] [Citation(s) in RCA: 83] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Wildlife research often requires marking and tagging animals to collect data on survival, reproduction, movement, behaviour and physiology. Identification of individual marine mammals can be carried out using tags, brands, paint, dye, photogrammetry, telemetry and other techniques. An analysis of peer-reviewed articles published from January 1980 to April 2011 addressing the effects of marking revealed a preponderance of studies focussed on short-term effects such as injuries and behavioural changes. Some marking techniques were reported to cause pain and to change swimming and haul-out behaviour, maternal attendance, and duration of foraging trips. However, marking has typically not been found to affect survival. No published research has addressed other possible long-term effects of marking related to injuries or pain responses. Studies of the more immediate effects of marking (mostly related to externally attached devices such as radio-transmitters) have shown a variety of different types and magnitudes of responses. It is important to note that studies failing to find treament differences are less likely to be published, meaning that the present and any other reviews based on published literature may be a biased sample of all research conducted on the topic. Publishing results that found no or low impacts (i.e. best practices) as well as those that found significant impacts on animals should both be encouraged. Future research under more controlled conditions is required to document acute effects of marking, including injury and pain, and to better understand longer-term effects on health, reproduction and survival. We recommend that studies using marked animals standardise their reports, with added detail on methodology, monitoring and sampling design, and address practices used to minimise the impact of marking on marine mammals.
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Young BL, Rosen DAS, Hindle AG, Haulena M, Trites AW. Dive behaviour impacts the ability of heart rate to predict oxygen consumption in Steller sea lions (Eumetopias jubatus) foraging at depth. ACTA ACUST UNITED AC 2011; 214:2267-75. [PMID: 21653820 DOI: 10.1242/jeb.047340] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
The predictive relationship between heart rate (f(H)) and oxygen consumption (VO2) has been derived for several species of marine mammals swimming horizontally or diving in tanks to shallow depths. However, it is unclear how dive activity affects the f(H):VO2 relationship and whether the existing equations apply to animals diving to deeper depths. We investigated these questions by simultaneously measuring the f(H) and VO2 of Steller sea lions (Eumetopias jubatus) under different activity states (surface resting or diving), types of dives (single dives or dive bouts), and depths (10 or 40 m). We examined the relationship over dives only and also over dive cycles (dive + surface interval). We found that f(H) could only predict VO2 over a complete single dive cycle or dive bout cycle (i.e. surface intervals had to be included). The predictive equation derived for sea lions resting on the surface did not differ from that for single dive cycles. However, the equation derived over dive bout cycles (multiple dives + surface intervals) differed from those for single dive cycles or surface resting, with similar f(H) for multiple dive bout equations yielding higher predicted VO2 than that for single dive bout cycles (or resting). The f(H):VO2 relationships were not significantly affected by dive duration, dive depth, water temperature or cumulative food consumed under the conditions tested. Ultimately, our results demonstrate that f(H) can be used to predict activity-specific metabolic rates of diving Steller sea lions, but only over complete dive cycles that include a post-dive surface recovery period.
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Gleiss AC, Jorgensen SJ, Liebsch N, Sala JE, Norman B, Hays GC, Quintana F, Grundy E, Campagna C, Trites AW, Block BA, Wilson RP. Convergent evolution in locomotory patterns of flying and swimming animals. Nat Commun 2011; 2:352. [PMID: 21673673 DOI: 10.1038/ncomms1350] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2010] [Accepted: 05/12/2011] [Indexed: 01/09/2023] Open
Abstract
Locomotion is one of the major energetic costs faced by animals and various strategies have evolved to reduce its cost. Birds use interspersed periods of flapping and gliding to reduce the mechanical requirements of level flight while undergoing cyclical changes in flight altitude, known as undulating flight. Here we equipped free-ranging marine vertebrates with accelerometers and demonstrate that gait patterns resembling undulating flight occur in four marine vertebrate species comprising sharks and pinnipeds. Both sharks and pinnipeds display intermittent gliding interspersed with powered locomotion. We suggest, that the convergent use of similar gait patterns by distinct groups of animals points to universal physical and physiological principles that operate beyond taxonomic limits and shape common solutions to increase energetic efficiency. Energetically expensive large-scale migrations performed by many vertebrates provide common selection pressure for efficient locomotion, with potential for the convergence of locomotory strategies by a wide variety of species.
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Bowles E, Schulte PM, Tollit DJ, Deagle BE, Trites AW. Proportion of prey consumed can be determined from faecal DNA using real-time PCR. Mol Ecol Resour 2011; 11:530-40. [PMID: 21481211 DOI: 10.1111/j.1755-0998.2010.02974.x] [Citation(s) in RCA: 60] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Reconstructing the diets of pinnipeds by visually identifying prey remains recovered in faecal samples is challenging because of differences in digestion and passage rates of hard parts. Analysing the soft-matrix of faecal material using DNA-based techniques is an alternative means to identify prey species consumed, but published techniques are largely nonquantitative, which limits their usefulness for some applications. We further developed and validated a real-time PCR technique using species-specific mitochondrial DNA primers to quantify the proportion of prey in the diets of Steller sea lions (Eumetopias jubatus), a pinniped species thought to be facing significant diet related challenges in the North Pacific. We first demonstrated that the proportions of prey tissue DNA in mixtures of DNA isolated from four prey species could be estimated within a margin of ∼ 12% of the percent in the mix. These prey species included herring Clupea palasii, eulachon Thaleichthyes pacificus, squid Loligo opalescens and rosethorn rockfish Sebastes helvomaculatus. We then applied real-time PCR to DNA extracted from faecal samples obtained from Steller sea lions in captivity that were fed 11 different combinations of herring, eulachon, squid and Pacific ocean perch rockfish (Sebastes alutus), ranging from 7% to 75% contributions per meal (by wet weight). The difference between the average percentage estimated by real-time PCR and the percentage of prey consumed was generally <12% for all diets fed. Our findings indicate that real-time PCR of faecal DNA can detect the approximate relative quantity of prey consumed for complex diets and prey species, including cephalopods and fish.
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