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Modern Applied Statistics With S

A DNA test to sex most birds.

In the Hamadryas baboon, males are substantially larger than females. A troop of baboons is subdivided into a number of ‘one-male groups’, consisting of one adult male and one or more females with their young. The male prevents any of ‘his’ females from moving too far from him. Kummer (1971) performed the following experiment. Two males, A and B, previously unknown to each other, were placed in a large enclosure. Male A was free to move about the enclosure, but male B was shut in a small cage, from which he could observe A but not interfere. A female, unknown to both males, was then placed in the enclosure. Within 20 minutes male A had persuaded the female to accept his ownership. Male B was then released into the open enclosure. Instead of challenging male A , B avoided any contact, accepting A’s ownership.

Evolution and the Theory of Games

A growing number of studies quantify the impact of nonlethal human disturbance on the behavior and reproductive success of animals. Athough many are well designed and analytically sophisticated, most lack a theoretical framework for making predictions and for understanding why particular responses occur. Behavioral ecologists have recently begun to fill this theoretical vacuum by applying economic models of antipredator behavior to disturbance studies. In this emerging paradigm, predation and nonlethal disturbance stimuli create similar trade-offs between avoiding perceived risk and other fitness-enhancing activities, such as feeding, parental care, or mating. A vast literature supports the hypothesis that antipredator behavior has a cost to other activities, and that this trade-off is optimized when investment in antipredator behavior tracks short-term changes in predation risk. Prey have evolved antipredator responses to generalized threatening stimuli, such as loud noises and rapidly approaching objects. Thus, when encountering disturbance stimuli ranging from the dramatic, lowflying helicopter to the quiet wildlife photographer, animal responses are likely to follow the same economic principles used by prey encountering predators. Some authors have argued that, similar to predation risk, disturbance stimuli can indirectly affect fitness and population dynamics via the energetic and lost opportunity costs of risk avoidance. We elaborate on this argument by discussing why, from an evolutionary perspective, disturbance stimuli should be analogous to predation risk. We then consider disturbance effects on the behavior of individuals—vigilance, fleeing, habitat selection, mating displays, and parental investment—as well as indirect effects on populations and communities. A wider application of predation risk theory to disturbance studies should increase the generality of predictions and make mitigation more effective without over-regulating human activities.

/pdf/human-caused-disturbance-stimuli-as-a-form-of-predation-risk-ro9mekfw7k.pdf

Human-caused Disturbance Stimuli as a Form of Predation Risk

Developmental Plasticity and Evolution. In: Mary Jane West-Eberhard, Editor, Oxford University Press (2003) Pp. xi+794. Price $50.00 paper.

Flight is a key adaptive trait. Despite its advantages, flight has been lost in several groups of birds, notably among seabirds, where flightlessness has evolved independently in at least five lineages. One hypothesis for the loss of flight among seabirds is that animals moving between different media face tradeoffs between maximizing function in one medium relative to the other. In particular, biomechanical models of energy costs during flying and diving suggest that a wing designed for optimal diving performance should lead to enormous energy costs when flying in air. Costs of flying and diving have been measured in free-living animals that use their wings to fly or to propel their dives, but not both. Animals that both fly and dive might approach the functional boundary between flight and nonflight. We show that flight costs for thick-billed murres (Uria lomvia), which are wing-propelled divers, and pelagic cormorants (Phalacrocorax pelagicus) (foot-propelled divers), are the highest recorded for vertebrates. Dive costs are high for cormorants and low for murres, but the latter are still higher than for flightless wing-propelled diving birds (penguins). For murres, flight costs were higher than predicted from biomechanical modeling, and the oxygen consumption rate during dives decreased with depth at a faster rate than estimated biomechanical costs. These results strongly support the hypothesis that function constrains form in diving birds, and that optimizing wing shape and form for wing-propelled diving leads to such high flight costs that flying ceases to be an option in larger wing-propelled diving seabirds, including penguins.

https://www.pnas.org/content/pnas/110/23/9380.full.pdf

High flight costs, but low dive costs, in auks support the biomechanical hypothesis for flightlessness in penguins

Summary
1. Life-history theory predicts a trade-off between costs of current reproduction and future survival of individuals. Studies of short-lived animals in general support this prediction. However, the effect of nutritional stress during reproduction on survival of long-lived animals is poorly understood.

2. We examined the link between nutritional stress, fecundity and return to a breeding colony (hereafter ‘survival’) of black-legged kittiwakes (Rissa tridactyla) at two colonies with contrasting patterns in adult survival, fecundity, and numerical trends.

3. We tested the observational (at Duck and Gull Is., Cook Inlet, Northern Gulf of Alaska) and experimental (at Middleton I., Gulf of Alaska) relationships between variations in the secretion of the stress hormone corticosterone (CORT) and food abundance. Then, we examined the relationships between nutritional stress (as reflected in CORT), reproduction, and survival of individuals.

4. On average, CORT was higher in kittiwakes breeding on Duck I. (declining, low fecundity, high survival) compared to those breeding on Gull I. (increasing, high fecundity, low survival).

5. At both colonies, CORT was directly negatively correlated with food abundance quantified at sea. Experimental feeding of individuals ad libitum resulted in a reduction of CORT in birds breeding on Middleton I. These results suggest that CORT is a reliable measure of food availability and defines nutritional stress (stress) in kittiwakes.

6. On Gull I., where survival is low (86%), production of young declined as stress increased. On Duck I., where survival is high (93%), parents always failed in raising young, though they experienced a wide range of stress levels.

7. Survival of individuals is linked to their CORT levels during reproduction. High levels of CORT predicted disappearance of individuals from both colonies.

8. The results support the hypothesis that nutritional stress during reproduction affects both survival and reproduction in long-lived animals. However, even within a species the ways in which survival and reproduction trade-off against each other may vary among populations. Results suggest that reproductive consequences of nutritional stress might differ between declining and increasing populations, which should be tested. We conclude that severity of nutritional stress during reproduction is one of the major factors defining population processes in kittiwakes.

https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/j.1365-2435.2009.01679.x

Food availability and population processes: severity of nutritional stress during reproduction predicts survival of long‐lived seabirds

Northern Fulmar ( Fulmarus glacialis )

Gastrointestinal bacteria play a central role in the health of animals. The bacteria that individuals acquire as they age may therefore have profound consequences for their future fitness. However, changes in microbial community structure with host age remain poorly understood. We characterised the cloacal bacteria assemblages of chicks and adults in a natural population of black-legged kittiwakes (Rissa tridactyla), using molecular methods. We show that the kittiwake cloaca hosts a diverse assemblage of bacteria. A greater number of total bacterial OTUs (operational taxonomic units) were identified in chicks than adults, and chicks appeared to host a greater number of OTUs that were only isolated from single individuals. In contrast, the number of bacteria identified per individual was higher in adults than chicks, while older chicks hosted more OTUs than younger chicks. Finally, chicks and adults shared only seven OTUs, resulting in pronounced differences in microbial assemblages. This result is surprising given that adults regurgitate food to chicks and share the same nesting environment. Our findings suggest that chick gastrointestinal tracts are colonised by many transient species and that bacterial assemblages gradually transition to a more stable adult state. Phenotypic differences between chicks and adults may lead to these strong differences in bacterial communities. These data provide the framework for future studies targeting the causes and consequences of variation in bacterial assemblages in wild birds.

/pdf/age-related-differences-in-the-cloacal-microbiota-of-a-wild-qapt40j48x.pdf

Age-related differences in the cloacal microbiota of a wild bird species

We sampled the nestling diets of tufted puffins Fratercula cirrhata and horned puffins E comiculata in 3 years at colonies from the north-central Gulf of Alaska to the eastern Aleutian Islands. Alaska, USA. Overall, tufted puffins consumed (by weight) 41 % sandlance Amrnodytes hexapterus, 22 % capelin Mallotus villosus, 19 % walleye pollock Theragra chalcogramma, 13 % other fish, and 5 % invertebrates, whereas horned puffins took 85 % sandlance, 4 % capehn, 2 % pollock. 8 % other fish, and < 1 % invertebrates. All of the pollock consumed were young of the year, whereas 4 year-classes of capelin were present, from young of the year through spawning adults. Puffins took mostly first-year sandlance, but fish in their second year or older were also common at colonies near Kodiak. Alaska. The importance of juvenile pollock in the diet of tufted puffins varied geographically from little or no use in the north-central Gulf and Kodiak areas to moderate use (5 to 20 %) in the Semidi and Shumagin Islands to heavy use (25 to 75 %) in the Sandman Reefs and eastern Aleutians. An estimated 11 billion pollock were consunled by tufted puffins throughout the region in 1986. The proportion of pollock in puffin diets at the Semidi Islands was strongly correlated with independent estimates of cohort strength in 3 years. Puffins may thus provide a useful index of distribution and yearclass abundance of first-year pollock, a species that currently supports an important commercial fishery in the Gulf of Alaska.

/pdf/puffins-as-samplers-of-juvenile-pollock-and-other-forage-1jrpdclg0t.pdf

Scott A. Hatch

Papers

High flight costs, but low dive costs, in auks support the biomechanical hypothesis for flightlessness in penguins

Food availability and population processes: severity of nutritional stress during reproduction predicts survival of long‐lived seabirds

Northern Fulmar ( Fulmarus glacialis )

Age-related differences in the cloacal microbiota of a wild bird species

Puffins as samplers of juvenile pollock and other forage fish in the Gulf of Alaska