So far in this course we have dealt entirely with the evolution of characters that are controlled by simple Mendelian inheritance at a single locus. There are notes on the course website about gametic disequilibrium and how allele frequencies change at two loci simultaneously, but we didn’t discuss them. In every example we’ve considered we’ve imagined that we could understand something about evolution by examining the evolution of a single gene. That’s the domain of classical population genetics. For the next few weeks we’re going to be exploring a field that’s actually older than classical population genetics, although the approach we’ll be taking to it involves the use of population genetic machinery. If you know a little about the history of evolutionary biology, you may know that after the rediscovery of Mendel’s work in 1900 there was a heated debate between the “biometricians” (e.g., Galton and Pearson) and the “Mendelians” (e.g., de Vries, Correns, Bateson, and Morgan). Biometricians asserted that the really important variation in evolution didn’t follow Mendelian rules. Height, weight, skin color, and similar traits seemed to

Human biochemical genetics

How should ecologists and evolutionary biologists analyze nonnormal data that involve random effects? Nonnormal data such as counts or proportions often defy classical statistical procedures. Generalized linear mixed models (GLMMs) provide a more flexible approach for analyzing nonnormal data when random effects are present. The explosion of research on GLMMs in the last decade has generated considerable uncertainty for practitioners in ecology and evolution. Despite the availability of accurate techniques for estimating GLMM parameters in simple cases, complex GLMMs are challenging to fit and statistical inference such as hypothesis testing remains difficult. We review the use (and misuse) of GLMMs in ecology and evolution, discuss estimation and inference and summarize 'best-practice' data analysis procedures for scientists facing this challenge.

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Generalized linear mixed models: a practical guide for ecology and evolution

The influence of diet on the distribution of nitrogen isotopes in animals was investigated by analyzing animals grown in the laboratory on diets of constant nitrogen isotopic composition. 
The isotopic composition of the nitrogen in an animal reflects the nitrogen isotopic composition of its diet. The δ^(15)N values of the whole bodies of animals are usually more positive than those of their diets. Different individuals of a species raised on the same diet can have significantly different δ^(15)N values. The variability of the relationship between the δ^(15)N values of animals and their diets is greater for different species raised on the same diet than for the same species raised on different diets. Different tissues of mice are also enriched in ^(15)N relative to the diet, with the difference between the δ^(15)N values of a tissue and the diet depending on both the kind of tissue and the diet involved. The δ^(15)N values of collagen and chitin, biochemical components that are often preserved in fossil animal remains, are also related to the δ^(15)N value of the diet. 
The dependence of the δ^(15)N values of whole animals and their tissues and biochemical components on the δ^(15)N value of diet indicates that the isotopic composition of animal nitrogen can be used to obtain information about an animal's diet if its potential food sources had different δ^(15)N values. The nitrogen isotopic method of dietary analysis probably can be used to estimate the relative use of legumes vs non-legumes or of aquatic vs terrestrial organisms as food sources for extant and fossil animals. However, the method probably will not be applicable in those modern ecosystems in which the use of chemical fertilizers has influenced the distribution of nitrogen isotopes in food sources. 
The isotopic method of dietary analysis was used to reconstruct changes in the diet of the human population that occupied the Tehuacan Valley of Mexico over a 7000 yr span. Variations in the δ^(15)C and δ^(15)N values of bone collagen suggest that C_4 and/or CAM plants (presumably mostly corn) and legumes (presumably mostly beans) were introduced into the diet much earlier than suggested by conventional archaeological analysis.

Influence of Diet On the Distribtion of Nitrogen Isotopes in Animals

Beginning with Emlen (1966) and MacArthur and Pianka (1966) and extending through the last ten years, several authors have sought to predict the foraging behavior of animals by means of mathematical models. These models are very similar,in that they all assume that the fitness of a foraging animal is a function of the efficiency of foraging measured in terms of some "currency" (Schoener, 1971) -usually energy- and that natural selection has resulted in animals that forage so as to maximize this fitness. As a result of these similarities, the models have become known as "optimal foraging models"; and the theory that embodies them, "optimal foraging theory." The situations to which optimal foraging theory has been applied, with the exception of a few recent studies, can be divided into the following four categories: (1) choice by an animal of which food types to eat (i.e., optimal diet); (2) choice of which patch type to feed in (i.e., optimal patch choice); (3) optimal allocation of time to different patches; and (4) optimal patterns and speed of movements. In this review we discuss each of these categories separately, dealing with both the theoretical developments and the data that permit tests of the predictions. The review is selective in the sense that we emphasize studies that either develop testable predictions or that attempt to test predictions in a precise quantitative manner. We also discuss what we see to be some of the future developments in the area of optimal foraging theory and how this theory can be related to other areas of biology. Our general conclusion is that the simple models so far formulated are supported are supported reasonably well by available data and that we are optimistic about the value both now and in the future of optimal foraging theory. We argue, however, that these simple models will requre much modification, espicially to deal with situations that either cannot easily be put into one or another of the above four categories or entail currencies more complicated that just energy.

Citation classic - optimal foraging - a selective review of theory and tests

A DNA test to sex most birds.

Understanding Natural Selection on Traits That Are Influenced by Environmental Conditions

Hatching asynchrony is widespread amongst animals, but no consensus has yet emerged as to why asynchronous hatching has evolved. It is generally thought to have adaptive benefits during the raising of dependent young. However, here, we considered an alternative view of hatching asynchrony in birds as a consequence of factors acting at the onset of incubation. We recorded parental nest attendance behaviour during laying using continuous records of nest temperature in herring gulls, Larus argentatus. We tested whether nest attendance during laying was related to individual factors (clutch size and diet) and whether it had consequences on fitness outcomes (hatching spread, incubation period, hatching success and chick survival). Low nest attendance was associated with small clutch size, and independent of clutch size, pairs on a more marine diet had lower nest attendance than pairs on a lower trophic level terrestrial diet, possibly due to higher foraging effort for marine food. Broods hatched more asynchronous where pairs had a lower nest attendance during laying or took longer to complete a clutch and where the last egg took longer to hatch. Low nest attendance was also related to shorter incubation periods, possibly representing a strategy of birds in poor condition to reduce the demand of incubation by reducing the length of incubation. We found that low nest attendance during laying and increasing hatching asynchrony had detrimental effects on hatching success for small eggs laid early in the laying sequence. Increasing hatching asynchrony also had a detrimental effect on the survival of the youngest sibling. In our study population, hatching asynchrony was influenced by a more complex set of factors than simply onset of incubation and appears to be constrained by circumstances at the onset of incubation rather than to be an adaptive strategy. Thus, factors acting both during offspring rearing and at the onset of incubation need to be considered for a better understanding of hatching asynchrony.

Hatching asynchrony is constrained by parental nest attendance during laying

The effect of laying and hatching order on the timing and asynchrony of hatching

. Between-population variation of changes in numbers can provide insights into factors influencing variation in demography and how population size or density is regulated. Here, spatio-temporal patterns of population change of Herring Gull (Larus argentatus), Lesser Black-backed Gull (L. fuscus) and Great Black-backed Gull (L. marinus) in the British Isles are described. The aim of this study was to test for density-dependence and spatial variation in population trends as two possible, but not mutually exclusive, explanations of population changes with important implications for the understanding of these changes. Between 1969 and 2013, the three species showed different population trends with Herring Gulls showing a strong decline, Lesser Black-backed Gulls an increase until 2000 but then a decline since, and Great Black-backed Gulls showing no clear pattern. Population changes in Herring Gulls varied between different regions of the British Isles with decreases in the northern and western parts ...

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Changing Numbers of Three Gull Species in the British Isles

Body temperature (Tb) is a valuable parameter when assessing the physiological state of animals, but its widespread measurement is often constrained by methods that are invasive or require frequent recapture of animals. Alternatives based on automated remote sensing of peripheral Tb show promise, but little is known about their strengths and limitations. We measured peripheral Tb in great tits Parus major with subcutaneously implanted passive integrated transponders (PIT tags) and externally attached radio transmitters to determine repeatability of measurements, sensitivity of each method to variation in ambient temperature (Ta) and wind speed, the relationship between methods, and their ability to capture circadian variation in Tb. Repeatability of measurements by radio transmitters was high (> 80%) when readings were taken within 20 min, but reduced to 16% when measures were spaced 3.5 h apart. PIT tag data for the 3.5 h interval were more repeatable (33%) and less variable (cv). Data were affected by Ta with a stronger effect on the externally attached transmitters, but the influence of wind speed was small for both methods. There was a significant positive relationship between transmitter- and PIT tag temperature during both days and nights. Both methods were equally suited to detect diel changes in peripheral Tb. However, transmitters offered longer detection distance and better temporal resolution. These qualities should be considered when deciding how to collect Tb data remotely. If properly deployed, both methods allow measurement of peripheral Tb over a wide range of natural systems and conditions in small, free-ranging, birds.

Ruedi G. Nager

Papers

Understanding Natural Selection on Traits That Are Influenced by Environmental Conditions

Hatching asynchrony is constrained by parental nest attendance during laying

The effect of laying and hatching order on the timing and asynchrony of hatching

Changing Numbers of Three Gull Species in the British Isles

Evaluation of two methods for minimally invasive peripheral body temperature measurement in birds