De novo Development and Characterization of Tetranucleotide Microsatellite Loci Markers from a Southeastern Population of the House Finch (Haemorhous mexicanus)

Microsatellites are short tandem repeats (e.g. TAGATAGA) of base pairs in a species’ genome. High mutation rates in these regions produce variation in the number of repeats across individuals that can be utilized to study patterns of population- and landscape-level genetics and to determine parentage genetically. In this project our objective was to develop microsatellite markers for the House Finch, Haemorhous mexicanus. This species has become one of the most well-studied species of songbirds due to its unique geographical, evolutionary, and epidemiological history. Using mist-nets we captured birds on the Arkansas Tech University campus and collected blood samples to obtain genomic DNA. Samples were processed in The Field Museum’s Pritzker Laboratory for Molecular Systematics and Evolution, where we fragmented genomic DNA and isolated fragments that contained potential microsatellites using specially designed biotin labelled probes. These DNA fragments were transformed into competent E. coli cells which were then PCR-amplified and Sanger sequenced. After sequencing DNA fragments from approximately 500 E. coli colonies, we designed and characterized a set of 13 tetranucleotide microsatellite loci. The average number of alleles and heterozygosity found in 12 individuals from Arkansas was 8.69 and 0.80, respectively. This finalized set of microsatellites can be utilized by researchers to determine parentage and characterize genetic differences across House Finch populations

Examining affective structure in chickens: valence, intensity, persistence and generalization measured using a conditioned place preference test

When measuring animals’ valenced behavioural responses to stimuli, the Conditioned Place Preference (CPP) test goes a step further than many approach-based and avoidance-based tests by establishing whether a learned preference for, or aversion to, the location in which the stimulus was encountered can be generated. We designed a novel, four-chambered CPP test to extend the capability of the usual CPP paradigm to provide information on four key features of animals’ affective responses: valence, scale, persistence and generalization. Using this test, we investigated the affective responses of domestic chickens (Gallus gallus domesticus) to four potentially aversive stimuli: 1. Puffs of air; 2. Sight of (robotic) snake; 3. Sprays of water; 4. Sound of conspecific alarm calls. We found conditioned avoidance of locations associated with the air puffs and water sprays (Friedman’s χ2(3) = 13.323 p > .005; χ2(3) = 14.235 p > .005), but not with the snake and alarm calls. The scale of the learned avoidance was similar for the air puff and water spray stimuli, but persistence and generalization differed. We conclude that the four chambered CPP test can have a valuable role to play in making multi-feature measurements of stimulus-generated affective responses, and we highlight the value of such measurements for improving our understanding of the structure of affect in chickens and other animals

Interpreting a conformally flat pure radiation space-time

A physical interpretation is presented of the general class of conformally flat pure radiation metrics that has recently been identified by Edgar and Ludwig. It is shown that, at least in the weak field limit, successive wave surfaces can be represented as null (half) hyperplanes rolled around a two-dimensional null cone. In the impulsive limit, the solution reduces to a pp-wave whose direction of propagation depends on retarded time. In the general case, there is a coordinate singularity which corresponds to an envelope of the wave surfaces. The global structure is discussed and a possible vacuum extension through the envelope is proposed.Comment: 9 pages, Plain TeX, 2 figures. To appear in Class. Quantum Grav. Reference adde

Attractors of directed graph IFSs that are not standard IFS attractors and their Hausdorff measure

For directed graph iterated function systems (IFSs) defined on R, we prove that a class of 2-vertex directed graph IFSs have attractors that cannot be the attractors of standard (1-vertex directed graph) IFSs, with or without separation conditions. We also calculate their exact Hausdorff measure. Thus we are able to identify a new class of attractors for which the exact Hausdorff measure is known

Behavioural and physiological responses of laying hens to automated monitoring equipment

Automated monitoring of behaviour can offer a wealth of information in circumstances where observing behaviour is difficult or time consuming. However, this often requires attaching monitoring devices to the animal which can alter behaviour, potentially invalidating any data collected. Birds often show increased preening and energy expenditure when wearing devices and, especially in laying hens, there is a risk that individuals wearing devices will attract aggression from conspecifics. We studied the behavioural and physiological response of 20 laying hens to backpacks containing monitoring devices fastened with elastic loops around the wing base. We hypothesised that backpacks would lead to a stress-induced decrease in peripheral temperature, increased preening, more aggression from conspecifics, and reduced bodyweights. This was evaluated by thermography of the eye and comb (when isolated after fitting backpacks), direct observations of behaviour (when isolated, when placed back into the group, and on later days), and weighing (before and after each 7-day experimental period). Each hen wore a backpack during one of the two experimental periods only and was used as her own control. Contrary to our hypothesis, eye temperature was higher when hens wore a backpack (No backpack: 30.2 °C (IQR: 29.0–30.6) vs. Backpack: 30.9 °C (IQR: 30.0–32.0), P < 0.001). Eye temperature of hens wearing a backpack was strongly correlated to the time spent preening (rs = 0.8, P < 0.001), suggesting that the higher temperatures may have been due to preening itself, or to a low head position or decreased heat dissipation when preening under the wings. Aggressive behaviour was very rare and no effect of the backpacks was found. In line with our hypothesis, backpacks increased preening on the day of fitting, both when isolated (No backpack: 0% (IQR: 0–1) vs. Backpack: 22% (IQR: 1–43), P < 0.01) and when back in the group (No backpack: 0% (IQR: 0–27) vs. Backpack: 43% (IQR: 5–77), P < 0.001). However, no effect on preening was observed 2–7 days afterwards. Other behavioural changes suggested that on the day of fitting hens prioritized attempts to (re)move the backpack and were less attentive to their surroundings. However, only equipment pecking (i.e., pecking the backpack or leg rings) was still affected 2–7 days after fitting (No backpack: 0 pecks/hen/minute (IQR: 0–0), vs. Backpack: 0 (IQR: 0–0.07), P < 0.05). We found no effect of our backpacks on bodyweight. In conclusion, our backpacks seem suitable to attach monitoring equipment to hens with only a very minor effect on their behaviour after a short acclimation period (≤2 days)