Cancer: an emergent property of disturbed resource-rich environments? Ecology meets personalized medicine

For an increasing number of biologists, cancer is viewed as a dynamic system governed by evolutionary and ecological principles. Throughout most of human history, cancer was an uncommon cause of death and it is generally accepted that common components of modern culture, including increased physiological stresses and caloric intake, favor cancer development. However, the precise mechanisms for this linkage are not well understood. Here, we examine the roles of ecological and physiological disturbances and resource availability on the emergence of cancer in multicellular organisms. We argue that proliferation of 'profiteering phenotypes' is often an emergent property of disturbed, resource-rich environments at all scales of biological organization. We review the evidence for this phenomenon, explore it within the context of malignancy, and discuss how this ecological framework may offer a theoretical background for novel strategies of cancer prevention. This work provides a compelling argument that the traditional separation between medicine and evolutionary ecology remains a fundamental limitation that needs to be overcome if complex processes, such as oncogenesis, are to be completely understood.

The ecology and evolution of beak and feather disease virus in Platycercus elegans

 This thesis explores the complex ecological and evolutionary interactions between beak and feather disease virus and one of its hosts the crimson rosella. The work identifies several factors that predict viral infection in wild birds and determines how host population structure influences viral evolution.

Writing scientific papers, with special reference to evolutionary ecology

© 2015, Springer International Publishing Switzerland. The advancement of science, as well as scientific careers, depends upon good and clear scientific writing. Science is the most democratic of human endeavours because, in principle, anyone can replicate a scientific discovery. In order for this to continue, writing must be clear enough to be understood well enough to allow replication, either in principle or in fact. In this paper I will present data on the publication process in Evolutionary Ecology, use it to illustrate some of the problems in scientific papers, make some general remarks about writing scientific papers, summarise two new paper categories in the journal which will fill gaps that appear to be expanding in the literature, and summarise new journal policies to help mitigate existing problems. Most of the suggestions about writing would apply to any scientific journal.

Incorporating anthropogenic effects into trophic ecology: predator-prey interactions in a human-dominated landscape

Apex predators perform important functions that regulate ecosystems worldwide. However, little is known about how ecosystem regulation by predators is influenced by human activities. In particular, how important are top-down effects of predators relative to direct and indirect human-mediated bottom-up and top-down processes? Combining data on species' occurrence from camera traps and hunting records, we aimed to quantify the relative effects of top-down and bottom-up processes in shaping predator and prey distributions in a human-dominated landscape in Transylvania, Romania. By global standards this system is diverse, including apex predators (brown bear and wolf), mesopredators (red fox) and large herbivores (roe and red deer). Humans and free-ranging dogs represent additional predators in the system. Using structural equation modelling, we found that apex predators suppress lower trophic levels, especially herbivores. However, direct and indirect top-down effects of humans affected the ecosystem more strongly, influencing species at all trophic levels. Our study highlights the need to explicitly embed humans and their influences within trophic cascade theory. This will greatly expand our understanding of species interactions in human-modified landscapes, which compose the majority of the Earth's terrestrial surface.

Life history and the ecology of stress: how do glucocorticoid hormones influence life-history variation in animals?

Glucocorticoids hormones (GCs) are intuitively important for mediation of age-dependent vertebrate life-history transitions through their effects on ontogeny alongside underpinning variation in life-history traits and trade-offs in vertebrates. These concepts largely derive from the ability of GCs to alter energy allocation, physiology and behaviour that influences key life-history traits involving age-specific life-history transitions, reproduction and survival. Studies across vertebrates have shown that the neuroendocrine stress axis plays a role in the developmental processes that lead up to age-specific early life-history transitions. While environmental sensitivity of the stress axis allows for it to modulate the timing of these transitions within species, little is known as to how variation in stress axis function has been adapted to produce interspecific variation in the timing of life-history transitions. Our assessment of the literature confirms that of previous reviews that there is only equivocal evidence for correlative or direct functional relationships between GCs and variation in reproduction and survival. We conclude that the relationships between GCs and life-history traits are complex and general patterns cannot be easily discerned with current research approaches and experimental designs. We identify several future research directions including: (i) integration of proximate and ultimate measures, including longitudinal studies that measure effects of GCs on more than one life-history trait or in multiple environmental contexts, to test explicit hypotheses about how GCs and life-history variation are related and (ii) the measurement of additional factors that modulate the effects of GCs on life-history traits (e.g. GC receptors and binding protein levels) to better infer neurendocrine stress axis actions. Conceptual models of HPA/I axis actions, such as allostatic load and reactive scope, to some extent explicitly predict the role of GCs in a life-history context, but are descriptive in nature. We propose that GC effects on life-history transitions, survival probabilities and fecundity can be modelled in existing quantitative demographic frameworks to improve our understanding of how GC variation influences life-history evolution and GC-mediated effects on population dynamics Lay Summary Functional Ecology

Feeding ecology of King George whiting Sillaginodes punctatus (Perciformes) recruits in seagrass and unvegetated habitats. Does diet reflect habitat utilization?

This study investigated the feeding ecology of King George whiting Sillaginodes punctatus recruits to determine how diet composition varies between habitat types (seagrass and unvegetated habitats), and between sites separated by distance. Broad-scale sampling of seagrass and unvegetated habitats at nine sites in Port Phillip Bay (Australia) indicated the diet composition varied more by distance into the bay than by habitat. Near the entrance to the bay the diet was dominated by harpacticoids and gammarid amphipods, in the middle reaches of the bay the diet was completely dominated by harpacticoids, while at sites furthest into the bay, mysids and crab zoea were also important. Abundances of prey in guts was significantly higher between 1000 and 2200 hours compared with other times, indicating diurnal feeding. Laboratory determined gut evacuation rate (based on an exponential model) was estimated to be -0·54. Daily rations were highly variable among sites and habitat types. Sillaginodes punctatus recruits consumed much higher quantities of prey on unvegetated habitat than seagrass habitat at some middle reach sites; with prey consumption of harpacticoid copepods on unvegetated habitat approaching 3000 individuals per day at one site. The results of this study provide insight into why habitat associations of S. punctatus recruits within mosaics of seagrass and unvegetated habitat show high spatial variation.

Movement ecology and conservation implications for riverine fishes of south-eastern Australia

 This thesis investigates the movement ecology of four riverine fish species in south-eastern Australia and has filled key knowledge gaps that can directly their assist conservation and management. The findings highlight the need to understand species-specific details of fish behaviour and life history for the development of effective conservation and management strategies.

Deep ecology and Australian suburbia: learning from Aboriginal Australia philosophy

Naess’ Deep Ecology [50] represents a fundamental philosophical and conceptual shift from the dominant Western thinking that can be traced back to the Greek and Roman Empires. Like all philosophy, Naess’ Deep Ecology was born of and is most relevant to a specific time and place being northern Europe. Although the fundamentals of the Deep Ecology philosophy were new to modern Western thinking, it is not new to traditional Indigenous cultures, including the world’s oldest culture, that of Aboriginal Australia. While the past four decades has seen an increasing recognition of Aboriginal philosophical approaches, there is very little understanding of what this philosophical approach is and means for the management of the Australian environment in which humans are a central part. Since European arrival, Australia has been one of the world’s most urban societies. Unlike northern Europe, urban Australia is low density and suburban, a legacy of British and North American influences. Nearly 90% of Australians live in detached houses surrounded by gardens. Managed by individual residents, this land use accounts for about 70% of the total area of cities like Melbourne. Deeply culturally embedded, the Australian desire for living in low-density suburbs is unlikely to change soon. Contemporary cities are widely recognized as causing severe environmental degradation and are not sustainable. Yet in Australia introduced philosophical and design approaches are still used to address the unsustainable impacts of urban forms introduced from another time and place. While impractical to remove the existing suburban form in Australian cities, there is a significant opportunity to retrofit them using Australian Aboriginal philosophical and land management understandings developed and tested over tens of thousands of years. This paper establishes a contemporary Australian Deep Ecology philosophical approach to sustainably living in the suburbs that recognizes and works with the legacies of Australian Aboriginal, English, North American and contemporary Australian influences.

Report on the biology and ecology of Limonium hyblaeum Brullo at Port Fairy, Victoria, with respect to its invasive potential

Limonium hyblaeum Brullo, a perennial, salt tolerant plant native to Sicily forms a large invasion at Griffiths Island and along the strand of nearby Ocean Road, in Port Fairy, Victoria. This is causing concern as it has every appearance of having a high invasive potential but there is little known of its biology and ecology. This study therefore aimed to investigate aspects of its biology and ecology at Griffiths Island and nearby Ocean Road to identify any characteristics that would indicate its invasive nature, quantitatively determine its impact and determine how invasive it was. It was identified as having some key 'weed' attributes, i.e. being apomictic, allelopathic, fast growing in terms of both cover (40% increase in cover between spring and summer or 0.6 m along a transect line) and dry weight, being able to grow in saline and non-saline conditions and of being a transformer. A weed risk assessment demonstrated it was highly invasive and swift management of the species is recommended.

Integrating network analysis, sensor tags, and observation to understand shark ecology and behavior

Group living in animals is a well-studied phenomenon, having been documented extensively in a wide range of terrestrial, freshwater, and marine species. Although social dynamics are complex across space and time, recent technological and analytical advances enable deeper understanding of their nature and ecological implications. While for some taxa, a great deal of information is known regarding the mechanistic underpinnings of these social processes, knowledge of these mechanisms in elasmobranchs is lacking. Here, we used an integrative and novel combination of direct observation, accelerometer biologgers, and recent advances in network analysis to better understand the mechanistic bases of individual-level differences in sociality (leadership, network attributes) and diel patterns of locomotor activity in a widespread marine predator, the lemon shark (Negaprion brevirostris). We found that dynamic models of interaction based on Markov chains can accurately predict juvenile lemon shark social behavior and that lemon sharks did not occupy consistent positions within their network. Lemon sharks did however preferentially associate with specific group members, by sex as well as by similarity or nonsimilarity for a number of behavioral (nonsimilarity: leadership) and locomotor traits (similarity: proportion of time swimming "fast," mean swim duration; nonsimilarity: proportion of swimming bursts/transitions between activity states). Our study provides some of the first information on the mechanistic bases of group living and personality in sharks and further, a potential experimental approach for studying fine-scale differences in behavior and locomotor patterns in difficult-to-study organisms.

Ecology of an urban-adapted species over an urbanization gradient

The tawny frogmouth is a nocturnal bird species endemic to Australia. While many species of wildlife worldwide experience detrimental outcomes from urbanization, this thesis demonstrates the resilience and adaptability of this unique species to landscape change by human beings.

Germination ecology and seed dispersal of a critically endangered plant: a case study of Pomaderris vacciniifolia (Round-leaf Pomaderris)

Change in ecosystem disturbance regimes from human land-use poses a worldwide problem for management of rare species. Two important types of disturbance influencing the persistence of species in Australian ecosystems are habitat fragmentation and fire. In this study, seed dispersal and the germination ecology of Pomaderris vacciniifolia-a critically endangered, rare endemic Australian shrub-were examined to identify likely influences of fire and fragmentation on the decline of populations. The response of seed germination to simulated effects of wildfire and canopy openings was investigated, as was the unaided dispersal capability of seeds from parent plants. A significant increase in germination rate was observed following 100°C heat treatment to seeds, while smoke and light exposure had little influence. Seed imbibition was strongly influenced by heat treatment. The findings indicate a likely positive post-fire germination response, with implications for recruitment success determined by moisture availability following fire. Unaided seed dispersal was limited, which partly explains the apparent decline of populations. Understanding disturbance requirements for threatened species, and subsequent management of landscapes for disturbance, will aid conservation of rare species throughout the world.

Ecology of urban malaria vectors in Niamey, Republic of Niger

BACKGROUND: Urbanization in African cities has major impact on malaria risk. Niamey, the capital of the Republic of Niger, is situated in the West African Sahel zone. The short rainy season and human activities linked with the Niger River influence mosquito abundance. This study aimed at deciphering the factors of distribution of urban malaria vectors in Niamey.

METHODS: The distribution of mosquito aquatic stages was investigated monthly from December 2002 to November 2003, at up to 84 breeding sites, throughout Niamey. An exploratory analysis of association between mosquito abundance and environmental factors was performed by a Principal Component Analysis and confirmed by Kruskall-Wallis non-parametric test. To assess the relative importance of significant factors, models were built for Anopheles and Culicinae. In a second capture session, adult mosquitoes were collected weekly with pyrethrum sprays and CDC light-traps from June 2008 to June 2009 in two differentiated urban areas chosen after the study's first step. Members of the Anopheles gambiae complex were genotyped and Anopheles females were tested for the presence of Plasmodium falciparum circumsporozoite antigens using ELISA.

RESULTS: In 2003, 29 % of 8420 mosquitoes collected as aquatic stages were Anopheles. They were significantly more likely to be found upstream, relatively close to the river and highly productive in ponds. These factors remained significant in regression and generalized linear models. The Culicinae were found significantly more likely close to the river, and in the main temporary affluent stream. In 2009, Anopheles specimens, including Anopheles gambiae s.l. (95 %), but also Anopheles funestus (0.6 %) accounted for 18 % of the adult mosquito fauna, with a large difference between the two sampled zones. Three members of the An. gambiae complex were found: Anopheles arabiensis, Anopheles coluzzii, and An. gambiae. Nineteen (1.3 %) out of 1467 females tested for P. falciparum antigen were found positive.

CONCLUSION: The study provides valuable update knowledge on malaria vector ecology and distribution in Niamey. The identification of spatial and environmental risk factors could pave the way to larval source management strategy and allow malaria vector control to focus on key zones for the benefit of the community.

Pronounced inter-colony variation in the foraging ecology of Australasian gannets : influence of habitat differences

The predictability of prey due to oceanographic features can result in large aggregations of apex predators. Central place foragers, such as seabirds, are limited in their foraging duration and range during the breeding period, which can restrict their ability to reach such locations. Segregation by colony and sex can further restrict foraging range and may have direct implications for the foraging ecology of a species. In parts of its range, the Australasian gannet Morus serrator breeds in colonies of relatively close proximity and has recently been found to display sexual dimorphism. Two neighbouring breeding colonies in Bass Strait that experience divergent environmental conditions were investigated to determine whether these conditions or the sex of the individual are important variables influencing foraging behaviour in this species. GPS tracking and accelerometry were paired with stable isotope analysis to compare differences in foraging effort, habitat use and diet. Birds from Point Danger, a large colony located near a seasonally strong upwelling, travelled considerably further (77%) than birds from Pope's Eye, a small colony in a nutrient-poor embayment. However, within colonies no sexual differences in foraging effort were found. While the colonies did not overlap in foraging areas, a degree of sexual segregation was apparent within both colonies (Point Danger 46.3% overlap and Pope's Eye 73.7% overlap in home range). Furthermore, stable isotope analysis indicated birds from each colony fed at different trophic niches. This study reveals differences in habitat use and, consequently, dietary niches between and within neighbouring colonies.