Population Ecology

I argue that Binkley et al. use causal process tracing in conjunction with a natural trajectory experiment and two natural snapshot experiments in their re-examination of the Kaibab. This shows that Aldo Leopold may have been right about trophic cascade in the Kaibab in the 1920s, i.e., that there are good reasons to think that a loss of predators led to a deer irruption which decreased aspen recruitment. Using the different cause-finding practices in combination can strengthen causal inferences and mitigate (...) the shortcomings that each practice has. (shrink)

The immune system does not just fight pathogens but also engages in interactions with beneficial microbes and non-immune cells of the body to harmonize their behavior by means of cytokines, antibodies and effector cells (Dinarello, 2007; Moticka, 2015, pp. 217e226, 261e267). However, the importance of these “housekeeping” functions has not been fully appreciated (Cohen, 2000). In his new book Immunity: The Evolution of an Idea Alfred I. Tauber traces the history of fundamental ideas in immunology and refers to recent advances (...) in the field to overturn the notion that immunity is the ability of an autonomous organism to protect itself against pathogens. Indeed, as suggested by the author, the autonomy of the organism is illusive because individuals develop as holobionts: functionally integrated multispecies consortia (p. 98). Similarly, he suggests that pathogenicity also emerges from the lack of subordination of a microbe to social welfare of the holobiont rather than from context-independent properties of this organism (pp. 165, 181). Emphasizing the contextual character of the parasite and the host, Tauber redefines immunity as an active process of coordination of a cellular ecosystem, which allows this collective to navigate through challenges of the environment and to face demands of the communal living (pp. 10e16). From this point of view, the failure to modulate intercellular interactions by the immune system entails mitigating immunity and impairing resistance to infection and disease (pp. 103e104). Immunity is a groundbreaking work establishing a new framework for understanding the function and activity of the immune system. Its value also lies in the fact that it serves as an important stepping-stone towards an integrated philosophical, ecological and immunological study of our embedment in the microbial world. (shrink)

In aggressive interactions, animals often use a discrete set of signals, while the properties being signalled are likely to be continuous, for example fighting ability or value of victory. Here we investigate a particular model of fighting which allows for conventional signalling of subjective resource value to occur. The result shows that neither perfect nor no signalling are evolutionarily stable strategies in the model. Instead, we find ESSs in which partial information is communicated, with discrete displays signalling a range of (...) values rather than a precise one. The result also indicates that communication should be more precise in conflicts over small resources. Signalling strategies can exist in fighting because of the common interest in avoiding injuries, but communication is likely to be limited because of the fundamental conflict over the resource. Our results reflect a compromise between these two factors. Data allowing for a thorough test of the model are lacking; however, existing data seem consistent with the obtained theoretical results. (shrink)

A simple numerical procedure is presented for the problem of estimating the parameters of models for the distribution of eggs oviposited in a host. The modelling is extended to incorporate both host density and time dependence to produce a remarkably parsimonious structure with only seven parameters to describe a data set of over 3,000 observations. This is further refined using a mixed model to accommodate several large outliers. Both models show that the level of superparasitism declines with increasing host density, (...) and the rate declines over time. It is proposed that the differing behaviours represented by the mixed model may reflect a balance between behavioural strategies of different selective benefit. (shrink)

What methodological approaches do research programs use to investigate the world? Elisabeth Lloyd’s Logic of Research Questions (LRQ) characterizes such approaches in terms of the questions that the researchers ask and causal factors they consider. She uses the Logic of Research Questions Framework to criticize adaptationist programs in evolutionary biology for dogmatically assuming selection explanations of the traits of organisms. I argue that Lloyd’s general criticism of methodological adaptationism is an artefact of the impoverished LRQ. My Ordered Factors Proposal extends (...) the LRQ to characterize approaches with sequences of questions and factors. I highlight the importance that ordering one’s investigation plays in approaches at the level of adaptationism by analyzing two research programs in community ecology: competitionists and neutralists. Competitionists and neutralists take opposed starting points and use explanatory and developmental heuristics to consider more factors in due time. On the Ordered Factors Proposal, these approaches are not only the ecological factors they are open to considering but also the order in which they will consider them. My disagreement with Lloyd’s over how to characterize methodological approaches reflects different views about methodological monism and pluralism. (shrink)

Sagoff (2016) criticizes widely used “theoretical” methods in ecology; arguing that those methods employ models that rely on problematic metaphysical assumptions and are therefore uninformative and useless for practical decision-making. In this paper, I show that Sagoff misconstrues how such model-based methods work in practice, that the main threads of his argument are problematic, and that his substantive conclusions are consequently unfounded. Along the way, I illuminate several ways the model-based inferential methods he criticizes can be, and have been, usefully (...) informative. (shrink)

美国和世界正处于人口过度增长的崩溃过程中，大部分都发生在上个世纪，现在这一切都是由于第三世界人民造成的。资源消耗和增加10亿至2100亿美元，将使工业文明崩溃，并造成饥饿、疾病、暴力和战争。" ;数十亿人将死去，核战争几乎可以肯定。在美国，大规模移民和移民再生产，加上民主带来的滥用，大大加速了这一速度。堕落的人性无情地把民主和多样性的梦想变成犯罪和贫穷的噩梦。崩溃的根本原因是我们天生的心理无 法适应现代世界，这导致人们把不相关的人当作他们有共同的兴趣对待。再加上对基本生物学和心理的无知，导致部分受教育者的社会工程妄想，他们控制着民主社会。很少有人明白，如果你帮助一个人，你伤害了别人——没有 免费的午餐，任何人消费的每一件物品都会破坏地球，无法修复。因此，世界各地的社会政策都是不可持续的，如果不严格控制自私，所有社会都会陷入无政府状态或独裁。如果不立即作出戏剧性改变，就没有希望阻止美国或任 何遵循民主制度的国家的崩溃。因此，我的文章"民主自杀"。 现在很清楚，统治中国的七个社会道路正在赢得第三次世界大战，所以我关于他们的结论性文章。唯一更大的威胁是人工智能，我简要地评论。 我们一切的关键是生物学，而正是它所忽视它，导致数百万聪明受过教育的人，如奥巴马，乔姆斯基，克林顿，民主党和教皇支持自杀的乌托邦理想，无情地直接导致地球上的地狱。 正如W指出的，我们眼前最难看的就是什么。 我们生活在有意识的议事语言系统2的世界里，但它是无意识的，自动反射系统1的规则。这是西尔的《现象幻象》（TPI）、平克的《空白石板》和《图比》和《科斯米德的标准社会科学模型》中描述的普遍失明的根源。 第一组文章试图让我们了解我们是如何合理摆脱理论错觉的。在接下来的三个组中，我评论了阻碍可持续世界的三个主要错觉——技术、宗教和政治（合作团体）。人们相信社会可以由他们拯救，所以我在书的其余部分提供一些 建议，为什么这不太可能通过短篇文章和评论最近出版的著名作家的书。 另一节描述了宗教错觉——有一些超级力量会拯救我们。 下一节将数字错觉描述为将系统2的语言游戏与系统1的自动化混为一谈，因此无法区分生物机器（即人）和其他种类的机器（即计算机）。 其他数字错觉是，我们将从系统1的纯邪恶（自私）由计算机/AI/机器人/纳米技术/基因工程由系统2创建。 没有免费午餐校长告诉我们，将有严重，甚至致命的后果。 最后一节描述了"一个幸福家庭"的幻想，即我们被选中与大家合作，如果我们只是正确管理事情（政治的可能性），民主、多样性和平等等异想天意将引导我们进入乌托邦。 再次，没有免费午餐原则应该警告我们，它不能是真实的，我们看到整个历史和整个当代世界，没有严格的控制，自私和愚蠢占上风，并很快摧毁任何国家，拥抱这些妄想。此外，猴子的头脑大大折扣的未来，所以我们合作出售 我们的后代的遗产为临时舒适，大大加剧了问题。 .

Neutral Theory is controversial in ecology. Ecologists and philosophers have diagnosed the source of the controversy as: its false assumption that individuals in different species within the same trophic level are ecologically equivalent, its conflict with Competition Theory and the adaptation of species, its role as a null hypothesis, and as a Lakatosian research programme. In this paper, I show why we should instead understand the conflict at the level of research programs which involve more than theory. The Neutralist and (...) Competitionist research programs borrow and construct theories, models, and experiments for various aims and given their home ecological systems. I present a holistic and pragmatic view of the controversy that foregrounds the interrelation between many kinds of practices and decisions in ecological research. (shrink)

Perhaps no concept has been thought more important to ecological theorizing than the niche. Without it, technically sophisticated and well-regarded accounts of character displacement, ecological equivalence, limiting similarity, and others would seemingly never have been developed. The niche is also widely considered the centerpiece of the best candidate for a distinctively ecological law, the competitive exclusion principle. But the incongruous array and imprecise character of proposed definitions of the concept square poorly with its apparent scientific centrality. I argue this definitional (...) diversity and imprecision reflects a problematic conceptual indeterminacy that challenges its putative indispensability in ecology. (shrink)

In a well-cited book chapter, ecologist Jared Diamond characterizes three main types of experiment performed in community ecology: laboratory experiment, field experiment, and natural experiment. Diamond argues that each form of experiment has strengths and weaknesses, with respect to, for example, realism or the ability to follow a causal trajectory. But does Diamond’s typology exhaust the available kinds of cause-finding practices? Some social scientists have characterized something they call “causal process tracing.” Is this a fourth type of experiment or something (...) else? I examine Diamond’s typology and causal process tracing in the context of a case study concerning the dynamics of wolf and deer populations on the Kaibab Plateau in the 1920s, a case that has been used as a canonical example of a trophic cascade by ecologists but which has also been subject to controversy. I argue that ecologists have profitably deployed causal process tracing together with other types of experiment to help settle questions of causality in this case. It remains to be seen how widespread the use of causal process tracing outside of the social sciences is (or could be), but there are some potentially promising applications, particularly with respect to questions about specific causal sequences. (shrink)

How about a different take on the rich and famous? First the obvious—the Harry Potter novels are primitive superstition that encourages children to believe in fantasy rather than take responsibility for the world-- the norm of course. JKR is just as clueless about herself and the world as most people, but about 200 times as destructive as the average American and about 800 times more than the average Chinese. She has been responsible for the destruction of maybe 30,000 hectares of (...) forest to produce these trash novels and all the erosion ensuing (not trivial as it’s at least 6 and maybe 12 tons/year soil into the ocean for everyone on earth or maybe 100 tons per American, and so about 5000 tons/year for Rowling’s books and movies and her 3 children). The earth loses at least 1% of its topsoil every year, so as it nears 2100, most of its food growing capacity will be gone. Then there is the huge amount of fuel burned and waste made to make and distribute the books and films, plastic dolls etc. She shows her lack of social responsibility by producing children rather than using her millions to encourage family planning or buy up the rain forest, and by promoting the conventional liberal stupidity of 3rd world supremacy that is destroying Britain, America, the world and her descendant’s future. Of course, she's not that different from the other 7.8 billion clueless - just noisier and more destructive. -/- It is the no free lunch problem writ large. The mob just can’t see that there is no such thing as helping one person without harming others. Rights or privileges given to new entrants into an overcrowded world can only diminish those of others. In spite of the massive ecological disasters happening in front of them everywhere everyday, they can’t pin them to the unrestrained motherhood of “the diverse”, which accounts for most of the population increase of the last century and all of that in this one. They lack some combination of intelligence, education, experience and sanity required to extrapolate the daily assaults on the resources and functioning of society to the eventual collapse of industrial civilization. Each meal, each trip by car or bus, each pair of shoes is another nail in the earth’s coffin. It has likely never crossed her mind that one seat on a plane from London to San Francisco produces about one ton of carbon which melts about 3 square meters of sea ice and as one of the overprivileged she has probably flown hundreds of such flights. -/- Not only the rich and famous, but nearly any public figure at all, including virtually all teachers, are pressured to be politically correct, which in the Western Democracies, now means social democratic (Neomarxist—i.e., diluted communist) third world supremacists working for the destruction of their own societies and their own descendants. So, those whose lack of education, experience, intelligence (and basic common sense), which should prohibit them from making any public statements at all, totally dominate all the media, creating the impression that the intelligent and civilized must favor democracy, diversity and equality, while the truth is that these are the problems and not the solutions, and that they themselves are the prime enemies of civilization. See my Suicide by Democracy 2nd ed (2019). -/- Those wishing a comprehensive up to date framework for human behavior from the modern two systems view may consult my book ‘The Logical Structure of Philosophy, Psychology, Mind and Language in Ludwig Wittgenstein and John Searle’ 2nd ed (2019). Those interested in more of my writings may see ‘Talking Monkeys--Philosophy, Psychology, Science, Religion and Politics on a Doomed Planet--Articles and Reviews 2006-2019 3rd ed (2019), The Logical Structure of Human Behavior (2019), and Suicidal Utopian Delusions in the 21st Century 4th ed (2019) . (shrink)

America and the world are in the process of collapse from excessive population growth, most of it for the last century, and now all of it, due to 3rd world people. Consumption of resources and the addition of 4 billion more ca. 2100 will collapse industrial civilization and bring about starvation, disease, violence and war on a staggering scale. The earth loses at least 1% of its topsoil every year, and climate change will greatly decrease food production in much of (...) the world, so as it nears 2100, most of its food growing capacity will be gone. Billions will die and nuclear war is all but certain. In America, this is being hugely accelerated by massive immigration and immigrant reproduction, combined with abuses made possible by democracy. Depraved human nature inexorably turns the dream of democracy and diversity into a nightmare of crime and poverty. China will continue to overwhelm America and the world, destroying peace, prosperity and freedom, as long as it maintains the dictatorship which limits selfishness and permits united long term planning. The root cause of collapse is the inability of our innate psychology to adapt to the modern world, which leads people to treat unrelated persons as though they had common interests. The idea of human rights is an evil fantasy promoted by leftists to draw attention away from the merciless destruction of the earth by unrestrained 3rd world motherhood. This, plus ignorance of basic biology and psychology, leads to the social engineering delusions of the partially educated who control democratic societies. Few understand that if you help one person you harm someone else—there is no free lunch and every single item anyone consumes destroys the earth beyond repair. Consequently, social policies everywhere are unsustainable and one by one all societies without stringent controls on selfishness will collapse into anarchy or dictatorship. The most basic facts, almost never mentioned, are that there are not enough resources in America or the world to lift a significant percentage of the poor out of poverty and keep them there. The attempt to do this is bankrupting America and destroying the world. The earth’s capacity to produce food decreases daily, as does our genetic quality. And now, as always, by far the greatest enemy of the poor is other poor and not the rich. Without dramatic and immediate changes, there is no hope for preventing the collapse of America, or any country that follows a democratic system. -/- Those wishing a comprehensive up to date framework for human behavior from the modern two systems view may consult my book ‘The Logical Structure of Philosophy, Psychology, Mind and Language in Ludwig Wittgenstein and John Searle’ 2nd ed (2019). Those interested in more of my writings may see ‘Talking Monkeys--Philosophy, Psychology, Science, Religion and Politics on a Doomed Planet--Articles and Reviews 2006-2019 3rd ed (2019), The Logical Structure of Human Behavior (2019), and Suicidal Utopian Delusions in the 21st Century 4th ed (2019). (shrink)

The general aim of this article is to carry out a reconstruction of the theory of Population Dynamics (DP) in Ecology, according to Castle’s (2001) general stance with regard to the semantic view of theories, but doing it within the framework of metatheoretical structuralism. Thus, we will first identify Population Dynamics’ basic theory-element: its core K(DP) – with the class of potential models, the class of models (through the identification of its fundamental law) and the class of partial potential models (...) (though leaving aside the identification of its constraints and its intertheoretical links) –, and its domain of intended applications I(DP). Then, we will establish the general guiding lines of its theory-net, developing in some detail one of its main lines of specialization – namely, that related to the so-called “continuous growing” of the considered populations –, with DP’s principal “models”, and leave developing of the other of its main lines of specialization – namely, that related to the so-called “discrete growing” of the considered populations – for a further publication. (shrink)

The ecologist today finds scarce ground safe from controversy. Decisions must be made about what combination of data, goals, methods, and theories offers them the foundations and tools they need to construct and defend their research. When push comes to shove, ecologists often turn to philosophy to justify why it is their approach that is scientific. Karl Popper’s image of science as bold conjectures and heroic refutations is routinely enlisted to justify testing hypotheses over merely confirming them. One of the (...) most controversial theories in contemporary science is the Neutral Theory of Ecology. Its chief developer and proponent, Stephen Hubbell, presents the neutral theory as a bold conjecture that has so far escaped refutation. Critics of the neutral theory claim that it already stands refuted, despite what the dogmatic neutralists say. We see the controversy through a Popperian lens. But Popper’s is an impoverished philosophy of science that distorts contemporary ecology. -/- The controversy surrounding the neutral theory actually rests on a methodological fault. There is a strong but messy historical link between the concepts of being neutral and being null in biology, and Hubbell perpetuates this when he claims that the neutral theory is supplies the appropriate null for testing alternative theories. What method is being followed here? There are three contenders: -/- Null hypothesis testing tests for whether a there is a pattern to be explained. Null modeling tests for whether a process is causally relevant to a pattern. Baseline modeling apportions relative responsibility to multiple processes each relevant to a pattern. -/- Whether the neutral theory supplies an appropriate “null” depends upon whether null hypothesis, null modeling, or baseline model is intended. These methods prescribe distinct inference patterns. If they are null hypothesis testing or null modeling, the neutralists’s reasoning is invalid. If they are baseline modeling, the justification of a crucial assumption remains opaque. Either way, the neutral-null connection is being exploited rhetorically to privilege the neutral theory over its rivals. Clarifying the reasoning immunizes us against the rhetoric and foregrounds the underlying virtues of the neutralist approach to ecology. -/- The Popperian lens distorts theoretical development as dogmatism. Lakatos’s view of science as the development of research programmes clarifies the epistemology of the neutral theory. Focusing philosophical attention on the neutralist research programme illuminates (1) the synchronic uses of the neutral theory to make predictions and give descriptions and explanations; (2) its diachronic development in response to theoretical innovation and confrontation with data; (3) its complex relationships to alternative theories. For example, baseline modeling is now seen to be its primary explanatory heuristic. The justification for baseline modeling with the neutral theory, previously hidden from view, is seen in the logic of in the neutralist research programme. (shrink)

How do philosophers of science make use of historical case studies? Are their accounts of historical cases purpose-built and lacking in evidential strength as a result of putting forth and discussing philosophical positions? We will study these questions through the examination of three different philosophical case studies. All of them focus on modeling and on Vito Volterra, contrasting his work to that of other theoreticians. We argue that the worries concerning the evidential role of historical case studies in philosophy are (...) partially unfounded, and the evidential and hermeneutical roles of case studies need not be played against each other. In philosophy of science, case studies are often tied to conceptual and theoretical analysis and development, rendering their evidential and theoretic/hermeneutic roles intertwined. Moreover, the problems of resituating or generalizing local knowledge are not specific to philosophy of science but commonplace in many scientific practices—which show similarities to the actual use of historical case studies by philosophers of science. (shrink)

I review this report of an old medical congress on reproductive medicine. Much has happened in the 17 years since its publication but the most urgent task of preventing further population growth has largely failed on a global scale. I try to bring it up to date and briefly discuss the inexorable disaster coming as the world population passes 11 billion in the 22nd century. -/- Those wishing a comprehensive up to date framework for human behavior from the modern two (...) systems view may consult my book ‘The Logical Structure of Philosophy, Psychology, Mind and Language in Ludwig Wittgenstein and John Searle’ 2nd ed (2019). Those interested in more of my writings may see ‘Talking Monkeys--Philosophy, Psychology, Science, Religion and Politics on a Doomed Planet--Articles and Reviews 2006-2019 3rd ed (2019), The Logical Structure of Human Behavior (2019), and Suicidal Utopian Delusions in the 21st Century 4th ed (2019). (shrink)

This paper describes a traditional SIR type epidemic model with saturated infection rate and treatment function. The dynamics of the model is studied from the point of view of stability and bifurcation. Basic reproduction number is obtained and it is shown that the model system may possess a backward bifurcation. The global asymptotic stability of the endemic equilibrium is studied with the help of a geometric approach. Optimal control problem is formulated and solved. Some numerical simulation works are carried out (...) to validate our analytical results. (shrink)

The paper describes the context and the origin of a particular debate that concerns the evolution of phenotypic plasticity. In 1965, British biologist A. D. Bradshaw proposed a widely cited model intended to explain the evolution of norms of reaction, based on his studies of plant populations. Bradshaw’s model went beyond the notion of the “adaptive norm of reaction” discussed before him by Dobzhansky and Schmalhausen by suggesting that “plasticity” the ability of a phenotype to be modified by the environment (...) should be genetically determined. To prove Bradshaw’s hypothesis, it became necessary for some authors to identify the pressures exerted by natural selection on phenotypic plasticity in particular traits, and thus to model its evolution. In this paper, I contrast two different views, based on quantitative genetic models, proposed in the mid-1980s: Russell Lande and Sara Via’s conception of phenotypic plasticity, which assumes that the evolution of plasticity is linked to the evolution of the plastic trait itself, and Samuel Scheiner and Richard Lyman’s view, which assumes that the evolution of plasticity is independent from the evolution of the trait. I show how the origin of this specific debate, and different assumptions about the evolution of phenotypic plasticity, depended on Bradshaw’s definition of plasticity and the context of quantitative genetics. (shrink)

This discussion paper describes the attempt of an imagined group of non-ecologists to determine the population growth rate from field data. The Modellers wrestle with the multiple definitions of the growth rate available in the literature and the fact that, in their modelling, it appears to be drastically model-dependent, which seems to throw into question the very concept itself. Specifically, they observe that six representative models used to capture the data produce growth-rate values, which differ significantly. Almost ready to concede (...) that the problem they set for themselves is ill-posed, they arrive at an alternative point of view that not only preserves the identity of the concept of the growth rate, but also helps discriminate between competing models for capturing the data. This is accomplished by assessing how robustly a given model is able to generate growth-rate values from randomized time-series data. This leads to the proposal of an iterative approach to ecological modelling in which the definition of theoretical concepts and model selection complement each other. The paper is based on high-quality field data of mites on apple trees and may be called a “data-driven opinion piece”. (shrink)

Scientists use models to understand the natural world, and it is important not to conflate model and nature. As an illustration, we distinguish three different kinds of populations in studies of ecology and evolution: theoretical, laboratory, and natural populations, exemplified by the work of R.A. Fisher, Thomas Park, and David Lack, respectively. Biologists are rightly concerned with all three types of populations. We examine the interplay between these different kinds of populations, and their pertinent models, in three examples: the notion (...) of “effective” population size, the work of Thomas Park on /Tribolium/ populations, and model-based clustering algorithms such as /Structure/. Finally, we discuss ways to move safely between three distinct population types while avoiding confusing models and reality. (shrink)

What is it about simulation models that has led some practitioners to treat them as potential sources of empirical data on the real-world systems being simulated; that is, to treat simulations as ‘artificial worlds’within which to perform computational ‘experiments’? Here we use the work of Richard Levins as a starting point in identifying the appeal of this model building strategy, and proceed to account for why this appeal is strongest for computational modellers. This analysis suggests a perspective on simulation modelling (...) that makes room for ‘artificial worlds’ as legitimate science without having to accept that they should be treated as sources of empirical data. (shrink)

We describe a prey–predator system incorporating constant prey refuge through provision of alternative food to predators. The proposed model deals with a problem of non-selective harvesting of a prey–predator system in which both the prey and the predator species obey logistic law of growth. The long-run sustainability of an exploited system is discussed through provision of alternative food to predators. We have analyzed the variability of the system in presence of constant prey refuge and examined the stabilizing effect on predator–prey (...) system. The steady states of the system are derived and dynamical behavior of the system is extensively analyzed around steady states. The optimal harvesting policy is formulated and solved with the help of Pontryagin’s maximal principle. Our objective is to maximize the monetary social benefit through protecting the predator species from extinction, keeping the ecological balance. Results finally illustrated with the help of numerical examples. (shrink)

The problem of stability in population dynamics concerns many domains of application in demography, biology, mechanics and mathematics. The problem is highly generic and independent of the population considered . We give in this paper some examples of population dynamics concerning nucleic acids interacting through direct nucleic binding with small or cyclic RNAs acting on mRNAs or tRNAs as translation factors or through protein complexes expressed by genes and linked to DNA as transcription factors. The networks made of these interactions (...) between nucleic acids are complex, but exhibit simple emergent asymptotic behaviours, when time tends to infinity, called attractors. We show that the quantity called attractor entropy plays a crucial role in the study of the stability and robustness of such genetic networks. (shrink)

Reydon and Scholz raise doubts about the Darwinian status of organizational ecology by arguing that Darwinian principles are not applicable to organizational populations. Although their critique of organizational ecology’s typological essentialism is correct, they go on to reject the Darwinian status of organizational populations. This paper claims that the replicator-interactor distinction raised in modern philosophy of biology but overlooked for discussion by Reydon and Scholz provides a way forward. It is possible to conceptualize evolving Darwinian populations providing that the inheritance (...) mechanism is appropriately specified. By this approach, adaptation and selection are no longer dichotomized, and the evolutionary significance of knowledge transmission is highlighted. (shrink)

If you consult a medical textbook to learn about the pathogenesis of Lyme disease, you will find a standard narrative. You will learn the disease is caused by the spirochete Borrelia burgdorferi, which is transmitted to people by blacklegged ticks . You will also learn that the natural reservoir for spirochetes in the Northeast is the white-footed mouse , and also likely be told that white-tailed deer are the primary host for gravid female ticks. And that is pretty much the (...) whole story. This limited perspective that considers only four species—spirochetes, mice, ticks, and deer—is entrenched by a reductionist paradigm, one that belies the nature of a .. (shrink)

Outcomes of interspecific competition, and especially the possibility of coexistence, have been extensively studied in theoretical ecology because of their implications in community assemblages. During the last decades, the influence of different time scales through the local/regional dynamics of animal communities has received an increasing attention. Nevertheless, different time scales involved in interspecific competition can result form other processes than spatial dynamics. Here, we envision and analyze a new theoretical framework that couples a game theory approach for competition with a (...) demographic model. We take advantage of these two time scales to derive a reduced model governing the total densities of the two populations and we study how these two time scales interfere and influence outcomes of species competition. We find that a competition process occurring on a faster time scale than demography yields a “priority effect” where the first species introduced outcompetes the other one. We then confirm previous findings stipulating that species coexistence is favored by large difference in time scales because the extinction/recolonization process. Our results then highlight that an integration of demographic and competition time scales at both local and regional levels is mandatory to explain communities assemblages and should become a research priority. (shrink)

It has long been taken for granted that the immune system’s capacity to protect an individual from infection and disease depends on the power of the system to distinguish between self and nonself. However, accumulating data have undermined this fundamental concept. Evidence against the self/nonself discrimination model left researchers in need of a new overarching framework able to capture the immune system’s reactivity. Here, I highlight that along with the self/nonself model, another powerful representation of the immune system’s reactivity has (...) been developed in the twentieth century immunology. According to this alternative view, the immune system is not a killer of nonself strangers but a peace-maker helping to establish harmony with the environment. The balance view of the system has never become part of the dominant paradigm. However, it is gaining more and more currency as new research develops. Advances in mucosal immunology confirm that instead of distinguishing between self and foreign the immune system reacts to microbial, chemical and self-induced alterations to produce responses that counterbalance effects of these changes. (shrink)

In this paper I discuss the kinds of idealisations invoked in normative theories—logic, epistemology, and decision theory. I argue that very often the so-called norms of rationality are in fact mere idealisations invoked to make life easier. As such, these idealisations are not too different from various idealisations employed in scientific modelling. Examples of the latter include: fluids are incompressible (in fluid mechanics), growth rates are constant (in population ecology), and the gravitational influence of distant bodies can be ignored (in (...) celestial mechanics). Thinking of logic, epistemology, and decision theory as normative models employing various idealisations of these kinds, changes the way we approach the justification of the models in question. (shrink)

The status of population genetics has become hotly debated among biologists and philosophers of biology. Many seem to view population genetics as relatively unchanged since the Modern Synthesis and have argued that subjects such as development were left out of the Synthesis. Some have called for an extended evolutionary synthesis or for recognizing the insignificance of population genetics. Yet others such as Michael Lynch have defended population genetics, declaring "nothing in evolution makes sense except in the light of population genetics" (...) (a twist on Dobzhansky's famous slogan that "nothing in biology makes sense except in the light of evolution"). Missing from this discussion is the use of population genetics to shed light on ecology and vice versa, beginning in the 1940s and continuing until the present day. I highlight some of that history through an overview of traditions such as ecological genetics and population biology, followed by a slightly more in-depth look at a contemporary study of the endangered California Tiger Salamander. I argue that population genetics is a powerful and useful tool that continues to be used and modified, even if it isn't required for all evolutionary explanations or doesn't incorporate all the causal factors of evolution. (shrink)

In this paper we build a prey–predator model with discrete weight structure for the predator. This model will conserve the number of individuals and the biomass and both growth and reproduction of the predator will depend on the food ingested. Moreover the model allows cannibalism which means that the predator can eat the prey but also other predators. We will focus on a simple version with two weight classes or stage and present some general mathematical results. In the last part, (...) we will assume that the dynamics of the prey is fast compared to the predator’s one to go further in the results and eventually conclude that under some conditions, cannibalism can stabilize the system: more precisely, an unstable equilibrium without cannibalism will become almost globally stable with some cannibalism. Some numerical simulations are done to illustrate this result. (shrink)

Studying populations, be it a microbe colony or mankind, is important for understanding how complex systems evolve and exist. Such knowledge also often provides insights into evolution, history and different aspects of human life. By and large, populations’ prosperity and decline is about transformation of certain resources into quantity and other characteristics of populations through growth, replication, expansion and acquisition of resources. We introduce a general model of population change, applicable to different types of populations, which interconnects numerous factors influencing (...) population dynamics, such as nutrient influx and nutrient consumption, reproduction period, reproduction rate, etc. It is also possible to take into account specific growth features of individual organisms. We considered two recently discovered distinct growth scenarios: first, when organisms do not change their grown mass regardless of nutrients availability, and the second when organisms can reduce their grown mass by several times in a nutritionally poor environment. We found that nutrient supply and reproduction period are two major factors influencing the shape of population growth curves. There is also a difference in population dynamics between these two groups. Organisms belonging to the second group are significantly more adaptive to reduction of nutrients and far more resistant to extinction. Also, such organisms have substantially more frequent and lesser in amplitude fluctuations of population quantity for the same periodic nutrient supply . Proposed model allows adequately describing virtually any possible growth scenario, including complex ones with periodic and irregular nutrient supply and other changing parameters, which present approaches cannot do. (shrink)

Mathematical modeling is a convenient way for characterization of complex ecosystems. This approach was applied to study the dynamics of zooplankton in Lake Sevan at different stages of anthropogenic eutrophication with the use of a novel method called discrete modeling of dynamical systems with feedback . Simulation demonstrated that the application of this method helps in characterization of inter- and intra-component relationships in a natural ecosystem. This method describes all possible pairwise inter-component relationships like “plus–plus,” “minus–minus,” “plus–minus,” “plus–zero,” “minus–zero,” and (...) “zero–zero” that occur in most ecosystems. Based on the results, a working hypothesis was formulated. It was found that the sensitivity to weak external influence in zooplanktons was the greatest during the mid period of eutrophication in Lake Sevan, whereas in the final stages of eutrophication, an outbreak in the biomass production of cyanobacteria was evident. To support this approach, a weak external disturbance in the form of magnetic storm was used to see its effect on species Daphnia longispina sevanica. A statistically significant correlation between the frequency of magnetic storms and the number of this species was revealed and an increase in the number of toxic cyanobacteria species as a consequence of eutrophication. This paper, for the first time, suggests a DMDS method, to diagnose impact of anthropogenic eutrophication on environment. (shrink)

Australasian Journal of Philosophy, Volume 90, Issue 1, Page 192-195, March 2012.

Parameters of a Bertalanffy type of temperature dependent growth model are fitted using data from a population of stone loach ( Barbatula barbatula ). Over two periods respectively in 1990 and 2010 length data of this population has been collected at a lowland stream in the central part of the Netherlands. The estimation of the maximum length of a fully grown individual is given special attention because it is in fact found as the result of an extrapolation over a large (...) interval of the entire lifetime. It is concluded that this parameter should not at forehand be set at one fixed value for the population at that location due to varying conditions over the years. (shrink)

Conservation Biologists have found that demographic stochasticity causes the mean time to extinction to increase exponentially with population size. This has proved helpful in analyses determining extinction times and characterizing the pathway to extinction. The aim of this investigation is to explore the possible interactions between environmental/demographic noises and the scaling effect of the mean population size with its variance, which is expected to follow Taylor’s power law relationship. We showed that the combined effects of environmental/demographic noises and the scaling (...) of population size variability interact with the population dynamics and affect the mean time to extinction. (shrink)

This paper presents the intelligent virtual animals that inhabit Omosa, a virtual learning environment to help secondary school students learn how to conduct scientific inquiry and gain concepts from biology. Omosa supports multiple agents, including animals, plants, and human hunters, which live in groups of varying sizes and in a predator-prey relationship with other agent types (species). In this paper we present our generic agent architecture and the algorithms that drive all animals. We concentrate on two of our animals to (...) present how different parameter values affect their movements and inter/intra-group interactions. Two evaluations studies are included: one to demonstrate the effect of different components of our architecture; another to provide domain expert validation of the animal behavior. (shrink)

Thomson, Kelvin You might be surprised to learn that China, home of the much derided one-child policy, has a higher birth rate than Italy, home of the Vatican. This suggests Chinese families are quietly defying their political leaders and Italian families are quietly defying their religious ones. But the overall global picture is one of rapid population growth.

On the face of it, ethics and decision theory give quite different advice about what the best course of action is in a given situation. In this paper we examine this alleged conflict in the realm of environmental decision-making. We focus on a couple of places where ethics and decision theory might be thought to be offering conflicting advice: environmental triage and carbon trading. We argue that the conflict can be seen as conflicts about other things (like appropriate temporal scales (...) for value assignments, idealisations of the decision situation, whether the conservation budget really is fixed and the like). The good news is that there is no conflict between decision theory and environmental ethics. The bad news is that a great deal of environmental decision modelling may be rather simple minded, in that it does not fully incorporate some of these broader issues about temporal scales and the dynamics of many of the decision situations. (shrink)

The most pressing problems facing humanity today - over-population, energy shortages, climate change, soil erosion, species extinctions, the risk of epidemic disease, the threat of warfare that could destroy all the hard-won gains of civilization, and even the recent fibrillations of the stock market - are all ecological or have a large ecological component. in this volume philosophers turn their attention to understanding the science of ecology and its huge implications for the human project. To get the application of ecology (...) to policy or other practical concerns right, humanity needs a clear and disinterested philosophical understanding of ecology which can help identify the practical lessons of science. Conversely, the urgent practical demands humanity faces today cannot help but direct scientific and philosophical investigation toward the basis of those ecological challenges that threaten human survival. This book will help to fuel the timely renaissance of interest in philosophy of ecology that is now occurring in the philosophical profession. Provides a bridge between philosophy and current scientific findings Covers theory and applications Encourages multi-disciplinary dialogue. (shrink)

In this paper we introduce a stochastic model for a population living and migrating between s sites without distinction in the states between residents and immigrants. The evolutionary stable strategies is characterized by the maximization of a stochastic growth rate. We obtain that the expectation of reproductive values, normalized by some random quantity, are constant on all sites and that the expectation of the normalized vector population structure is proportional to eigenvector of the dispersion matrix associated to eigenvalue one, which (...) are, in some way, analogous to the results obtained in the deterministic case. (shrink)

In his 1966 paper “The Strategy of model-building in Population Biology”, Richard Levins argues that no single model in population biology can be maximally realistic, precise and general at the same time. This is because these desirable model properties trade-off against one another. Recently, philosophers have developed Levins’ claims, arguing that trade-offs between these desiderata are generated by practical limitations on scientists, or due to formal aspects of models and how they represent the world. However this project is not complete. (...) The trade-offs discussed by Levins had a noticeable effect on modelling in population biology, but not on other sciences. This raises questions regarding why such a difference holds. I claim that in order to explain this finding, we must pay due attention to the properties of the systems, or targets modelled by the different branches of science.Keywords: Trade-offs; Population biology; Scientific models; Generality; Precision. (shrink)

This book presents Bertram Murray's philosophy of science, unpublished papers, and rebuttals to critics of these papers. Subjects include clutch size, population dynamics, life history tables, and mating systems.

The quantitative study of fecundity, mortality and population movements, and the analysis of social areas in urban environments, can be used as a tool to draw up a diagnostic of the sociodemographic of cities. The availability and the depth of municipal detail contained in information obtained from national and/or regional statistical institutions means that the Census of Population and Housing, the Natural Movement of Population and the Continuous Register can be used as sources of reference in studies of this type. (...) The city of Valencia is used as an example for a demographic study of recent changes in birth rates, population aging and migration. On a space of reduced dimensions, specific thematic maps delimit the social areas involved and show the inequalities in the distribution of the socioeconomic status and the life cycle of the resident population and foreigners. (shrink)