The article explores the influence of unproven specificity of pathogenesis manifested in clinical psychiatry and research. A selected literature review of studies attempting to identify a biological marker is presented. To date, the search for a biological marker to establish a psychiatric diagnosis has been unsuccessful. Clinical settings and programs are described which seem to be driven by psychological issues, one such example being the search for villains. Thus, specific assumptions about etiology affect therapy technique and treatment planning (...) and may be disadvantageous to patient care. Biological and psychological development in all of its phases is subject to a diverse range of perturbations, intrinsic as well as extrinsic. A flexible, balanced view is called for before specificity is extended to general theories, which, in turn, affect therapy and treatment settings. (shrink)

This manuscript reviews recent evidence supporting the utility of telomeres and mitochondrial DNA copy number (mtDNAcn) in detecting the biological impacts of adverse childhood experiences (ACEs) and outlines mechanisms that may mediate the connection between early stress and poor physical and mental health. Critical to interrupting the health sequelae of ACEs such as abuse, neglect, and neighborhood disorder, is the discovery of biomarkers of risk and resilience. The molecular markers of chronic stress exposure, telomere length and mtDNAcn, represent (...) critical biological links between ACEs and poor health outcomes. We examine how telomeres and mtDNAcn may exacerbate health disparities and contribute to the intergenerational transmission of trauma. Finally, we explore how these molecular markers of early stress exposure may help define the role of resilience and develop effective interventions to moderate ACE health risk impact. (shrink)

People often signal their membership in groups through their clothes, hairstyle, posture, and dialect. Most existing evolutionary models argue that markers label group members so individuals can preferentially interact with those in their group. Here we ask why people mark ethnic differences when interethnic interaction is routine, necessary, and peaceful. We asked research participants from three ethnic groups in southwestern Madagascar to sort photos of unfamiliar people by ethnicity, and by with whom they would prefer or not prefer to (...) cooperate, in a wage labor vignette. Results indicate that southwestern Malagasy reliably send and detect ethnic signals; they signal less in the marketplace, a primary site of interethnic coordination and cooperation; and they do not prefer co-ethnics as cooperation partners in novel circumstances. Results from a cultural knowledge survey and calculations of cultural FST suggest that these ethnic groups have relatively little cultural differentiation. We concur with Moya and Boyd that ethnicity is unlikely to be a singular social phenomenon. The current functions of ethnic divisions and marking may be different from those at the moment of ethnogenesis. Group identities may persist without group conflict or differentiation. (shrink)

The central role of such epistemic concepts as theory, explanation, model, or mechanism is rarely questioned in philosophy of science. Yet, what is their actual use in the practice of science? In this philosophy of science project, we deploy text-mining methods to investigate the usage of 61 epistemic notions in a corpus of full-text articles from the biological and biomedical sciences (N=73,771). The influence of disciplinary context is also examined by splitting the corpus into sub-disciplinary clusters. The results reveal (...) the intricate semantic networks that these concepts actually form in the scientific discourse, not always following our intuitions, at least in some parts of science. The research is published in: Malaterre, Christophe & Martin Léonard. 2023. "Epistemic markers in the scientific discourse", Philosophy of Science. (shrink)

It is widely agreed that social factors are related to health outcomes: much research served to establish correlations between classes of social factors on the one hand and classes of disease on the other hand. However, why and how social factors are an active part in the aetiology of disease development is something that is gaining attention only recently in the health sciences and in the medical humanities. In this paper, we advance the view that, just as bio-markers help (...) trace the causal continuum from exposure to disease development at the biological level, socio-markers ought to be introduced and studied in order to trace the social continuum from exposure to disease development. We explain how socio-markers differ from social indicators and how they can be used in combination with bio-markers in order to reconstruct the mixed mechanisms of health and disease, namely mechanisms in which both biological and social factors have an active causal role. (shrink)

For the past 500 years, to varying degrees, the processes of religious secularization have been occurring in what today are the wealthy, highly educated, industrialized nations of the world. They are causing organized religion, as a social institution, to go from being a very important influence on the lives of people and the nations in which they live to being a smaller influence, or almost no influence at all. Various disciplines from theology to psychology to sociology have tried to explain (...) secularization, each discipline contributing something unique. One discipline that has not contributed has been biology. From a biological perspective, based on observation and reasoning, at least one of the ultimate functions of the physical forms associated with religion appear to be that of in-group marker for a breeding population, which, as will be shown, is how all religions start. Religions structure larger human populations into smaller “clusters” that are separate in-group breeding populations. The clustering into smaller in-group breeding populations prevents the spread of contagious diseases and creates inter-group competition and intra-group cooperation, both of which have contributed to human eusociality, a very rare type of social organization that will be explained. As the physical forms of religion are losing this in-group-marker function of clustering populations with modernity, a general biological principle comes into play, which is “form follows function, and as function wanes, so does form.” When applied to religion, “form” means the physical components by which all religions are built. The specific meaning of “physical,” as used here, will be explained in the article. This biological perspective, which is counter-intuitive and can generate testable hypotheses, should complement, not compete, with perspectives from other disciplines. Physical forms in biology can and often do have more than one function, so the same form with a biological function can also have psychological and theological functions. The physical forms of religion are its objects of natural (genetic and cultural) selection. As socio-economic modernity spreads through the world, the evolutionary biological trajectory suggests that religion, as a social institution, will eventually become extinct. (shrink)

In this paper, rather than focusing on genes as an organising concept around which historical considerations of theory and practice in genetics are elucidated, we place genetic markers at the heart of our analysis. This reflects their central role in the subject of our account, livestock genetics concerning the domesticated pig, Sus scrofa. We define a genetic marker as a element existing in different forms in the genome, that can be identified and mapped using a variety of quantitative, classical (...) and molecular genetic techniques. The conjugation of pig genome researchers around the common object of the marker from the early-1990s allowed the distinctive theories and approaches of quantitative and molecular genetics concerning the size and distribution of gene effects to align in projects to populate genome maps. Critical to this was the nature of markers as ontologically inert, internally heterogeneous and relational. Though genes as an organising and categorising principle remained important, the particular concatenation of limitations, opportunities, and intended research goals of the pig genetics community, meant that a progressively stronger focus on the identification and mapping of markers rather than genes per se became a hallmark of the community. We therefore detail a different way of doing genetics to more gene-centred accounts. By doing so, we reveal the presence of practices, concepts and communities that would otherwise be hidden. (shrink)

In this paper, rather than focusing on genes as an organising concept around which historical considerations of theory and practice in genetics are elucidated, we place genetic markers at the heart of our analysis. This reflects their central role in the subject of our account, livestock genetics concerning the domesticated pig, Sus scrofa. We define a genetic marker as a element existing in different forms in the genome, that can be identified and mapped using a variety of quantitative, classical (...) and molecular genetic techniques. The conjugation of pig genome researchers around the common object of the marker from the early-1990s allowed the distinctive theories and approaches of quantitative and molecular genetics concerning the size and distribution of gene effects to align in projects to populate genome maps. Critical to this was the nature of markers as ontologically inert, internally heterogeneous and relational. Though genes as an organising and categorising principle remained important, the particular concatenation of limitations, opportunities, and intended research goals of the pig genetics community, meant that a progressively stronger focus on the identification and mapping of markers rather than genes per se became a hallmark of the community. We therefore detail a different way of doing genetics to more gene-centred accounts. By doing so, we reveal the presence of practices, concepts and communities that would otherwise be hidden. (shrink)

Nowhere is current controversy over biological explanations for human behaviour more striking than in debates over violence. New theories are being formulated, and biological markers are being identified in new ways. The terms of discourse and debate are being changed. Violence may be represented as a pathological biological syndrome, or as natural, especially for men. Why the growing interest now in biological explanations of violence? Is the biology of violence suggestive of a new brand of (...) biological determinism? This latter, broader question poses a challenge to the argument that current biological theories of behaviour are different and better than faulty, often racist and eugenicist, theories which have gone before. New theories do not reduce to linear cause-and-effect explanations, and there are no `genes for crime'. Nevertheless, there is a question of geneticism, `the doctrine of the primacy of the genetic make-up in determining every aspect of the human mind, constitution and social behaviour...' (Medawar, 1984: 255). (shrink)

Analysis of a European Union funded biotechnology project on plant genomics and marker assisted selection in Solanaceous crops shows that the organization of a dialogue between science and society to accompany technological innovations in plant breeding faces practical challenges. Semi-structured interviews with project participants and a survey among representatives of consumer and other non-governmental organizations show that the professed commitment to dialogue on science and biotechnology is rather shallow and has had limited application for all involved. Ultimately, other priorities tend (...) to prevail because of high workload. The paper recommends including results from previous debates and input from societal groups in the research design phase (prior to communication), to use appropriate media to disseminate information and to make explicit how societal feedback is used in research, in order to facilitate true dialogue between science and society on biotechnology. (shrink)

The target paper (building on Ginsburg and Jablonka in JTB 381:55–60, 2015, The evolution of the sensitive soul: Learning and the origins of consciousness, MIT Press, USA, 2019) makes a significant and novel claim: that positive cases of non-human consciousness can be identified via the capacity of unlimited associative learning (UAL). In turn, this claim is generated by a novel methodology, which is that of identifying an evolutionary ‘transition marker’, which is claimed to have theoretical and empirical advantages over other (...) approaches. In this commentary I argue that UAL does not function as a successful transition marker (as defined by the authors), and has internal problems of its own. However, I conclude that it is still a very productive anchor for new research on the evolution of consciousness. (shrink)

Moral progress may be a matter of time scale. If intuitive measures of moral progress like the degree of physical violence within a society are taken as empirical markers, then most human societies have experienced moral progress in the last few centuries. However, if the development of the human species is taken as relevant time scale, there is evidence that humanity has experienced a global moral decline compared to a small-band hunter-gatherer baseline that represents a lifestyle presumed to largely (...) account for 99% of human history. A counter-argument to such a diagnosis of moral decline is the fact that the living conditions of the modern world that emerged since sedentariness and the beginning of agriculture are completely different compared to those of SBHG due to cultural and technological developments. We therefore suggest that two notions of moral progress should be distinguished: a “biological notion” referring to the inherited capacities typical of the evolutionary niche of mammals and that unfold in a specific way in the human species; and a “cultural notion” that relates moral progress to dealing with an increasing diversity of temptations and possible wrongdoings in a human social world whose complexity accumulates in time. In our contribution, we describe these two different notions of moral progress, we discuss how they interact, how this interaction impacts the standards by which we measure moral progress, and we provide suggestions and justifications for re-aligning biological and cultural moral progress. (shrink)

The ArgumentMany associations have recently been discovered between phenotypic variation and genetic loci, causing some to advocate what Robert Sinsheimer has called “a new eugenics” that would treat genetic “defects” in individuals prone to a disease. The first premise of this vision is that genetic association studies reveal the biological cause of the phenotypic variation. Once the responsible genes are known, the second premise is that we should focus upon changing “nature” rather than “nurture” by correcting the “defective” genes.The (...) first premise is flawed because associations between genetic markers and phenotypes can be spurious, as shown by an example. Moreover, it is shown that using non-causative but associated genetic markers one at a time (the normal practice) can lead to incorrect predictions of disease risk for many individuals. Going from association to causation is a non-trivial step scientifically that has rarely been done in much of the human genetic research.Even when a particular locus does contribute to the phenotypic variation of interest, the first premise remains flawed because phenotypes in general arise from complex interactions among genes and between genes and environments as shown for genes associations with coronary artery disease (CAD). The ability of current molecular genetic tools to “fix” defective genotypes is extremely limited, but even if the technological problems could be overcome, the studies on CAD reveal no obvious “defective” gene to fix because the genetic effects are so context dependent (upon both other genes and environmental factors). Contrary to the second premise of the new eugenics, the more we learn about how different genotypes show variable responses to environments, themoreimportant the environment becomes for individual treatment.The paradigm of a “defective gene” may work for classical Mendelian genetic diseases that are due to loss-of-function mutations. However, such mutations affect only a small portion of humanity. When the focus is changed to common disease and behavioral phenotypes, the “defective gene” paradigm is biologically meaningless and often harmful when applied to individuals. Thus, even when genes clearly do influence common phenotypic variation, the premises of the “new eugenics” are biologically indefensible. (shrink)

Ancient DNA has been discovered in many types of preserved biological material, including bones, mummies, museum skins, insects in amber and plant fossils, and has become an important research tool in disciplines as diverse as archaeology, conservation biology and forensic science. In archaeology, ancient DNA can contribute both to the interpretation of individual sites and to the development of hypotheses about past populations. Site interpretation is aided by DNA‐based sex typing of fragmentary human bones, and by the use of (...) genetic techniques to assess the degree of kinship between the remains of different individuals. On a broader scale, population migrations can be traced by studying genetic markers in ancient DNA, as in recent studies of the colonisation of the Pacific islands, while ancient DNA in preserved plant remains can provide information on the development of agriculture. (shrink)

Magnetic resonance imaging (MRI) is an imaging technique with a rapidly expanding application range. This methodology, which relies on quantum physics and substance magnetic properties, is now being routinely used in the clinics and medical research. With the advent of measuring functional brain activity with MRI (functional MRI), this methodology has reached a larger section of the neuroscience community (e.g. psychologists, neurobiologists). In the past, the use of MRI as a biomarker or as an assay to probe tissue pathophysiological condition (...) was limited. However, with the new applications of MRI: molecular imaging, contrast‐enhanced imaging and diffusion imaging, MRI is turning into a powerful tool for in vivo characterization of tissue pathophysiology. This review focuses on the diffusion MRI. Although it only measures the averaged Brownian translational motion of water molecules, using different analysis schemes, one can extract a wide range of quantitative indices that represent tissue morphology and compartmentalization. Statistical and visualization routines help to relate these indices to biologically relevant measures such as cell density, water content and size distribution. The aim of this review is to shed light on the potential of this methodology to be used in biological research. To that end, this review is intended for the non‐MRI specialists who wish to pursue biological research with this methodology. We will overview the current applications of diffusion MRI and its relation to cellular biology of brain tissue. BioEssays 30:1235–1245, 2008. © 2008 Wiley Periodicals, Inc. (shrink)

Advances in genetics may soon make possible the development of ethnic bioweapons that target specific ethnic or racial groups based upon genetic markers. While occasional published reports of such research generate public outrage, little has been written about the ethical distinction (if any) between the development of such weapons and ethnically neutral bioweapons. The purpose of this paper is to launch a debate on the subject of ethnic bioweapons before they become a scientific reality.

The co-occurrence of stress-induced posttraumatic stress disorder and obesity is common, particularly among military personnel but the link between these conditions is unclear. Individuals with comorbid PTSD and obesity manifest other physical and psychological problems, which significantly diminish their quality of life. Current understanding of the pathways connecting stress to PTSD and obesity is focused largely on behavioral mediators alone with little consideration of the biological regulatory mechanisms that underlie their co-occurrence. In this work, we leverage prior knowledge to (...) systematically highlight such bio-behavioral mechanisms and inform on the design of confirmatory pilot studies. We use natural language processing to extract documented regulatory interactions involved in the metabolic response to stress and its impact on obesity and PTSD from over 8 million peer-reviewed papers. The resulting network describes the propagation of stress to PTSD and obesity through 34 metabolic mediators using 302 documented regulatory interactions supported by over 10,000 citations. Stress jointly affected both conditions through 21 distinct pathways involving only two intermediate metabolic mediators out of a total of 76 available paths through this network. Moreover, oxytocin, Neuropeptide-Y, and cortisol supported an almost direct propagation of stress to PTSD and obesity with different net effects. Although stress upregulated both NPY and cortisol, the downstream effects of both markers are reported to relieve PTSD severity but exacerbate obesity. The stress-mediated release of oxytocin, however, was found to concurrently downregulate the severity of both conditions. These findings highlight how a network-informed approach that leverages prior knowledge might be used effectively in identifying key mediators like OXT though experimental verification of signal transmission dynamics through each path will be needed to determine the actual likelihood and extent of each marker’s participation. (shrink)

We here review primary methods used in quantifying and mapping 5‐hydroxymethylcytosine (5hmC), including global quantification, restriction enzyme‐based detection, and methods involving DNA‐enrichment strategies and the genome‐wide sequencing of 5hmC. As discovered in the mammalian genome in 2009, 5hmC, oxidized from 5‐methylcytosine (5mC) by ten‐eleven translocation (TET) dioxygenases, is increasingly being recognized as a biomarker in biological processes from development to pathogenesis, as its various detection methods have shown. We focus in particular on an ultrasensitive single‐molecule imaging technique that can (...) detect and quantify 5hmC from trace samples and thus offer information regarding the distance‐based relationship between 5hmC and 5mC when used in combination with fluorescence resonance energy transfer. (shrink)

Recent reports that human pluripotent stem cells can be captured in a spectrum of states with variable properties has prompted a re‐evaluation of how pluripotency is acquired and stabilised. The latest additions to the stem cell hierarchy open up opportunities for understanding human development, reprogramming, and cell state transitions more generally. Many of the new cell lines have been collectively termed ‘naïve’ human pluripotent stem cells to distinguish them from the conventional ‘primed’ cells. Here, several transcriptional and epigenetic hallmarks of (...) human pluripotent states in the recently described cell lines are reviewed and evaluated. Methods to derive and identify human naïve pluripotent stem cells are also discussed, with a focus on the uses and future developments of state‐specific reporter cell lines and cell‐surface proteins. Finally, opportunities and uncertainties in naïve stem cell biology are highlighted, and the current limitations of human naïve pluripotent stem cells considered, particularly in the context of differentiation. (shrink)

Birch, Ginsburg, and Jablonka suggest that Unlimited Associative Learning is a “transition marker” in the evolutionary process that produced consciousness, and organizes research by tying together a range of “hallmarks” of consciousness. I argue that the features they recognize as “hallmarks” are indeed important in the evolution of consciousness, but UAL may have a more limited role.

Ethnographically, “fecal free” is a lexical marker that invokes a form of industrialized swine husbandry used in large-scale confinement hog production. Using participant observation and interview research with Illinois contract hog producers, I explore the basis of this husbandry in the biological fragility of confinement hogs. Rather than biology being a simplistic “state of nature,” as it was in early neo-Marxist and populist studies of the 1970s, the frailty of confinement hogs suggests that industrial hog biology is a socially (...) constructed state that justifies the use of contract-based hog production units and their coordination with animal processors. The frailty of confinement hogs results from their genetic characteristics, from the conditions in which they are raised, and from a production rationality that equates animal health with production efficiency. I detail the multiple-site methods, confinement technologies, and contract-based production organization required to raise biologically fragile hogs. And I link hog biology directly to the unequal contract-based relations between actors in industrial pork networks. My study emphasizes the relevance of ethnographic analyses within a political economy of agriculture by describing specific relations of inequalities in local and regional production units and distribution networks that form the building blocks of larger global agro-food systems. (shrink)

During the Notre Dame workshop on Vaught's Conjecture, Hjorth and Kechris asked which Borel equivalence relations can arise as the isomorphism relation for countable models of a first-order theory. In particular, they asked if the isomorphism relation can be essentially countable but not tame. We show this is not possible if the theory has uncountably many types.

We outline the Hrushovsk-Sokolović proof of Vaught's Conjecture for differentially closed fields, focusing on the use of dimensions to code graphs.

The book considers biology in parallel with philosophical structuralism in order to argue that notions of form in the organism are analogous to similar ideas in structuralist philosophy and literary theory. This analogy is then used to shed light on debates among biological scientists from the turn of the 19th century to the present day, including Cuvier, Geoffroy Saint-Hilaire, Dawkins, Crick, Goodwin, Rosen and West-Eberhard. The book critiques the endorsement of genetic manipulation and bioengineering as keys to solving agricultural (...) and environmental problems, suggesting that alternative models have been marginalized in the promotion of this discourse. Drawing from the work of philosophers including Cassirer, Saussure, Jakobson and Foucault the book ultimately argues that methods based on agroecology, supported by molecular applications (such as marker-assisted selection, MAS), can both advance agricultural development and remain focused on the whole organism. (shrink)

The doctrine of double effect has a firm, respected position within Roman Catholic medical ethics. In addition, public debate often incorporates this doctrine when determining the acceptability of certain actions. This essay examines and assesses the application of this doctrine to end-of-life decisions. National Catholic Bioethics Quarterly 11.1 (Spring 2011): 99–119.

Physical attractiveness affects how one gets treated, but it is just a single component of one's overall “market value.” One's treatment depends on other markers of market value, including social status, competence, warmth, and any other cues of one's ability or willingness to confer benefits on partners. To completely understand biased treatment, we must also incorporate these other factors.

Parvalbumins (PVs) are acidic, intracellular Ca2+‐binding proteins of low molecular weight. They are associated with several Ca2+‐mediated cellular activities and physiological processes. It has been suggested that PV might function as a “Ca2+ shuttle” transporting Ca2+ from troponin‐C (TnC) to the sarcoplasmic reticulum (SR) Ca2+ pump during muscle relaxation. Thus, PV may contribute to the performance of rapid, phasic movements by accelerating the contraction–relaxation cycle of fast‐twitch muscle fibers. Interestingly, PVs promote the generation of power stroke in fish by speeding (...) up the rate of relaxation and thus provide impetus to attain maximal sustainable speeds. However, immunological monitoring of diverse tissues demonstrated that PVs are also present in non‐muscle cells. The axoplasmic transport and various intracellular secretory mechanisms including the endocrine secretions seem to be controlled by the Ca2+ regulation machinery. Any defect in the Ca2+ handling apparatus may cause several clinical problems; for instance, PV deficiency alters the neuronal activity, a key mechanism leading to epileptic seizures. Moreover, atypical relaxation of the heart results in diastolic dysfunction, which is a major cause of heart failure predominantly among the aged people. PV may offer a unique potential to correct defective relaxation in energetically compromised failing hearts through PV gene transfer. Consequently, PV gene transfer may present a new therapeutic approach to correct cellular disturbances in Ca2+ signaling pathways of diseased organs. Hence, PVs appear to be amazingly useful candidate proteins regulating a variety of cellular functions through action on Ca2+ flux management. (shrink)

Brain age prediction is a relatively new tool in neuro-medicine and the neurosciences. In research and clinical practice, it finds multiple use as a marker for biological age, for general health status of the brain and as an indicator for several brain-based disorders. Its utility in all these tasks depends on detecting outliers and thus failing to correctly predict chronological age. The indicative value of brain age prediction is generated by the gap between a brain’s chronological age and the (...) predicted age, the brain age gap (BAG). This article shows how the clinical and research use of brain age prediction tacitly pathologizes the states that it is sensitive to. It will be argued that the tacit character of this transformation conceals the need for its explicit justification. (shrink)

We show that the structure (C,+,·) has no proper non locally modular reducts which contain +. In other words, if $X \subset \mathbf{C}^n$ is constructible and not definable in the module structure (C,+,λ a ) a ∈ C (where λ a denotes multiplication by a) then multiplication is definable in (C,+,X).

Photographs by one of French cinema's most influential and enigmatic artists. Any new film and any new book by French filmmaker Chris Marker is an event. Marker gave film lovers one of their most memorable experiences with La Jetée —a time-travel montage set after a nuclear war that inspired Terry Gilliam's Twelve Monkeys. His still camerawork is not as well known, but Marker has been taking photographs as long as he has been making films. Staring Back presents 200 black-and-white photographs (...) from Marker's personal archives, taken from 1952 to 2006. Some of the photographs are related to his classic films, others are portraits of famous faces, but most are pictures of people Marker has encountered as he has traveled the world. The central section of the book contains a series of photographs documenting political protests Marker has witnessed, including the march on the Pentagon in 1967, the events of May 1968 in Paris, and the tumultuous 2006 demonstrations protesting the French government's proposed employment policies. The photographs are accompanied by several unpublished texts by Marker, including the English language text of The Case of the Grinning Cat and Marker's annotations for some of the photos. The book—which appears in conjunction with an exhibition at the Wexner Center for the Arts at The Ohio State University—also includes essays by Wexner Center curator Bill Horrigan and art historian Molly Nesbit. (shrink)

Die vorliegenden Beiträge in deutscher und englischer Sprache behandeln begriffliche, normative und empirische Probleme der Demokratie aus Sicht der Analytischen Politischen Theorie. Sie beschäftigen sich mit Themen wie Freiheit und Zwang, Ungleichheit und Ungerechtigkeit, Wahlversprechen und Dirty Hands. Das Motto dieses Sammelbandes ist folglich ‚Einheit in Vielfalt‘: Er gibt einen außergewöhnlichen Einblick in den Facettenreichtum der aktuellen Forschungsdiskussionen im Rahmen der Analytischen Politischen Theorie.