Random copying,frequency-dependent copying and culture change

Previous evolutionary analyses of human culture have found that a simple model of random copying, analogous to neutral genetic drift, can generate the distinct power-law frequency distribution of cultural traits that is typical of various real-world cultural datasets, such as first names, patent citations and prehistoric pottery types. Here, we use agent-based simulations to explore the effects of frequency-dependent copying (e.g., conformity and anti-conformity) on this power-law distribution. We find that when traits are actively selected on the basis of their frequency, then the power-law distribution is severely disrupted. Conformity generates a “winner-takes-all” distribution in which popular traits dominate, while anti-conformity generates a “humped” distribution in which traits of intermediate frequency are favoured. However, a more passive frequency-dependent “trimming”, in which traits are selectively ignored on the basis of their frequency, generates reasonable approximations to the power-law distribution. This frequency-dependent trimming may therefore be difficult to distinguish from genuine random copying using population-level data alone. Implications for the study of both human and nonhuman culture are discussed.     

A mathematical model of phytoremediation for petroleum contaminated soil: sensitivity analysis

Phytoremediation is an attractive treatment technology for many contaminated sites due to its cost effectiveness and public acceptance. We present a sensitivity analysis of important parameters from a screening level model for phytoremediation by grass species of weathered petroleum-contaminated sites. The conceptual framework is that root movement through contaminated soil will enhance contaminant biodegradation by providing a local environment more favorable for petroleum degrading microorganisms—the so-called rhizosphere effect. Common questions in phytoremediation are, “What species should be planted?” and “What management practices should be followed?” These choices may affect degradation kinetics, root biomass (and therefore rhizosphere volume), and the root turnover. Important model parameters are the rate constants, rhizosphere volume, and the rate of root turnover. We present a sensitivity analysis with the aim of identifying the most important factors for improving phytoremediation effectiveness. For simulations of the phytoremediation of weathered diesel range organics, our results indicate that annual species, with higher root turnover, are preferred over perennial species with the caveat of equal degradation rate constants, that is, no species-dependent effects. In addition, the results suggest that the management of nonrhizosphere soil could play an important role in the overall effectiveness of phytoremediation. Finally, the effect of increasing root biomass or increasing the rhizosphere thickness is approximately equivalent with respect to the ultimate removal of the contaminants.     

The evolution of prestige: freely conferred deference as a mechanism for enhancing the benefits of cultural transmission

This paper advances an “information goods” theory that explains prestige processes as an emergent product of psychological adaptations that evolved to improve the quality of information acquired via cultural transmission. Natural selection favored social learners who could evaluate potential models and copy the most successful among them. In order to improve the fidelity and comprehensiveness of such ranked-biased copying, social learners further evolved dispositions to sycophantically ingratiate themselves with their chosen models, so as to gain close proximity to, and prolonged interaction with, these models. Once common, these dispositions created, at the group level, distributions of deference that new entrants may adaptively exploit to decide who to begin copying. This generated a preference for models who seem generally “popular.” Building on social exchange theories, we argue that a wider range of phenomena associated with prestige processes can more plausibly be explained by this simple theory than by others, and we test its predictions with data from throughout the social sciences. In addition, we distinguish carefully between dominance (force or force threat) and prestige (freely conferred deference).     

Cross-trait prediction accuracy of summary statistics in genome-wide association studies

In the era of big data, univariate models have widely been used as a workhorse tool for quickly producing marginal estimators; and this is true even when in a high-dimensional dense setting, in which many features are “true,” but weak signals. Genome-wide association studies (GWAS) epitomize this type of setting. Although the GWAS marginal estimator is popular, it has long been criticized for ignoring the correlation structure of genetic variants (i.e., the linkage disequilibrium [LD] pattern). In this paper, we study the effects of LD pattern on the GWAS marginal estimator and investigate whether or not additionally accounting for the LD can improve the prediction accuracy of complex traits. We consider a general high-dimensional dense setting for GWAS and study a class of ridge-type estimators, including the popular marginal estimator and the best linear unbiased prediction (BLUP) estimator as two special cases. We show that the performance of GWAS marginal estimator depends on the LD pattern through the first three moments of its eigenvalue distribution. Furthermore, we uncover that the relative performance of GWAS marginal and BLUP estimators highly depends on the ratio of GWAS sample size over the number of genetic variants. Particularly, our finding reveals that the marginal estimator can easily become near-optimal within this class when the sample size is relatively small, even though it ignores the LD pattern. On the other hand, BLUP estimator has substantially better performance than the marginal estimator as the sample size increases toward the number of genetic variants, which is typically in millions. Therefore, adjusting for the LD (such as in the BLUP) is most needed when GWAS sample size is large. We illustrate the importance of our results by using the simulated data and real GWAS.     

Women’s empowerment and rural revolution: rethinking “failed development”

One of the most frequently advanced explanations of the Maoists’ popularity in rural Nepal links dissatisfaction with the State to forms of consciousness and changes in expectations that are products and processes of development. Such theories often attribute popular support for the insurrection to frustrated desires stemming from “failed” or “incomplete” development. Against this, others suggest that it was the very “success” of empowerment programs which aimed to raise participants’ consciousness of oppression and its roots that inspired villagers to embrace revolutionary action. This paper argues that, despite their differences, both hypotheses reflect assumptions about gendered selfhood and political action that limit their recognition of what motivates Maoist sympathies. Extended research with women in Gorkha—a district where female support for the rebels is said to be especially strong—reveals that Gorkhali women’s support for the rebels is not inspired primarily by the desire for greater autonomy, choice or absolute liberation from social constraints, all of which ideals valorize a culturally specific vision of individual agency. Rather, women there report a sense of self that defines itself through social relations and commitments and which values the common good over individual self-interest, which they associate with an unjust state. The disjuncture between Gorkhali women’s own understandings of self and society and prevailing theories of what motivates people to rebel highlights the modernist assumptions that underlie—and potentially distort—otherwise diverse scholarly perspectives. Likewise, it implies that rebellions may be less about consciousness and more about morality than either “failed” or “successful” theories presume.     

Drawing Disability in Japanese Manga: Visual Politics, Embodied Masculinity, and Wheelchair Basketball in Inoue Takehiko’s REAL

This work explores disability in the cultural context of contemporary Japanese comics. In contrast to Western comics, Japanese manga have permeated the social fabric of Japan to the extent that vast numbers of people read manga on a daily basis. It has, in fact, become such a popular medium for visual communication that the Japanese government and education systems utilize manga as a social acculturation and teaching tool. This multibillion dollar industry is incredibly diverse, and one particularly popular genre is sports manga. However, Inoue Takehiko’s award-winning manga series REAL departs from more conventional sports manga, which typically focus on able-bodied characters with sometimes exaggerated superhuman physical abilities, by adopting a more realistic approach to the world of wheelchair basketball and the people who play it. At the same time REAL explores cultural attitudes toward disability in Japanese culture—where disability is at times rendered “invisible” either through accessibility problems or lingering associations of disability and shame. It is therefore extremely significant that manga, a visual medium, is rendering disability visible—the ultimate movement from margin to center. REAL devotes considerable attention to realistically illustrating the lived experiences of its characters both on and off the court. Consequently, the series not only educates readers about wheelchair basketball but also provides compelling insight into Japanese cultural notions about masculinity, family, responsibility, and identity. The basketball players—at first marginalized by their disability—join together in the unity of a sport typically characterized by its “abledness.”     

A diversity of beta diversities: straightening up a concept gone awry. Part 1. Defining beta diversity as a function of alpha and gamma diversity

The term beta diversity has been used to refer to a wide variety of phenomena. Although all of these encompass some kind of compositional heterogeneity between places, many are not related to each other in any predictable way. The present two‐part review aims to put the different phenomena that have been called a beta component of diversity into a common conceptual framework, and to explain what each of them measures. In this first part, the focus is on defining beta diversity. This involves deciding what diversity is and how the observed total or gamma diversity (γ) is partitioned into alpha (α) and beta (β) components. Several different definitions of “beta diversity” that result from these decisions have been used in the ecological literature. True beta diversity is obtained when the total effective number of species in a dataset (true gamma diversityγ) is multiplicatively partitioned into the effective number of species per compositionally distinct virtual sampling unit (true alpha diversityα_d) and the effective number of such compositional units (β_Md=γ/α_d). All true diversities quantify the effective number of types of entities. Because the other variants of “beta diversity” that have been used by ecologists quantify other phenomena, an alternative nomenclature is proposed here for the seven most popular beta components: regional‐to‐local diversity ratio, two‐way diversity ratio, absolute effective species turnover (=regional diversity excess), Whittaker's effective species turnover, proportional effective species turnover, regional entropy excess and regional variance excess. In the second part of the review, the focus will be on how to quantify these phenomena in practice. This involves deciding how the sampling units that contribute to total diversity are selected, and whether the entity that is quantified is all of “beta diversity”, a specific part of “beta diversity”, the rate of change in “beta diversity” in relation to a given external factor, or something else.     

Ethnographic Note on Nation: Narratives and Symbols of the Early Post-socialist Nationalism in Lithuania

In the late 1980s and early 1990s Lithuania experienced the nationalist upheaval, which epitomized in the break up from the Soviet Union in 1990. Narratives and symbols were constitutive of the nationalist movement. “Nation” — the master symbol of that time — was reproduced in relation to the symbols of “the West,” and “the East,” as well as through the different values implied in “the West” and “the East” symbolism. Nationalist narratives reconstructed history and memory, reevaluated the present of the “reborn” nation, and drew the paths for the transition. Symbols and narratives were significant in mobilizing popular opinion, creating models for identity and action, and expressing moral and legitimate stances. They were a primary mechanism by which ideologies and cultural stances were shaped and maintained during the nationalist upheaval. In early 1990s the “nation” was redefined in the context of the Western tradition which was essential in communicating with the European countries and distancing from the former Soviet Union.     

Detecting genomic clustering of risk variants from sequence data: cases versus controls

As the ability to measure dense genetic markers approaches the limit of the DNA sequence itself, taking advantage of possible clustering of genetic variants in, and around, a gene would benefit genetic association analyses, and likely provide biological insights. The greatest benefit might be realized when multiple rare variants cluster in a functional region. Several statistical tests have been developed, one of which is based on the popular Kulldorff scan statistic for spatial clustering of disease. We extended another popular spatial clustering method—Tango’s statistic—to genomic sequence data. An advantage of Tango’s method is that it is rapid to compute, and when single test statistic is computed, its distribution is well approximated by a scaled χ ² distribution, making computation of p values very rapid. We compared the Type-I error rates and power of several clustering statistics, as well as the omnibus sequence kernel association test. Although our version of Tango’s statistic, which we call “Kernel Distance” statistic, took approximately half the time to compute than the Kulldorff scan statistic, it had slightly less power than the scan statistic. Our results showed that the Ionita-Laza version of Kulldorff’s scan statistic had the greatest power over a range of clustering scenarios.     

基于中华鲟繁殖群体数量的长江中、下游生态环境考核指标

繁殖群体数量是中华鲟能否成功繁殖的重要影响因子, 建议作为长江生态考核的重要评价指标。根据重要种群参数和历史数据, 基于稳态转换理论和方法, 确定中华鲟繁殖群体数量指标的评估基准值和等级, 670尾以上为“优”、400—670尾为“良”、200—400尾为“中”、50—200尾为“差”、50尾以下为“极差”。水声学探测结果显示, 1998—2001年中华鲟繁殖群体数量指标评级为“良”; 2004—2012年三峡工程蓄水后至向家坝蓄水前评级为“中”; 2013—2020年评级为“极差”。为了复壮中华鲟野生种群, 建议修复葛洲坝下中华鲟产卵场功能, 大规模放流性成熟亲鱼和大规格个体, 建立国家级中华鲟保育中心。     

Biases in cultural transmission shape the turnover of popular traits

The neutral model of cultural evolution, which assumes that copying is unbiased, provides precise predictions regarding frequency distributions of traits and the turnover within a popularity-ranked list. Here we study turnover in ranked lists and identify where the turnover departs from neutral model predictions to detect transmission biases in three different domains: color terms usage in English language 20th century books, popularity of early (1880–1930) and recent (1960–2010) USA baby names, and musical preferences of users of the Web site Last.fm. To help characterize the type of transmission bias, we modify the neutral model to include a content-based bias and two context-based biases (conformity and anti-conformity). How these modified models match real data helps us to infer, from population scale observations, when cultural transmission is biased, and, to some extent, what kind of biases are operating at individual level.     

An explantion for the determination of "self" versus "non-self" proteins

Deamidation of proteins, which has been linked to turnover, results in the production of a different protein—different in sequence and shape. It is proposed that this is the protein which is normally encountered by the immune system and is therefore viewed as “self”. If the protein in the form in which it exists in situ is released through disease, or introduced by artificial means, it would then be recognized as “non-self.” This is offered as a hypothesis to explain autoimmune response to the basic protein of myelin.     

Ecosystem Approaches to Human Health and Well-being: Reflections from Use in a Mining Context

This article briefly discusses the evolution of ecosystem approaches, and illustrates the use of ecosystem approaches to assess human health and well-being in a mining context. It discusses the various elements that help distinguish such approaches from other approaches. Well-being here is understood broadly in terms of its “constituents” and “determinants,” of which health is an important constituent. Ecological, health, and social assessments highlighted a number of impacts from mining activity in Goa, India. These generated a list of issues of concern that were validated by stakeholders—community, industry, and government—which served as a basis for the development of tools to track mining-induced changes in health and well-being. The article concludes by reflecting on some of the challenges posed by the use of ecosystem approaches to assessing human health and well-being.     

Moved to Dance: Remix,Rasa, and a New India

This article looks at Bollywood dance to explore the production of the commodified bodies of global consumer culture. It focuses on “embodiment” to examine how dominant sensibilities are altered through changes in dance training and technological innovations. I argue that analyzing the dancing body as a locus of experience and expression shifts the ground from culture as text or discourse (popular in postcolonial, poststructuralist or choreographic analysis) to embodiment of subjectivity. “Remix” is the term that describes both the new training techniques and the aesthetics of Indian dances. Since the older boundaries of high and low, classical and popular are fluid under globalization, “remix” is replacing traditional codes and aesthetic experiences associated with rasa. I draw on my fieldwork among the “background dancers” in Bollywood films to argue that as consumer culture creates the dominant mode of cultural expression in India, the only durable form of dance practice seems to be the practice of consumption.     

Repeated evolution of terrestrial lineages in a continental lizard radiation

The “early‐burst” model of adaptive radiation predicts an early increase in phenotypic disparity concurrent with lineage diversification. Although most studies report a lack of this coupled pattern, the underlying processes are not identified. The continental radiation of Hemidactylus geckos from Peninsular India includes morphologically diverse species that occupy various microhabitats. This radiation began diversifying ~36 Mya with an early increase in lineage diversification. Here, we test the “early‐burst” hypothesis by investigating the presence of ecomorphs and examining the pattern of morphological diversification in a phylogenetic framework. Two ecomorphs—terrestrial and scansorial species—that vary significantly in body size and toepad size were identified. Unlike the prediction of the “early‐burst” model, we find that disparity in toepad morphology accumulated more recently ~14 Mya and fit the Ornstein‐Ulhenbeck model. Ancestral state reconstruction of the two ecomorphs demonstrates that terrestrial lineages evolved independently at least five times from scansorial ancestors, with the earliest diversification in terrestrial lineages 19–12 Mya. Our study demonstrates a delayed increase in morphological disparity as a result of the evolution of terrestrial ecomorphs. The diversification of terrestrial lineages is concurrent with the establishment of open habitat and grasslands in Peninsular India, suggesting that the appearance of this novel resource led to the adaptive diversification.     

Becoming the image: Words of gold,talk television,and Ramadan nights on the little screen

Tarek ‘Allam is currently the most popular interview broadcaster in Egypt. An impromptu appearance last year on his widely‐watched program, “Word of Gold,” created instant celebrity for the author in Egypt, the Arab world, and among diaspora Arab communities that receive the Egyptian satellite channel. I suddenly became the image I study, simultaneously viewer and viewed, a participant in popular mass culture. The experience underscored the power of television to shape public culture, prompted deeper reflection on the resiliency of particular televised images, and emphasized the advantage of turning our gaze from the established texts of dramatic serials to the numerous “on‐the‐street” interview programs aired on Egyptian television.     

From IAAP to IAP

A short survey is given of the development of the “Internationale Arbeitgruppe Aktiver Phytoplanktologen” into “International Association for Phytoplankton Taxonomy and Ecology” — from informal Central European meetings to a truly international forum. A list of all the thirteen meetings till now is appended.     

Functional heterogeneity and heritability in CHO cell populations

In this study, we address the hypothesis that it is possible to exploit genetic/functional variation in parental Chinese hamster ovary (CHO) cell populations to isolate clonal derivatives that exhibit superior, heritable attributes for biomanufacturing—new parental cell lines which are inherently more “fit for purpose.” One‐hundred and ninety‐nine CHOK1SV clones were isolated from a donor CHOK1SV parental population by limiting dilution cloning and microplate image analysis, followed by primary analysis of variation in cell‐specific proliferation rate during extended deep‐well microplate suspension culture of individual clones to accelerate genetic drift in isolated cultures. A subset of 100 clones were comparatively evaluated for transient production of a recombinant monoclonal antibody (Mab) and green fluorescent protein following transfection of a plasmid vector encoding both genes. The heritability of both cell‐specific proliferation rate and Mab production was further assessed using a subset of 23 clones varying in functional capability that were subjected to cell culture regimes involving both cryopreservation and extended sub‐culture. These data showed that whilst differences in transient Mab production capability were not heritable per se, clones exhibiting heritable variation in specific proliferation rate, endocytotic transfectability and N‐glycan processing were identified. Finally, for clonal populations most “evolved” by extended sub‐culture in vitro we investigated the relationship between cellular protein biomass content, specific proliferation rate and cell surface N‐glycosylation. Rapid‐specific proliferation rate was inversely correlated to CHO cell size and protein content, and positively correlated to cell surface glycan content, although substantial clone‐specific variation in ability to accumulate cell biomass was evident. Taken together, our data reveal the dynamic nature of the CHO cell functional genome and the potential to evolve and isolate CHO cell variants with improved functional properties in vitro. Biotechnol. Bioeng. 2013; 110: 260–274. © 2012 Wiley Periodicals, Inc.     

Primate subsistence patterns: Collector-predators and gatherer-hunters

Hominization via predation has become a pervasive anthropological theme in recent years. Indeed, the assumption that hunting behavior originated within the primate phylogenetic sequence as a “human” subsistence pattern has generated numerous subsidiary hypotheses about how secondary traits were initiated, propagated or enhanced when a terrestrial, savanna-dwelling, meat-eating hominid line emerged from an arboreal, forest-dwelling, plant-eating ancestral stock. New field evidence on the behavioral and organizational features of subsistence in nonhuman and human primates now provides the basis for reconsidering these views.Many monkey, ape and human populations no longer seem to fit the stereotyped images sketched in past decades, when little or no comparative information was available to anthropologists. The discrepancy between the old concepts and new facts is particularly evident in Sub-Saharan Africa, where numerous primate taxa have been studied in climatically and biotically similar zones. In this region alone, more than 364 cases of predation, involving 22 different species of mammalian prey, have been recorded among at least 10 supposedly “vegetarian” baboon and chimpanzee populations dispersed between Ethiopia and South Africa. Furthermore, many of the human populations living within this same region—such as the Mbuti pygmies, the Hadza and the Kalahari bushmen—have been characterized as “hunters” but actually subsist for the most part on foods other than meat. These basic facts about collector-predator and Gatherer-hunter subsistence patterns are a mere beginning, however, for popular conceptions of primate lifestyles are eroding swiftly along many axes of investigation. It is becoming clear, for instance, that many primates—from prosimians to humans—are actually omnivores even though anthropologists have persistently miscast them as frugivores or carnivores. This false dichotomization of nonhuman versus human diets has led to a series of equally erroneous dichotomies in nonhuman versus human behavior. Thus, the possession of culture, technology, language and other similarly amorphous traits, many of which were in fact derived from this presumed shift in subsistence, have become entrenched as concepts of human uniqueness. In recent years, however, many new discoveries in primatology, and in ethnography and archeology, have weakened the theoretical structure to which “man-the-hunter” has been pinned. It is probable that savanna-dwelling, tool-using, seed-eating, scavenging and other independent schemes can now be replaced by a single, much simpler model wherein subsistence shifts among both nonhuman and human primates are perceived as smooth transitions within a graded continuum of evolution. Thus, the central objective of this report is to show that the subsistence activities of several extant cercopithecid, pongid and hominid populations in Africa can be arranged along an integrated spectrum which reflects gradual processes in the evolution of primate behavior and organization. This spectrum serves as the crux for a unifying model of behavioral evolution, and can in turn be broken down into a linked series of subsidiary models which elucidate specific aspects of primate prehistory.