Neutral Theory Research Articles

Distinctive vowel heights in Limburgish and Bavarian

Abstract Standard works on linguistics give Amstetten Bavarian (Ladefoged and Maddieson 1996) and Weert Limburgish (Ladefoged 2007) as examples of languages with four or five distinctive vowel heights. Other Limburgish and East Central Bavarian dialects are also described with four or five heights. If the reports are correct, these vowel systems have significant typological importance. They would invalidate the neutral vowel theory which proposes that no language will have more than three distinctive heights or depths on any vocalic plane (Hitch 2017). It is proposed that semi-diphthongality and laxness are distinctive features in Limburgish which permit analyses of three distinctive heights. Similarly, it is proposed that laxness is distinctive in the relevant Bavarian dialects and that they have three distinctive heights.

Breaking Lockdown during Lockdown: A Neutralization Theory Evaluation of Misbehavior during the Covid 19 Pandemic

ABSTRACT The Covid-19 pandemic constitutes a global crisis that has necessitated many nations to adopt and enforce various strategies to reduce the spread of the virus, protect citizens, and alleviate pressures on healthcare systems. Central to such reactions are ‘lockdown’ regulations that limit travel, require restricted movement by citizens, and enforce stay-at-home rules. However, while evidence suggests general (but not unanimous) support for the principles of such lockdowns, reports also indicate that individuals are far from universally compliant. In this regard, lockdown rule breaking may be viewed as a form of misbehavior. The aim of this study is to explore and explicate if, and if so, how and why citizens deviate from espoused lockdown rules and neutralize or justify their guilt. In order to do so, we utilize the theory of neutralization as our conceptual lens of analysis. Using in-depth interviews of individuals experiencing lockdown conditions, we analyze neutralization techniques to lockdown infringements. Our analysis suggests that the guilt of rule transgressions is neutralized in two main ways; via the denial of deviance and the negation of the espouse lockdown norm. Insights are generated in specific forms of neutralization and wider implications discussed.

Is Oligotrophy an Equalizing Factor Driving Microplankton Species Functional Diversity Within Agulhas Rings?

From the southwestern termination of the Agulhas current, anticyclonic eddies are emitted and drift across the South Atlantic Ocean. This study is based on a FORSA (Following Ocean Rings in the South Atlantic) oceanographic cruise, from Cape Town (South AFRica) to Arraial do Cabo (Brazil) in June 2015, during which three eddies of different ages (E1, 7 months; E3, 11 months; E5, 24 months) from the Agulhas current were sampled for microplankton identification and determination of functional traits. The stations where sampling occurred at each eddy included a control outside the eddy and three stations inside the eddy—border, midway (between the border and center), and center (identified through satellite images of sea level anomaly—SLA). Functional traits were determined based on microscopic observations and consultation of the literature. An evident decay in the Agulhas eddies toward the west was observed, and each eddy proved to be different. E1 represented a younger and more robust structure. At the same time, the other eddies, E3 and E5, were more alike with similar physical, chemical, and ecological characteristics and almost the same indices values of functional diversity, demonstrating that although their species compositions were different, the strategies used by the species were the same. The most crucial ecological trait for microplankton was nutrition mode. The microplankton contained mainly mixotrophic dinoflagellates and cyanobacteria adapted to oligotrophic conditions. The functional strategy of microplankton did not differ among the eddies and stations, with mixotrophy being the most striking trait. Therefore, the older eddies’ microplankton community fits the neutrality theory, whereby species perform similar ecological functions, and the younger eddy fits in the niche complementarity. Even with the species composition being different in each eddy and/or within the same eddy, the functional strategy was the same, with scarce resources and species selected that best use any source of nutrients or use evolutionary advantages to live in an oligotrophic environment.

El concepto de derecho como concepto funcional

In her book Positivismo jurídico "interno" Cristina Redondo claims that legal theory can be neutral from a moral point of view. An essential part of her argumentation is based on the criticism of an anti-positivist conception of law developed by Fernando Atria, according to which, since law is a functional concept, no descriptive or morally neutral theory of law can be provided. The essay claims that while Atria's conception of law encounters some difficulties, Redondo's criticism is not conclusive. More importantly, there are two types of natural law theories which also claim that law is a functional concept but which do not face Atria's difficulties. One holds that law is a functional kind and the other claims that the concept of law is a normative-functional concept. The latter type of theory seems particularly suitable for avoiding not only Redondo's criticism but also standard objections from the positivist camp. If this type of theory is correct, a theory cannot be morally neutral.

Retrotransposons and the Evolution of Genome Size in Pisum.

Here we investigate the plant population genetics of retrotransposon insertion sites in pea to find out whether genetic drift and the neutral theory of molecular evolution can account for their abundance in the pea genome. (1) We asked whether two contrasting types of pea LTR-containing retrotransposons have the frequency and age distributions consistent with the behavior of neutral alleles and whether these parameters can explain the rate of change of genome size in legumes. (2) We used the recently assembled v1a pea genome sequence to obtain data on LTR-LTR divergence from which their age can be estimated. We coupled these data to prior information on the distribution of insertion site alleles. (3) We found that the age and frequency distribution data are consistent with the neutral theory. (4) We concluded that demographic processes are the underlying cause of genome size variation in legumes.

A Faster and More Accurate Algorithm for Calculating Population Genetics Statistics Requiring Sums of Stirling Numbers of the First Kind.

Ewen’s sampling formula is a foundational theoretical result that connects probability and number theory with molecular genetics and molecular evolution; it was the analytical result required for testing the neutral theory of evolution, and has since been directly or indirectly utilized in a number of population genetics statistics. Ewen’s sampling formula, in turn, is deeply connected to Stirling numbers of the first kind. Here, we explore the cumulative distribution function of these Stirling numbers, which enables a single direct estimate of the sum, using representations in terms of the incomplete beta function. This estimator enables an improved method for calculating an asymptotic estimate for one useful statistic, Fu’s . By reducing the calculation from a sum of terms involving Stirling numbers to a single estimate, we simultaneously improve accuracy and dramatically increase speed.

Reflections on the Predictability of Evolution: Toward a Conceptual Framework.

SummaryEvolution is generally considered to be unpredictable because genetic variations are known to occur randomly. However, remarkable patterns of repeated convergent evolution are observed, for instance, loss of pigments by organisms living in caves. Analogous phenotypes appear in similar environments, sometimes in response to similar constraints. Alongside randomness, a certain evolutionary determinism also exists, for instance, the selection of particular phenotypes subjected to particular environmental constraints in the “evolutionary funnel.” We pursue the idea that eco-evolutionary specialization is in some way determinist. The conceptual framework of phenotypic changes entailing specialization presented in this essay explains how evolution can be predicted. We also discuss how the predictability of evolution could be tested using the case of metabolic specialization through gene losses. We also put forward that microorganisms could be key models to test and possibly make headway evolutionary predictions and knowledge about evolution.

The Frog Fauna of Southwestern Australia: Diverse, Bizarre, Old, and Polyandrous

My research on anurans has been diverse: biogeography, speciation, acoustics, polyandry, sperm competition, and conservation. My interests in biology started in natural history but, in the late 1960s as an undergraduate student, I was receptive to emerging new ideas in biogeography and evolutionary biology: continental drift and neutral theory. My focus in this “Perspective” is an explanation of how diversity has evolved in the frog fauna of southwestern Australia, where I have worked since 1978. I discuss the roles of range fragmentation, genetic drift, directional sexual selection, polyploidy, and simultaneous polyandry as processes driving the evolution of diversity in the sometimes-bizarre frog fauna of southwestern Australia. I identify features that can characterize polyandrous anurans: e.g., large testes, sperm morphology, and, possibly, complex calls with an example of the latter in Geocrinia leai. I discuss how current anuran life histories vary across rainfall and temperature gradients and how derivation of more-arid adapted forms is a well-defined historic biogeographic pattern in southwestern Australia. My observations over time leave me cautiously optimistic about the prospects for frogs affected by global warming.

Using niche centrality within the scope of the nearly neutral theory of evolution to predict genetic diversity in a tropical conifer species‐pair

AbstractAimEstimating genetic diversity is key for understanging biogeographic and evolutionary processes. However, gathering genetic information is not feasible for all taxa or populations, particularly in the tropical regions. Identifying proxies for inferring such values has thus become essential. Here, we built on the niche centrality hypothesis (NCH; or central‐abundance hypothesis) and the nearly neutral theory of evolution (NNT) to identify some of such proxies using a montane tropical conifer species‐pair as model. The NCH predicts more genetic diversity under optimal ecological conditions, which should also allow for more efficient purifying selection, according to the NNT.LocationThe Transmexican Volcanic Belt, central Mexico.TaxaA fir species‐pair endemic to central Mexico, Abies flinckii and A.religiosa.MethodsWe estimated patterns of genetic diversity from nuclear SSRs (A, HE), and gene‐coding sequences (πS, πN), together with the efficacy of purifying selection, measured as πN/πS. After testing for niche overlap, we used several geographic and ecological proxies (i.e. longitude, latitude, elevation, estimated area and distance to the niche centroid in the present and in the LGM) to predict genetic diversity and πN/πS using general linear models.ResultsPopulations at the west of the Trans Mexican Volcanic Belt (TVB) had lower genetic diversity than populations in the east of this mountain chain. Both species had significant niche overlap. The principal predictors for neutral genetic diversity (HE, A and πS) were longitude and latitude, followed by the current distance to the niche centroid; the efficiency of purifying selection was mostly accounted for by the current distance to the niche centroid (which was also correlated with elevation). No correlation was observed between genetic diversity or πN/πS and current population area.Main conclusionsHistorical and ecological factors have to be taken into account for explaining the amounts of genetic diversity in mountain tropical species. Following the NTT, populations closer to the niche centroid are more efficient at eliminating slightly deleterious mutations than marginal stands, independently of their size or geographic location (longitude). Expanding the central‐abundance theory within the scope of the NTT might help reconciling conflicting views concerning the extent of its empirical support.

Improved solid stability from a screened range-separated hybrid functional by satisfying semiclassical atom theory and local density linear response

Semiclassical neutral atom theory is an important constraint of the state-of-the-art development of exchange-correlation functionals for solid-state physics. Based on this theory, we construct a screened range-separated hybrid functional for strongly bound bulk solids, which also satisfies the accurate linear response of the local density approximation. The constructed functional shows remarkable performance and is competitive with other popular screened hybrids. Our comprehensive assessment of the constructed screened hybrid for the general purpose solid-state structural properties, structural phase transition, prototypical ferroelectric properties, band gaps, and optical absorption spectra is showing its accuracy for the diverse nature of solid-state properties. Moreover, when applied to general purpose chemical applications, the constructed functional is also reasonably accurate and competitive. Accurate screened hybrids based on semiclassical neutral atom theory are appealing for various solid-state and material science applications and are also attractive for the development of the dielectric-dependent hybrids for interfaces and surfaces.

Opportunity, job pressure and deviant workplace behaviour: does neutralisation mediate the relationship? A study of faculty members in public universities in Nigeria

PurposeThe purpose of the present study was twofold: (1) to examine the direct effect of the dimensions of opportunity (i.e. ethical climate and institutional policy) and dimensions of job pressure (i.e. workload and work pressure) on workplace deviance (i.e. organisational and interpersonal deviance) and (2) to assess the mediation of neutralisation in the relationship between the dimensions of opportunity, job pressure and workplace deviance.Design/methodology/approachThe present study drew from the fraud triangle theory (FTT; Cressey, 1950) and the theory of neutralisation (Sykes and Matza, 1957) to achieve the research objectives. Survey data from 356 full-time faculty members in Nigerian public universities were collected. Partial least square-structural equation modelling (PLS-SEM) was employed to analyse the data.FindingsThe results indicated that opportunity and job pressure significantly affected workplace deviance. As expected, neutralisation was found to mediate the negative relationship between ethical climate and interpersonal deviance and the positive relationship between workload, work pressure and interpersonal deviance. Contrary to expectation, neutralisation did not mediate the relationship between opportunity, pressure and organisational deviance.Research limitations/implicationsThe sample was drawn from academics in public universities and the cross-sectional nature of this study means that the findings have limited generalisations.Practical implicationsThis study offers insights into the management of Nigerian public universities on the need to curb workplace deviance amongst faculty members. This study recommends that the management improve the work environment by enhancing the ethical climate and institutional policies and reviewing the existing workload that may constitute pressure to the faculty members.Originality/valueThe present study provides empirical support for the fraud triangle theory and theory of neutralisation to explain workplace deviance.

Predicting the Outbreak Risks and Inflection Points of COVID-19 Pandemic with Classic Ecological Theories.

Predicting the outbreak risks and/or the inflection (turning or tipping) points of COVID‐19 can be rather challenging. Here, it is addressed by modeling and simulation approaches guided by classic ecological theories and by treating the COVID‐19 pandemic as a metapopulation dynamics problem. Three classic ecological theories are harnessed, including TPL (Taylor’s power‐law) and Ma’s population aggregation critical density (PACD) for spatiotemporal aggregation/stability scaling, approximating virus metapopulation dynamics with Hubbell’s neutral theory, and Ma’s diversity‐time relationship adapted for the infection−time relationship. Fisher‐Information for detecting critical transitions and tipping points are also attempted. It is discovered that: (i) TPL aggregation/stability scaling parameter (b > 2), being significantly higher than the b‐values of most macrobial and microbial species including SARS, may interpret the chaotic pandemic of COVID‐19. (ii) The infection aggregation critical threshold (M 0) adapted from PACD varies with time (outbreak‐stage), space (region) and public‐health interventions. Exceeding M 0, local contagions may become aggregated and connected regionally, leading to epidemic/pandemic. (iii) The ratio of fundamental dispersal to contagion numbers can gauge the relative importance between local contagions vs. regional migrations in spreading infections. (iv) The inflection (turning) points, pair of maximal infection number and corresponding time, are successfully predicted in more than 80% of Chinese provinces and 68 countries worldwide, with a precision >80% generally.

Enrichment in conservative amino acid changes among fixed and standing missense variations in slowly evolving proteins.

The process of molecular evolution has many elements that are not yet fully understood. Evolutionary rates are known to vary among protein coding and noncoding DNAs, and most of the observed changes in amino acid or nucleotide sequences are assumed to be non-adaptive by the neutral theory of molecular evolution. However, it remains unclear whether fixed and standing missense changes in slowly evolving proteins are more or less neutral compared to those in fast evolving genes. Here, based on the evolutionary rates as inferred from identity scores between orthologs in human and Rhesus Macaques (Macaca mulatta), we found that the fraction of conservative substitutions between species was significantly higher in their slowly evolving proteins. Similar results were obtained by using four different methods of scoring conservative substitutions, including three that remove the impact of substitution probability, where conservative changes require fewer mutations. We also examined the single nucleotide polymorphisms (SNPs) by using the 1000 Genomes Project data and found that missense SNPs in slowly evolving proteins also had a higher fraction of conservative changes, especially for common SNPs, consistent with more non-conservative substitutions and hence stronger natural selection for SNPs, particularly rare ones, in fast evolving proteins. These results suggest that fixed and standing missense variants in slowly evolving proteins are more likely to be neutral.

Evolutionary dynamics of neoantigens in growing tumors.

Cancers accumulate mutations that lead to neoantigens, novel peptides that elicit an immune response, and consequently undergo evolutionary selection. Here we establish how negative selection shapes the clonality of neoantigens in a growing cancer, by constructing a mathematical model of neoantigen evolution. The model predicts that, without immune escape, tumor neoantigens are either clonal or at low frequency, and hyper-mutated tumors can only establish following the evolution of immune escape. Moreover, the site frequency spectrum of somatic variants under negative selection appears more neutral as the strength of negative selection increases, consistent with classical neutral theory. These predictions are corroborated by the analysis of neoantigen frequencies and immune escape in exome and RNA sequencing data from 879 colon, stomach and endometrial cancers.

A Music Theory Curriculum for the 99%

Due to the lack of diversity as represented by the repertoire typically studied in the undergraduate music theory core, a number of scholars have called for an "integrated" or stylistically neutral theory curriculum, in which more pedagogical attention is devoted to jazz, world, and popular music. I contend that this approach is fundamentally insufficient and inadequate to genuinely address the diversity problems facing the field. Instead, I propose for all music students that the entire first year of theory coursework be devoted exclusively to popular music, with the study of other styles reserved for upper-division courses according to academic interests or tracks. In this essay, I present some of the motivating factors behind my recommendation, provide a brief sketch of what such a curriculum would look like, and discuss some of the challenges in its implementation.

Seven non-darwinian theories opposite to evolution

The objective of this article is to prove that “Seven non-Darwinian theories opposite to evolution”. However, the genetic drift represents the punctuated equilibrium, the shifting balance theory, the allopatric speciation theory and the species selection theory for the macroevolution. The genetic drift rapidly works in a small and isolated population and not works in a large population. Hence, genetic drift means small and isolated population and vice-versa. But the genetic drift creates zero variation. But there is no variation (raw materials of any kind of evolution); there is no evolution. Hence, evolutionary biologists rejected genetic drift for any kind of evolution. Again, genetic drift means small and isolated but those populations have to mate with their close relative and produced homozygous organisms. Homozygous organisms have low fecundity, suffer from various diseases, least fitted to survive and may extinct suddenly, e.g. American Heath hen. Thus, small populations and isolated populations (i.e. genetic drift) are opposite to any kind of evolution, even risk for extinction. However, genetic drift is also the key force of Neutral theory, which works in smalls and isolated populations. Consequently, Neutral theory is opposite to any kind of evolution. So, many evolutionary biologists rejected Neutral theory. Once more, evolutionary biologists rejected the shifting balance theory, the punctuated equilibrium theory and of Goldschmidt’s theory. Gould and Wright advocated chromosomal speciation (chromosome rearrangements) theory for macroevolution but which are not valid. Moreover, extinction is the main process of the macroevolution, which is quite absurd. The fossil is the excellent and only evidence of those theories of macroevolution. But fossil completely opposes macroevolution. So, those seven non-Darwinian theories are opposite to any kind of evolution. Consequently, the Darwinists, the neo-Darwinists and the Sociobiology’s oppose those non-Darwinian. Subsequently, plants and animals including human are not evolved via those theories.

Modeling the Evolution of Aquatic Organisms in Dynamic River Basins

AbstractRivers are conduits for aquatic organisms and host an exceptional number of species. Over geologic time, rivers and the aquatic organisms that live in them are subject to changes in topography that can alter where rivers flow. Differences in erosion rates across drainage divides cause some river basins to grow and others to shrink. Occasionally, rivers are abruptly rerouted by river captures that create both new dispersal corridors and barriers for aquatic organisms. These changes in habitat connectivity can lead to the evolution of new species, which has prompted suggestions that river captures may be a mechanism to produce high freshwater biodiversity. We test this hypothesis by building a model, Bio‐SLANT (Biodiversity on Simulated LAndscapes using Neutral Theory). Bio‐SLANT couples a computational landscape model that simulates river basin reorganization to a macroevolutionary model that simulates the dispersal, speciation, and extinction of organisms. We first show that modeled basin area exerts a primary control on within‐basin species richness due to the species‐area relationship. We then describe the effects of drainage area exchange between river basins. River capture increases species richness, but only temporarily, whereas elevated rates of speciation and extinction provide a persistent biological record of river network reorganization. When river captures are frequent, speciation rates increase more than extinction rates, resulting in a positive diversification rate under most of the biological parameters tested. We explore the implications of our results for species richness in landscapes with basins of different relative sizes and for diversification in tectonically active and inactive settings.

Male Sexual Trait Decay in Two Asexual Springtail Populations Follows Neutral Mutation Accumulation Theory

The transition to asexual reproduction is frequent and widespread across the tree of life and constitutes a major life history change. Without sexual reproduction, selection on sexually selected traits is expected to be weaker or absent, allowing the decay and ultimately loss of sexual traits. In this study, we applied an experimental approach to investigate the decay of reproductive traits under asexuality in two asexual populations of the springtail Folsomia candida. Specifically, we compared several key male sexual traits of a sexual population and two distinct parthenogenetic lines. To allow direct comparisons between sexual and asexual individuals we first determined a suite of life history characteristics in the sexual F. candida population, which performs an indirect transfer of sperm packages (spermatophores).To investigate the decay of male sexual traits under asexuality we measured the size of spermatophores, quantified the amount of sperm DNA material, and tested spermatophore attractiveness to females in all three populations. The amount of sperm DNA material in the sperm droplets and the attractiveness of spermatophores were lower in the asexual lines compared to the sexual population. However, the two asexual lines differed in the extent of decay of these traits. Our results are consistent with predictions from neutral mutation accumulation theory, and thus suggest this to be the main evolutionary process underlying the decay of male traits in F. candida.

How Do Individuals Justify and Rationalize their Criminal Behaviors in Online Romance Fraud?

Online romance fraud (ORF) is a growing concern with such serious negative consequences as financial loss or suicide to the victim. Majority of empirical studies on online romance fraud using attachment, deception, protection motivation and relation theories focus on the victim. While neutralization offers insights into how individuals justify their deviant behaviors, the results have not been consistent in different contexts. In the ORF context, offenders may not only rely on justifying techniques but also rationalize their actions by denying risk both to the victim and the offender. Thus, drawing from the neutralization and denial of risk theories, we develop a research model to explain how online romance offenders justify and rationalize their intended criminal activities. To confirm our theoretical model, we collected 320 responses from individuals at Internet Cafes alleged to be online romance fraud hotspots. Our results highlight the boundary conditions of neutralization techniques in the context of online romance fraud. The study shows that denial of risk, a rationalization mechanism, moderates the relationship between denial of victim, a justification technique, and intention to commit romance fraud. This insight advances the frontiers of neutralization theory. We offer both theoretical and managerial implications of the findings.

Effective Population Size Predicts Local Rates but Not Local Mitigation of Read-through Errors.

In correctly predicting that selection efficiency is positively correlated with the effective population size (Ne), the nearly neutral theory provides a coherent understanding of between-species variation in numerous genomic parameters, including heritable error (germline mutation) rates. Does the same theory also explain variation in phenotypic error rates and in abundance of error mitigation mechanisms? Translational read-through provides a model to investigate both issues as it is common, mostly nonadaptive, and has good proxy for rate (TAA being the least leaky stop codon) and potential error mitigation via “fail-safe” 3′ additional stop codons (ASCs). Prior theory of translational read-through has suggested that when population sizes are high, weak selection for local mitigation can be effective thus predicting a positive correlation between ASC enrichment and Ne. Contra to prediction, we find that ASC enrichment is not correlated with Ne. ASC enrichment, although highly phylogenetically patchy, is, however, more common both in unicellular species and in genes expressed in unicellular modes in multicellular species. By contrast, Ne does positively correlate with TAA enrichment. These results imply that local phenotypic error rates, not local mitigation rates, are consistent with a drift barrier/nearly neutral model.