Evolutionary Epistemology, Social Epistemology, and the Demic Structure of Science

One of the principal difficulties in assessing Science as aProcess (Hull 1988) is determining the relationship between the various elements of Hull's theory. In particular, it is hard to understand precisely how conceptual selection is related to Hull's account of the social dynamics of science. This essay aims to clarify the relation between these aspects of his theory by examining his discussion of the``demic structure' of science. I conclude that the social account cando significant explanatory work independently of the selectionistaccount. Further, I maintain that Hull's treatment of the demicstructure of science points us toward an important set of issues insocial epistemology. If my reading of Science as a Process iscorrect, then most of Hull's critics (e.g., those who focus solelyon his account of conceptual selection) have ignored promisingaspects of his theory.     

Argument Structure and Morphological Factors in Noun and Verb Processing: An fMRI Study

In a functional MRI (fMRI) study, we have investigated the grammatical categories of object noun, event noun and verb in order to assess the cortical regions of activation supporting their processing. Twelve Italian healthy participants performed a lexical decision task. They had to decide whether a string was an Italian word or not. Words could be objects like medaglia (medal), or events like the noun pianto (cry); or the verb dormire (to sleep). Noun and verb comparison shows differences in regions of activation in the left Inferior Frontal cortex and in the extent of the same areas. We have found specific areas of activation for object noun, and similarities in the pattern of activation for event noun and verb. The activations induced by pseudowords highly resembled the areas activated by the corresponding word category. The implications of the results are discussed in light of the recent debate on the role of grammatical category in the brain.     

Evolutionary Novelties: How Fish Have Built a Heater Out of Muscle

The evolution of any complex morphology or physiological adaptationinvolves the historical transformation of numerous interactingcomponents from an ancestral to a derived state. How such transformationsoccur are central to our understanding of how novel morphologiesarise. The rapid explosion of technology in the field of molecularbiology provides new tools that can be incorporated into studiesexamining the origin of novel phenotypes. Molecular biologicaltechniques can now be used to probe how changes in gene expressionresult in pathways leading to novel or altered morphologies.The integration of molecular approaches into problems in organismalbiology provides a promising new direction for the analysisof form and function. Interdisciplinary studies, combining theresolving power of molecular biologywith the complex problemsof organismal biology, will shed new light on whole animal functionand evolution.     

"Minimal-Impact" Restoration Treatments Have Limited Effects on Forest Structure and Fuels at Grand Canyon, USA

Restoration treatments were tested on the South Rim (ponderosa pine) and North Rim (mixed conifer) of Grand Canyon National Park, never-harvested forests where the historically frequent surface regime was interrupted in the late 19th century. Treatments were designed for "minimal impact" by limiting the size of trees to be thinned and minimizing mechanical equipment. Treatments included (1) thinning of small trees (diameter ≤ 12.7 cm) and prescribed fire; (2) thinning of small trees located close to large old trees and prescribed fire; (3) prescribed fire only; and (4) control. On the South Rim, density declined by 23–45% but basal area only by 9–14%. On the North Rim, density was reduced 32–68% and basal area declined 18–31%. Declines of 5–8% were observed in these same variables in the controls. Surface fuels were significantly reduced in all burned treatments (70–84% reduction in forest floor, 66–76% reduction in woody debris). However, canopy cover was nearly unchanged, and canopy fuel loads were not significantly reduced, although canopy base heights increased. The experiment accomplished the goal of minimally impacting the forest ecosystem but the effects of small-tree thinning plus burning were nearly indistinguishable from those of burning alone. All the treated units were left with modest gain in resistance to severe wildfires but in conditions still far removed from prefire-exclusion conditions.     

Civility vs. Incivility in Online Social Interactions: An Evolutionary Approach

Evidence is growing that forms of incivility–e.g. aggressive and disrespectful behaviors, harassment, hate speech and outrageous claims–are spreading in the population of social networking sites’ (SNS) users. Online social networks such as Facebook allow users to regularly interact with known and unknown others, who can behave either politely or rudely. This leads individuals not only to learn and adopt successful strategies for using the site, but also to condition their own behavior on that of others. Using a mean field approach, we define anevolutionary game framework to analyse the dynamics of civil and uncivil ways of interaction in online social networks and their consequences for collective welfare. Agents can choose to interact with others–politely or rudely–in SNS, or to opt out from online social networks to protect themselves from incivility. We find that, when the initial share of the population of polite users reaches a critical level, civility becomes generalized if its payoff increases more than that of incivility with the spreading of politeness in online interactions. Otherwise, the spreading of self-protective behaviors to cope with online incivility can lead the economyto non-socially optimal stationary states. JEL Codes: C61, C73, D85, O33, Z13. PsycINFO Codes: 2240, 2750.     

RnaPredict—An Evolutionary Algorithm for RNA Secondary Structure Prediction

This paper presents two in-depth studies on RnaPredict, an evolutionary algorithm for RNA secondary structure prediction. The first study is an analysis of the performance of two thermodynamic models, Individual Nearest Neighbor (INN) and Individual Nearest Neighbor Hydrogen Bond (INN-HB). The correlation between the free energy of predicted structures and the sensitivity is analyzed for 19 RNA sequences. Although some variance is shown, there is a clear trend between a lower free energy and an increase in true positive base pairs. With increasing sequence length, this correlation generally decreases. In the second experiment, the accuracy of the predicted structures for these 19 sequences are compared against the accuracy of the structures generated by the mfold dynamic programming algorithm (DPA) and also to known structures. RnaPredict is shown to outperform the minimum free energy structures produced by mfold and has comparable performance when compared to suboptimal structures produced by mfold.     

Evolutionary Theory and the Social uses of Biology

Stephen Jay Gould is rightly remembered for many different kinds of contributions to our intellectual life. I focus on his criticisms of uses of evolutionary ideas to defend inegalitarian doctrines and on his attempts to expand the framework of Darwinian evolutionary theory. I argue that his important successes in the former sphere are applications of the idea of local critique, grounded in careful attention to the details of the inegalitarian proposals. As he became more concerned with the second project, Gould was inclined to suggest that the abuses of evolutionary ideas rested on an insufficiently expanded Darwinism. I suggest that what is valuable in Gould's contribution to general evolutionary theory is the original claim about punctuated equilibrium (advanced, with Niles Eldredge in1972), and the careful defense of that claim through the accumulation of paleontological evidence. I try to show that the more ambitious program of a hierarchical expansion of neo-Darwinism is misguided, and that the endeavor to go beyond local critique fails.     

Evolutionary Aspects of Protein Structure and Folding

Four basic stages of evolution of protein structure are described, basing on recent work of the authors aimed specifically to reconstruct the earliest events in the protein evolution. According to this reconstruction, the initial stage of short peptides comprising, probably, only a few amino acid residues had been followed by formation of closed loops of 25–30 residues, which corresponds to the polymer-statistically optimal ring closure size for mixed polypeptide chains. The next stage involved fusion of relatively small linear genes and formation of protein structures consisting of several closed loops of a nearly standard size, with 4–6 loops (100–200 amino acid residues) in a typical protein fold. The last, modern stage began with combinatorial fusion of the presumably circular 300–600 bp DNA units and, accordingly, formation of multidomain proteins.     

Social Learning and the Maintenance of Cultural Variation: An Evolutionary Model and Data from East Africa

Human societies maintain between-group variation despite mixing of people and ideas. In order for variation to remain, migrants or their children must preferentially adopt local norms, customs, and beliefs. Yet the details of how cultural variation is maintained, despite mixing, remain unknown. This article addresses this problem by using a simple model of the evolution of cultural learning to interpret the results of a study of cultural variation in a small region of East Africa. I argue that the manner in which migrants of two diverse regions adapt to local beliefs and behavior depends on the costs and accuracy of learning in each domain. Observational studies are never definitive tests of any hypothesis, but these results suggest that conclusions about the significance of cultural learning for understanding individual attitudes and behavior depend strongly upon the domain of investigation.     

The Evolutionary Structure of Scientific Theories

David Hull's (1988c) model of science as a selection process suffers from a two-fold inability: (a) to ascertain when a lineage of theories has been established; i.e., when theories are descendants of older theories or are novelties, and what counts as a distinct lineage; and (b) to specify what the scientific analogue is of genotype and phenotype. This paper seeks to clarify these issues and to propose an abstract model of theories analogous to particulate genetic structure, in order to reconstruct relationships of descent and identity.     

Evolutionary dynamics of a mitochondrial rearrangement "hot spot" in the Hymenoptera

The arrangement of tRNA genes at the junction of the cytochrome oxidase II and ATPase 8 genes was examined across a broad range of Hymenoptera. Seven distinct arrangements of tRNA genes were identified among a group of wasps that have diverged over the last 180 Myr (suborder Apocrita); many of the rearrangements represent evolutionarily independent events. Approximately equal proportions of local rearrangements, inversions, and translocations were observed, in contrast to vertebrate mitochondria, in which local rearrangements predominate. Surprisingly, homoplasy was evident among certain types of rearrangement; a reversal of the plesiomorphic gene order has arisen on three separate occasions in the Insecta, while the tRNA(H) gene has been translocated to this locus on two separate occasions. Phylogenetic analysis indicates that this gene translocation is real and is not an artifactual translocation resulting from the duplication of a resident tRNA gene followed by mutation of the anticodon. The nature of the intergenic sequences surrounding this region does not indicate that it should be especially prone to rearrangement; it does not generally have the tandem or inverted repeats that might facilitate this plasticity. Intriguingly, these findings are consistent with the view that during the evolution of the Hymenoptera, rearrangements increased at the same time that the rate of point mutations and compositional bias also increased. This association may direct investigations into mitochondrial genome plasticity in other invertebrate lineages.     

Genome Structure and Reproductive Behaviour Influence the Evolutionary Potential of a Fungal Phytopathogen

Modern agriculture favours the selection and spread of novel plant diseases. Furthermore, crop genetic resistance against pathogens is often rendered ineffective within a few years of its commercial deployment. Leptosphaeria maculans, the cause of phoma stem canker of oilseed rape, develops gene-for-gene interactions with its host plant, and has a high evolutionary potential to render ineffective novel sources of resistance in crops. Here, we established a four-year field experiment to monitor the evolution of populations confronted with the newly released Rlm7 resistance and to investigate the nature of the mutations responsible for virulence against Rlm7. A total of 2551 fungal isolates were collected from experimental crops of a Rlm7 cultivar or a cultivar without Rlm7. All isolates were phenotyped for virulence and a subset was genotyped with neutral genetic markers. Virulent isolates were investigated for molecular events at the AvrLm4-7 locus. Whilst virulent isolates were not found in neighbouring crops, their frequency had reached 36% in the experimental field after four years. An extreme diversity of independent molecular events leading to virulence was identified in populations, with large-scale Repeat Induced Point mutations or complete deletion of AvrLm4-7 being the most frequent. Our data suggest that increased mutability of fungal genes involved in the interactions with plants is directly related to their genomic environment and reproductive system. Thus, rapid allelic diversification of avirulence genes can be generated in L. maculans populations in a single field provided that large population sizes and sexual reproduction are favoured by agricultural practices.     

What a Little Hate Literature Will Do: "Cultural Issues" and the Emotional Aspect of School Change

Describing a class entitled "Cultural Issues," this article is drawn from an ethnographic study of an affluent, predominantly white high school responding to recent neo-Nazi incidents. I argue that in focusing on cultural issues around the world rather than those close at hand, the course depoliticized ethnic difference and left unchallenged white privileging at the levels of classroom, school, and community. This neutralizing urge is traced to collective emotions of shame and guilt, which prompted well-intentioned efforts to bolster the school's reputation but prohibited critical exploration of inequity and conflict.     

Constraints and Spandrels in Gould's Structure of Evolutionary Theory

Gould's Structure ofEvolutionary Theory argues that Darwinism hasundergone significant revision. Although Gouldsucceeds in showing that hierarchicalapproaches have expanded Darwinism, hiscritique of adaptationism is less successful. Gould claims that the ubiquity of developmentalconstraints and spandrels has forced biologiststo soften their commitment to adaptationism. Iargue that Gould overstates his conclusion; hisprincipal claims are compatible with at leastsome versions of adaptationism. Despite thisweakness, Gould's discussion of adaptationism –particularly his discussions of the exaptivepool and cross-level spandrels – shouldprovoke new work in evolutionary theory and thephilosophy of biology.     

An Aspect of Urea Cycle Enzymes in Goat

A large amount of ammonia is produced in the rumen and some portion of the ammonia are absorbed into the portal blood through the rumen mucosa. Accordingly, it seems that ammonia detoxication is more necessary for the ruminant than for the non-ruminant. Activities of the urea cycle enzymes as principal instrument for ammonia detoxication in goat were investigated in this experiment.

The activities of the urea cycle enzymes of goat were found to be very similar to those of rat reported by other authors. The activities of the urea cycle enzymes were affected by the protein level of diet. Administration of magnesium aspartate increased the activities of argininosuccinate synthetase and arginase, and had some effect on the concentrations of citrulline, aspartic acid, and urea in the liver.     

Ecological and Evolutionary Effects of Stickleback on Community Structure

Species’ ecology and evolution can have strong effects on communities. Both may change concurrently when species colonize a new ecosystem. We know little, however, about the combined effects of ecological and evolutionary change on community structure. We simultaneously examined the effects of top-predator ecology and evolution on freshwater community parameters using recently evolved generalist and specialist ecotypes of three-spine stickleback (Gasterosteus aculeatus). We used a mesocosm experiment to directly examine the effects of ecological (fish presence and density) and evolutionary (phenotypic diversity and specialization) factors on community structure at lower trophic levels. We evaluated zooplankton biomass and composition, periphyton and phytoplankton chlorophyll-a concentration, and net primary production among treatments containing different densities and diversities of stickleback. Our results showed that both ecological and evolutionary differences in the top-predator affect different aspects of community structure and composition. Community structure, specifically the abundance of organisms at each trophic level, was affected by stickleback presence and density, whereas composition of zooplankton was influenced by stickleback diversity and specialization. Primary productivity, in terms of chlorophyll-a concentration and net primary production was affected by ecological but not evolutionary factors. Our results stress the importance of concurrently evaluating both changes in density and phenotypic diversity on the structure and composition of communities.