Protein folding: where is the paradox?

In this contribution we shall try to argue that no folding scenario - be it hierachical, nonhierarchical, nucleation, etc. - needs to be invoked to solve Levinthal's paradox: It fails on its own grounds.     

Episodic memory in nonhumans: what, and where, is when?

Episodic memory is defined as the recollection of specific events in one's past, accompanied by the experience of having been there personally. This definition presents high hurdles to the investigation of episodic memory in nonhumans. Recent studies operationalize episodic memory as memory for when and where an event occurred, for the order in which events occurred, or for an animal's own behavior. None of these approaches has yet generalized across species, and each fails to capture features of human episodic memory. Nonetheless, the study of episodic memory in nonhumans seems less daunting than it did five years ago. To demonstrate a correspondence between human episodic memory and nonhuman memory, progress is needed in three areas. Putative episodic memories in nonhumans should be shown to be; first, represented in long-term memory, rather than short-term or working memory; second, explicit, or accessible to introspection; and third, distinct from semantic memory, or general knowledge about the world.     

Using spectral analysis of Landsat-5 TM images to map coastal wetlands in the Amazon River mouth,Brazil

Tropical coastal wetlands form complex and dynamic ecosystems based on a mixture of vegetation, soil, and water components. Optical remotely sensed data have often been used to characterize and monitor these ecosystems, which are among the environments most threatened by climate change and anthropogenic activity worldwide. The present study sought to evaluate the spectral response of Landsat-5 Thematic Mapper (TM) images for the interpretation of different wetlands and associated environments at the mouth of the Amazon River, including mangroves, saltmarshes, beaches, and dunes, as well as secondary vegetation, water with different levels of sediment suspension, and human occupation. A Spectral Angle Mapper (SAM) classifier was applied to the analysis of Landsat-5 TMsatellite imagery to evaluate the potential for the mapping of these coastal wetland land cover classes. The characterization and comparison of the different spectral classes were obtained through the collection of at least 20 polygonal samples (5 × 5 pixels) for each class, with a total of 4,544 points. Spectral separability indices for each pair of classes were based on an Analysis of Variance, with Tukey post-test. The results indicated that most land cover classes could be separated spectrally with Landsat-5 TM. The overall accuracy and Kappa indices for the results of the classification were 86.1 and 0.84 %, respectively. The results of this spectral analysis demonstrated the potential of the SAM classifier for the classification of the different tropical wetlands in a typical Amazon coastal setting from optical remotely sensed data.     

Mammalian animal models of psychosexual differentiation: when is 'translation' to the human situation possible?

Clinical investigators have been forced primarily to use experiments of nature (e.g., cloacal exstrophy; androgen insensitivity, congenital adrenal hyperplasia) to assess the contribution of fetal sex hormone exposure to the development of male- and female-typical profiles of gender identity and role behavior as well as sexual orientation. In this review, I summarize the results of numerous correlative as well as mechanistic animal experiments that shed significant light on general neuroendocrine mechanisms controlling the differentiation of neural circuits controlling sexual partner preference (sexual orientation) in mammalian species including man. I also argue, however, that results of animal studies can, at best, provide only indirect insights into the neuroendocrine determinants of human gender identity and role behaviors.     

From Plateau to Pseudo-Plateau Bursting: Making the Transition

Bursting electrical activity is ubiquitous in excitable cells such as neurons and many endocrine cells. The technique of fast/slow analysis, which takes advantage of time scale differences, is typically used to analyze the dynamics of bursting in mathematical models. Two classes of bursting oscillations that have been identified with this technique, plateau and pseudo-plateau bursting, are often observed in neurons and endocrine cells, respectively. These two types of bursting have very different properties and likely serve different functions. This latter point is supported by the divergent expression of the bursting patterns into different cell types, and raises the question of whether it is even possible for a model for one type of cell to produce bursting of the type seen in the other type without large changes to the model. Using fast/slow analysis, we show here that this is possible, and we provide a procedure for achieving this transition. This suggests that the design principles for bursting in endocrine cells are just quantitative variations of those for bursting in neurons.     

To fuse or not to fuse: What is your purpose?

Since the dawn of time, or at least the dawn of recombinant DNA technology (which for many of today''s scientists is the same thing), investigators have been cloning and expressing heterologous proteins in a variety of different cells for a variety of different reasons. These range from cell biological studies looking at protein-protein interactions, post-translational modifications, and regulation, to laboratory-scale production in support of biochemical, biophysical, and structural studies, to large scale production of potential biotherapeutics. In parallel, fusion-tag technology has grown-up to facilitate microscale purification (pull-downs), protein visualization (epitope tags), enhanced expression and solubility (protein partners, e.g., GST, MBP, TRX, and SUMO), and generic purification (e.g., His-tags, streptag, and FLAG™-tag). Frequently, these latter two goals are combined in a single fusion partner. In this review, we examine the most commonly used fusion methodologies from the perspective of the ultimate use of the tagged protein. That is, what are the most commonly used fusion partners for pull-downs, for structural studies, for production of active proteins, or for large-scale purification? What are the advantages and limitations of each? This review is not meant to be exhaustive and the approach undoubtedly reflects the experiences and interests of the authors. For the sake of brevity, we have largely ignored epitope tags although they receive wide use in cell biology for immunopreciptation.