Testing the effects of diversity on ecosystem multifunctionality using a multivariate model

Most ecosystems provide multiple services, thus the impact of biodiversity losses on ecosystem functions may be considerably underestimated by studies that only address single functions. We propose a multivariate modelling framework for quantifying the relationship between biodiversity and multiple ecosystem functions (multifunctionality). Our framework consolidates the strengths of previous approaches to analysing ecosystem multifunctionality and contributes several advances. It simultaneously assesses the drivers of multifunctionality, such as species relative abundances, richness, evenness and other manipulated treatments. It also tests the relative importance of these drivers across functions, incorporates correlations among functions and identifies conditions where all functions perform well and where trade‐offs occur among functions. We illustrate our framework using data from three ecosystem functions (sown biomass, weed suppression and nitrogen yield) in a four‐species grassland experiment. We found high variability in performance across the functions in monocultures, but as community diversity increased, performance increased and variability across functions decreased.     

Feather function and the evolution of birds

The ability of feathers to perform many functions either simultaneously or at different times throughout the year or life of a bird is integral to the evolutionary history of birds. Many studies focus on single functions of feathers, but any given feather performs many functions over its lifetime. These functions necessarily interact with each other throughout the evolution and development of birds, so our knowledge of avian evolution is incomplete without understanding the multifunctionality of feathers, and how different functions may act synergistically or antagonistically during natural selection. Here, we review how feather functions interact with avian evolution, with a focus on recent technological and discovery-based advances. By synthesising research into feather functions over hierarchical scales (pattern, arrangement, macrostructure, microstructure, nanostructure, molecules), we aim to provide a broad context for how the adaptability and multifunctionality of feathers have allowed birds to diversify into an astounding array of environments and life-history strategies. We suggest that future research into avian evolution involving feather function should consider multiple aspects of a feather, including multiple functions, seasonal wear and renewal, and ecological or mechanical interactions. With this more holistic view, processes such as the evolution of avian coloration and flight can be understood in a broader and more nuanced context.     

Analyzing trophic ecosystem functions with the interaction functional space

Quantifying the vulnerability of ecosystems to global change requires a better understanding of how trophic ecosystem functions emerge. So far, trophic ecosystem functions have been studied from the perspective of either functional diversity or network ecology. To integrate these two perspectives, we propose the interaction functional space (IFS) a conceptual framework to simultaneously analyze the effects of traits and interactions on trophic functions. We exemplify the added value of our framework for seed dispersal and wood decomposition and show how species interactions influence the relationship between functional trait diversity and trophic functions. We propose future applications for a range of functions where the IFS can help to elucidate mechanisms underpinning trophic functions and facilitate understanding of functional changes in ecosystems amidst global change.     

哺乳类两大嗅觉系统功能的研究进展

近年来对于嗅觉系统的研究已成为动物学研究的热点之一,本文通过对以往关于哺乳类两大嗅觉系统功能的研究进行总结和回顾,对目前犁鼻器系统(VOE-AOB)和主嗅觉系统(MOE-MOB)功能结论上的争议做了初步探讨。通过概括和总结,发现目前对两大嗅觉系统功能还存在争议,其原因可能有以下几点:以前的研究方法上可能有不完善之处;不同的研究采用的物种不同,结论上的争议也许与不同物种间存在种间差异有关;动物的社会经验对研究结论可能也有一定影响。希望通过本文能进一步促进今后此方面的研究。     

抗逆蛋白查询系统的初步建立

运用生物信息学的手段从NCBI获得不同的植物抗逆基因,对基因的名称,功能,该基因的数据来源,及相关文献作整理,初步建立了抗逆蛋白查询系统。此系统与很多生物软件兼容,利用这些软件可方便的在该数据库中进行序列比对、抗逆蛋白同源性的比较、未知蛋白功能预测、绘制分子树等多项功能。     

Calculation of the circular dichroism of double-helical nucleic acids. 3. Dependence of the results on the choice of wave functions for purines and pyrimidines

The circular dichroism of double-helical nucleic acids was calculated using three different sets of wave functions for the purine and pyrimidine chromophores. Different wave functions give qualitatively the same types of spectra. Quantitatively, the differences are very substantial. However, the dependence of calculated circular dichroism spectra on nucleic acid geometry and base composition is very similar for the three different sets of wave functions. Each set of wave functions could be used to reproduce some, but not all experimentally observed spectra. The geometries required to reproduce experimentally observed spectra consistently require double-helical geometries similar to the B or C forms of DNA.     

Modeling the DNA-solvent interface

We extend the technique of using perpendicular distribution functions to salt solutions around nucleic acids. Both solute density averaged and nonaveraged reference frames are considered and compared. Using a previous simulation of DNA in salt water of over a nanosecond in duration, the aqueous distribution functions were found to be well converged, whereas the salt perpendicular distribution functions were less well determined. Three-dimensional density reconstructions reliably showed the prominent salvation features with transferable functions. The number of solute atom types needed for reconstructions of a given precision was determined in the context of the reference simulation data set with the goal of achieving a required level of reconstruction quality. © 1997 John Wiley & Sons, Inc.     

Rethinking the emotional brain

I propose a reconceptualization of key phenomena important in the study of emotion-those phenomena that reflect functions and circuits related to survival, and that are shared by humans and other animals. The approach shifts the focus from questions about whether emotions that humans consciously feel are also present in other animals, and toward questions about the extent to which circuits and corresponding functions that are present in other animals (survival circuits and functions) are also present in humans. Survival circuit functions are not causally related to emotional feelings but obviously contribute to these, at least indirectly. The survival circuit concept integrates ideas about emotion, motivation, reinforcement, and arousal in the effort to understand how organisms survive and thrive by detecting and responding to challenges and opportunities in daily life.     

Functional integrative levels in the human interactome recapitulate organ organization

Interactome networks represent sets of possible physical interactions between proteins. They lack spatio-temporal information by construction. However, the specialized functions of the differentiated cell types which are assembled into tissues or organs depend on the combinatorial arrangements of proteins and their physical interactions. Is tissue-specificity, therefore, encoded within the interactome? In order to address this question, we combined protein-protein interactions, expression data, functional annotations and interactome topology. We first identified a subnetwork formed exclusively of proteins whose interactions were observed in all tested tissues. These are mainly involved in housekeeping functions and are located at the topological center of the interactome. This ‘Largest Common Interactome Network’ represents a ‘functional interactome core’. Interestingly, two types of tissue-specific interactions are distinguished when considering function and network topology: tissue-specific interactions involved in regulatory and developmental functions are central whereas tissue-specific interactions involved in organ physiological functions are peripheral. Overall, the functional organization of the human interactome reflects several integrative levels of functions with housekeeping and regulatory tissue-specific functions at the center and physiological tissue-specific functions at the periphery. This gradient of functions recapitulates the organization of organs, from cells to organs. Given that several gradients have already been identified across interactomes, we propose that gradients may represent a general principle of protein-protein interaction network organization.     

Evolutionary innovations and the organization of protein functions in genotype space

The organization of protein structures in protein genotype space is well studied. The same does not hold for protein functions, whose organization is important to understand how novel protein functions can arise through blind evolutionary searches of sequence space. In systems other than proteins, two organizational features of genotype space facilitate phenotypic innovation. The first is that genotypes with the same phenotype form vast and connected genotype networks. The second is that different neighborhoods in this space contain different novel phenotypes. We here characterize the organization of enzymatic functions in protein genotype space, using a data set of more than 30,000 proteins with known structure and function. We show that different neighborhoods of genotype space contain proteins with very different functions. This property both facilitates evolutionary innovation through exploration of a genotype network, and it constrains the evolution of novel phenotypes. The phenotypic diversity of different neighborhoods is caused by the fact that some functions can be carried out by multiple structures. We show that the space of protein functions is not homogeneous, and different genotype neighborhoods tend to contain a different spectrum of functions, whose diversity increases with increasing distance of these neighborhoods in sequence space. Whether a protein with a given function can evolve specific new functions is thus determined by the protein's location in sequence space.     

Roles of glia in the Drosophila nervous system

Glial cells have diverse functions that are necessary for the proper development and function of complex nervous systems. Various insects, primarily the fruit fly Drosophila melanogaster and the moth Manduca sexta, have provided useful models of glial function during development. The present review will outline evidence of glial contributions to embryonic, visual, olfactory and wing development. We will also outline evidence for non-developmental functions of insect glia including blood-brain-barrier formation, homeostatic functions and potential contributions to synaptic function. Where relevant, we will also point out similarities between the functions of insect glia and their vertebrate counterparts.     

Engineering viral expression vectors for plants: the 'full virus' and the 'deconstructed virus' strategies

Plant viral vectors are being successfully developed and exploited for the industrial-scale expression of heterologous proteins and as a research tool for studies of gene expression. The initial engineering strategy (the 'full virus' vector strategy) aimed to design a vector that was essentially a wildtype virus, which was modified to carry and express a heterologous sequence that encoded a gene of interest. The new emerging trend (the 'deconstructed virus' vector strategy) reflects an ideology that recognises the inherent limitations of the viral process. It attempts to 'deconstruct' the virus, by eliminating functions that are limiting or undesired, and to rebuild it, either by delegating the missing necessary functions to the host (which is genetically modified to provide those functions) or by replacing them with analogous functions that are not derived from a virus.     

Functions of unconventional myosins in the yeast Saccharomyces cerevisiae

Unconventional myosins in the budding yeast play essential roles in diverse cellular functions, including endocytosis, actin organization, and polarized distribution of organelles. Several lines of evidence suggest that novel proteins, interacting with the unconventional myosins, regulate their functions. In this review, we focus on the functions of unconventional myosins from the point of view of myosin-interacting proteins.     

Sex assessment on the basis of long bone circumference

Discriminant functions have long been used to classify individuals into groups according to the dimensions of their bones. Although lengths, widths, and diameters have been extensively used, the circumferences have not been adequately validated. In this work, the importance that the circumferences of long bones can have in assigning the sex of ancient human remains is demonstrated. The functions produced by using just one circumference achieved accuracies higher than 80%, and circumference at the radial tuberosity of the radius is able to classify 92.8% of skeletons from the Late Roman site of Mas Rimbau/Mas Mallol (Spain). When functions are produced by using more than one circumference, they can achieve the uppermost classification attained in this sample. The functions also showed that the arm circumference functions are more useful than those of the leg, probably because male individuals of the population had greater mechanical stress than did females. The classification percentages, as well as other statistical values for the functions, demonstrated the great ability of long bone circumferences in helping to classify the sex of individuals of other sites of the Mediterranean area besides the ones examined in this study.     

On the Interrelationship of Speech Functioning and Manual Motor Activity in Aphasia

Clinicians, physiologists, and psychologists are familiar with cases of simultaneous disturbance of various functions in localized cerebral lesions. These phenomena have been studied and described repeatedly, but continue to be of substantial interest, as analysis of them may make a contribution to the study of localization of functions in the cerebral cortex, substitution and restoration of functions, and the nature of their interrelationships. Our attention was attracted by a case of simultaneous disturbance of motor function and the power of speech in a lesion of the left (dominant) hemisphere. We began by investigating motor functions in aphasia and in the normal state, with a view to subsequent comparison of the motor and verbal functions in the normal state and in aphasia.     

Features of the associative function of the brains of children with high and low lability of nervous system processes

Characteristics of brain associative functions in children of 6 years old with different lability of nervous processes, were compared by methods of conditioning and informational analysis. In children with a low lability, these functions were 1.6 time slower than in other children. Enhanced demands to lability (limitation of time, acceleration of signals presentation) lead to their further slowing and successive inhibition. In children with a high lability, in such conditions an activation of brain associative functions was recorded followed by expressed successive excitation. These differences may be considered as typological. In cases of learned inertness of motor reactions, the characteristics of these functions corresponded to those in children with a high lability of nervous processes.     

Assignment of functions to segments of the DsRNA genome of the Ustilago virus

Summary The genome of the 3 Ustilago maydis viruses, known to be associated with the killer phenomenon, is segmented. The distribution of the viral functions on different segments has been partly resolved. The reported comparative study, of a series of mutants with deleted segments of the genome and of hybrid variants containing segments of the related viruses, provides additional information on the location of various functions and on the interrelations among the different segments. The data indicates that the functions related to the maintenance of the viral information are located on the H segments. Among these segments some function overlap exists. The maintenance of the M and L segments is dependent on the functions located on the H segments. The functions related to the killer phenotype are distributed on the M2 and L1 segments. These functions include the determination of the killer specificity. The H segments play no role in the determination of the killer specificity and the specificity is determined by the M2 segment. The L segment is essential for the expression of the killer phenotype but it is suggested that the information for the toxin resides in the M2 segment.     

A construction method to study the role of incidence in the adaptive dynamics of pathogens with direct and environmental transmission

We study the adaptive dynamics of virulence of a pathogen transmitted both via direct contacts between hosts and via free pathogens that survive in the environment. The model is very flexible with a number of trade-off functions linking virulence to other pathogen-related parameters and with two incidence functions that describe the contact rates between hosts and between a host and free pathogens. Instead of making a priori particular assumptions about the shapes of these functions, we introduce a construction method to create specific pairs of incidence functions such that the model becomes an optimization model. Unfolding the optimization model leads to coexistence of pathogen strains and evolutionary branching of virulence. The construction method is applicable to a wide range of eco-evolutionary models.     

Tales from the crypt(ochromes)

Cryptochromes are a family of flavoproteins found in organisms ranging from Arabidopsis to man. Across phylogeny, these proteins have been used for pleiotropic functions ranging from blue-light-dependent development in plants and blue-light-mediated phase shifting of the circadian clock in insects to a core circadian clock component in mammals. Review of the roles of cryptochromes in model organisms reveals several common themes: Multiple cryptochrome family members within individual organisms have redundant functions; cryptochromes used in photic entrainment pathways of the circadian clock are partially redundant with other photopigments; and cryptochromes may function in circadian phototransduction and core clock mechanisms in the same organism, with different functions in different tissues. The present review summarizes recent research on the functions of cryptochrome in the circadian timekeeping and photic entrainment pathways.