生物波频效应的信息生化理论探讨

本文简要介绍了生物波频效应的研究概况,通过引用有关文献和研究结果,运用有关生化信息原理初步分析探讨了生物波频效应研究的特点,提出了应用生物波频效应进行生化信息研究的观点,核心问题,有关设想及应用前景。     

Meiosis researchers exchange information in the Alps

The 6th European Meiosis Workshop, sponsored by EMBO and organized by Franz Klein of the University of Vienna, met in mid-September. More than 150 participants who have not discovered anything more interesting than sex gathered in a bucolic Alpine valley near the town of Obertraun, Austria, surrounded by granite massifs.     

Successful information exchange between restoration science and practice

The science‐practice gap is often cited as a limitation to successful restoration outcomes; however, the existence of such a gap in information exchange is rarely measured. Here, we quantify the gap by focusing on common recommendations from both scientists (i.e. researchers) and managers (i.e. practitioners, land managers) on what is needed for successful restoration. We surveyed 45 managers associated with 244 invasive species (Tamarix spp.) removal projects across the southwestern U.S. to determine the degree to which they have utilized four strategies advocated by scientists: (1) collaborate widely, (2) monitor beyond cursory visual methods, (3) use a variety of information sources, and (4) consider project goals beyond invasive species removal. Half of these managers were also interviewed to assess managers' perceptions of the role of science in restoration. Twenty‐three scientists specializing in Tamarix‐related research in this region were also surveyed to assess how much they understood and/or shared the concerns of land managers. We found that managers were following scientists' recommendations and that managers' perceptions of the role of science in land management did not have any bearing on the management actions taken. Scientists reported being influenced by managers, and the concerns of scientists and managers were more overlapping than expected. Boundary organizations and river‐wide partnerships were often cited as important in facilitating effective communication between land managers and scientists. A lack of funding for monitoring and for longer‐term projects was cited by both groups as a limitation to incorporating scientists' recommendations into restoration.     

Web-based consumer health information: public access, digital division, and remainders

Public access Internet portals and decreasing costs of personal computers have created a growing consensus that unequal access to information, or a "digital divide," has largely disappeared for US consumers. A series of technology initiatives in the late 1990s were believed to have largely eliminated the divide. For healthcare patients, access to information is an essential part of the consumer-centric framework outlined in the recently proposed national health information initiative. Data from a recent study of health information-seeking behaviors on the Internet suggest that a "digitally underserved group" persists, effectively limiting the planned national health information infrastructure to wealthier Americans.     

Mining biochemical information: lessons taught by the ribosome

The publication of the crystal structures of the ribosome offers an opportunity to retrospectively evaluate the information content of hundreds of qualitative biochemical and biophysical studies of these structures. We assessed the correspondence between more than 2,500 experimental proximity measurements and the distances observed in the ribosomal crystals. Although detailed experimental procedures and protocols are unique in almost each analyzed paper, the data can be grouped into subsets with similar patterns and analyzed in an integrative fashion. We found that, for crosslinking, footprinting, and cleavage data, the corresponding distances observed in crystal structures generally did not exceed the maximum values expected (from the estimated length of the agent and maximal anticipated deviations from the conformations found in crystals). However, the distribution of distances had heavier tails than those typically assumed when building three-dimensional models, and the fraction of incompatible distances was greater than expected. Some of these incompatibilities can be attributed to the experimental methods used. In addition, the accuracy of these procedures appears to be sensitive to the different reactivities, flexibilities, and interactions among the components. These findings demonstrate the necessity of a very careful analysis of data used for structural modeling and consideration of all possible parameters that could potentially influence the quality of measurements. We conclude that experimental proximity measurements can provide useful distance information for structural modeling, but with a broad distribution of inferred distance ranges. We also conclude that development of automated modeling approaches would benefit from better annotations of experimental data for detection and interpretation of their significance.     

Modeling biochemical transformation processes and information processing with Narrator

Background  

Software tools that model and simulate the dynamics of biological processes and systems are becoming increasingly important. Some of these tools offer sophisticated graphical user interfaces (GUIs), which greatly enhance their acceptance by users. Such GUIs are based on symbolic or graphical notations used to describe, interact and communicate the developed models. Typically, these graphical notations are geared towards conventional biochemical pathway diagrams. They permit the user to represent the transport and transformation of chemical species and to define inhibitory and stimulatory dependencies. A critical weakness of existing tools is their lack of supporting an integrative representation of transport, transformation as well as biological information processing.     

Hydrogen/deuterium exchange mass spectrometry of actin in various biochemical contexts

Hydrogen/deuterium exchange mass spectrometry (H/D MS) of monomeric actin (G-actin), polymeric actin (F-actin), phalloidin-bound F-actin and G-actin complexed with DNase I provides new insights into the architecture of F-actin and the effects of phalloidin and DNase I binding. Although the overall pattern of deuteration change supports the gross features of the Holmes F-actin model, two important differences were observed. Most significantly, no change in deuteration was observed in the critical "hydrophobic plug" region, suggesting this feature may not be present. Polymerization also produced deuteration increases for peptide fragments containing the ATP phosphate-binding loops, suggesting G-actin transitions to a more "open" conformation upon polymerization. However, polymerization produced decreases in deuteration mainly localized to the "inner", filament-axis side as predicted by the Holmes model. Mapping the phalloidin-induced decreases in F-actin deuteration onto the Lorenz binding site produced a single common patch straddling two monomers across the 1-start helix contact, again consistent with the Holmes architecture. Finally, both DNase I and phalloidin were able to alter the deuteration of regions distal to their respective binding sites. These results highlight the great opportunities for H/D MS to exploit high-resolution structures for detailed studies of the organization and dynamics of complex molecular assemblies.     

Modelling information exchange in worker-queen conflict over sex allocation

We investigate the conflict between queen and worker over sex allocation, specifically the allocation of the queen's eggs between workers and reproductives and the allocation of the reproductive eggs between male and female. In contrast to previous models, we allow workers to observe and use information about the strategy of the queen. We consider three conflict models: simultaneous (no information exchange), sequential (a one-way information exchange) and negotiated (an iterated two-way information exchange). We find that the first model produces sex ratios intermediate between the classic queen (1:1) and worker (1:3) optima. The second model, in which the worker has information about the queen's decisions, produces a different result and one that is somewhat counter-intuitive in that the sex ratios are less female-biased than for the other two models, and in fact are often male-biased. The third model predicts sex ratios intermediate between the first two models. We discuss how these findings may shed new light on observed sex allocation patterns in social insects and we suggest some experimental tests.     

Intercellular communication: diverse structures for exchange of genetic information

An emerging concept is that cellular communication in mammals can be mediated by the exchange of genetic information, mainly in the form of microRNAs. This can occur when extracellular vesicles, such as exosomes, secreted by a donor cell are taken up by an acceptor cell. Transfer of genetic material can also occur through intimate membrane contacts between donor and acceptor cells. Specialized cell-cell contacts, such as synapses, have the potential to combine these modes of genetic transfer.     

Web-based telemicroscopy

By taking advantage of network-based computing and the recent developments in Web interfaces, centralized research facilities housing specialized and unique imaging instruments along with associated high-performance computing can be made available to researchers for use from their own laboratories. In addition to increasing access and utilization of these facilities, operation over the Internet is expected to enhance research by facilitating collaboration between researchers. We describe the implementation of a platform-independent Web-based system written in Java that supplements automated functions with video-guided interactive, collaborative remote control and data acquisition from an intermediate-high-voltage electron microscope.