The potential for computer-aided identification in biodiversity research

Species identification lies at the heart of most ecological studies, but it is recognized as a difficult and often frustrating task. Taxonomists have sought to overcome the difficulties of species identification by developing a range of tools and techniques that have increasingly involved the use of computers. We describe recent developments in computer-aided species identification, which have been in four main areas; multi-access keys; hypertext keys; expert systems; and neural networks. We also suggest which technique might be appropriate for a particular taxonomic group.     

From population dynamics to ecoinformatics: Ecosystems as multilevel information processing systems

In classical ecological theory the concept population plays a central role. Most models are formulated in terms of changes in the number/biomass/fraction of interacting populations. In the passed 30 years slowly alternative viewpoints have been developed. In this paper we trace some of these alternative developments which lead to viewing ecosystems in terms of local multilevel information processing and evolution. We will sketch the methodological developments, indicate some fundamental insight gained through the methodological innovations and focus our discussion on the central problem of the development and maintenance of diversity in ecosystems. We will explore the circumstances in which individual based diversity (plasticity, regulatory adaptation, intelligence) or population based diversity (speciation) develops.     

Wildlife population assessment: past developments and future directions

We review the major developments in wildlife population assessment in the past century. Three major areas are considered: mark-recapture, distance sampling, and harvest models. We speculate on how these fields will develop in the next century. Topics for which we expect to see methodological advances include integration of modeling with Geographic Information Systems, automated survey design algorithms, advances in model-based inference from sample survey data, a common inferential framework for wildlife population assessment methods, improved methods for estimating population trends, the embedding of biological process models into inference, substantially improved models for conservation management, advanced spatiotemporal models of ecosystems, and greater emphasis on incorporating model selection uncertainty into inference. We discuss the kind of developments that might be anticipated in these topics.     

Improved Solid Supports and Spacer/Linker Systems for the Synthesis of Spatially Addressable PNA-Libraries

Abstract

Recently, consequential technologies^1–3 in molecular biology were developed using ordered arrays of DNA- and PNA-oligomers, which serve as analytic and diagnostic tools for DNA analyses We want to present our developments towards new spacer/linker systems for improved synthesis, cleavage and analysis of PNA-arrays, using new porous materials as solid support.     

Insulin resistance treatments in the future

Present treatment strategies of type 2 diabetes are unsatisfactory. At diagnosis, most oral antidiabetic agents are effective on blood glucose control, but with time metabolic control deteriorates whatever therapeutic modality is used. The reasons for treatment failure are the natural history of the disease and the necessary implication of the patient in the management of blood glucose control on a constant basis. News treatments thus have to be developed acting on either insulin resistance or insulin secretion or both. We discuss here present and future developments which aim to decrease insulin resistance. In the last 10 years, multiple therapeutic targets have been identified in appetite control, such as the endocannabinoid system and glucagon-like-peptide 1, in insulin signalling and in the control of cellular energy balance such as AMP kinase. These developments should allow a better management of type 2 diabetes and its complications.     

How to obtain labeled proteins and what to do with them

We review new and established methods for the chemical modification of proteins in living cells and highlight recent applications. The review focuses on tag-mediated protein labeling methods, such as the tetracysteine tag and SNAP-tag, and new developments in this field such as intracellular labeling with lipoic acid ligase. Recent promising advances in the incorporation of unnatural amino acids into proteins are also briefly discussed. We describe new tools using tag-mediated labeling methods including the super-resolution microscopy of tagged proteins, the study of the interactions of proteins and protein domains, the subcellular targeting of synthetic ion sensors, and the generation of new semisynthetic metabolite sensors. We conclude with a view on necessary future developments, with one example being the selective labeling of non-tagged, native proteins in complex protein mixtures.     

Modulation of calcium channel function by drugs

Calcium channel blocking drugs, or "calcium antagonists", have been increasingly used in the last decade, both as valuable cardiovascular drugs, and as tools to investigate the pharmacology of the calcium channels which play a vital role in the excitation-activation coupling of many excitable cells. Three important developments, "patch clamping" to investigate single calcium channels, ligand binding studies to investigate the calcium antagonist "receptor sites", and the introduction of novel calcium channel activators, or "calcium agonists", have recently led to greater understanding of the mechanism of action of drugs on the calcium channel. We show here how the calcium channel modulators interact with the binding sites to increase or decrease calcium flux, and hence to modulate the activity of many excitable tissues. We predict that these new developments will soon result in the isolation of purified calcium channels, and investigation of their subtypes and drug sensitivities. This information could lead to the introduction of novel, more selective calcium antagonists for a variety of indications such as atherosclerosis or neurological disorders. Of particular interest is the potential of tissue-selective calcium agonistic drugs to combat cardiac failure or endocrinological disorders.     

Long‐term datasets: From descriptive to predictive data using ecoinformatics

This Special Feature includes contributions on data‐processing of large ecological datasets under the heading ecoinformatics. Herewith the latter term is now al so established in the Journal of Vegetation Science. Ecoinfomatics is introduced as a rapid growing field within community ecology which is generating exciting new developments in ecology and in particular vegetation ecology. In our field, ecoinformatics deals with the understanding of patterns of species distributions at local and regional scales, and on the assemblages of species in relation to their properties, the local environment and their distribution in the region. Community ecology using ecoinformatics is related to bioinformatics, community ecology, biogeography and macroecology. We make clear how ecoinformatics in vegetation science and particularly the IAVS Working Group on Ecoinformatics has developed from the work of the old Working Group for Data Processing which was active during the 1970s and 1980s. Recent developments, including the creation of TURBOVEG and Syn Bio Sys in Europa and VEGBANK in the USA, form a direct link with these pioneer activities, both scientifically and personally. The contributions collected in this Special Feature present examples of seco‐infeveral types of the use of databases and the application of programmes and models. The main types are the study of long‐term vegetation dynamics in different cases of primary and secondary succession and the understanding of successional developments in terms of species traits. Among the future developments of great significance we mention the use of a variety of different large datasets for the study of the distribution and ecology and conservation of rare and threatened species.     

When HIPAA finally comes, will clinical engineering be ready?

We live in interesting times. Recognize that HIPAA will impact nearly everyone in every health care organization and fundamentally change the health care industry. Implementation of HIPAA standards as well as ongoing developments in telemedicine, e-health and the Internet will continue to have a synergistic effect and further transform our industry. Biomedical technology will evolve and combine into ever-larger integrated networks. These networks will extend not only throughout the hospitals but also into the clinics, doctors' offices, and even patients' homes and workplaces. As clinical engineers, we need to stay ahead of the curve, anticipate and be prepared for these developments. We need to understand HIPAA and the implications it has for the technology we manage. We must ensure that the organizations we represent are prepared for what will undoubtedly be an exciting future.     

Male‐Biased Mate Competition in King Penguin Trio Parades

Darwin devised sexual selection theory to explain sexual dimorphisms. Further developments of the theory identified the operational sex‐ratio (OSR) as one of its cornerstones, and it was commonly admitted that an OSR biased toward one sex would lead to stronger selection pressures toward that sex. Recent theoretical developments have challenged this view and showed that the OSR alone does not determine the direction of sexual selection, more particularly in mutually ornamented species exhibiting high and similar parental investment by both sexes. These developments, however, focused on mutual intersexual selection, and little is known about intrasexual selection of both males and females in species exhibiting such characteristics. The first aim of our study was to test the relative involvement of males and females in same‐sex contest over mates in the king penguin, a species exhibiting mutual ornamentation of the sexes, high parental investment by both sexes, and a male‐biased OSR. We investigated the sex composition of trio parades, which are groups of three individuals that compete for mates during pair formation. We found that these trios consist of a female trailed by two fighting males in 19 of 20 cases; the 20th trio was all male. The second aim of our study was to investigate the existence of within‐sex differences in colour ornaments between individuals involved in such trios and individuals already paired. While limited sample sizes precluded detection of statistically significant differences between trios vs. pairs, reflectance measurements suggested that the beak spot of males in trios were more strongly ultraviolet than the beak spot of males in pairs. We concluded that intrasexual selection in our colony follows the typical pattern of mate competition observed in species in which sexual dimorphisms and OSR are male biased, and discussed the ultraviolet difference within the framework of the king penguins' colour perception.     

植物生物反应器的研究进展

利用植物生物反应器生产外源蛋白是一个有吸引力的廉价生产系统,以下介绍了植物生物反应器的不同表达系统,及其各个系统的发展进程和研究现状等。重点论述了应用植物各大表达系统生产疫苗、抗体和医用蛋白等方面的情况以及本实验室在这一领域的研究情况。随着该领域研究的进展,植物生物反应器用于生产低成本药用蛋白的产业化将显示出越来越良好的发展前景。     

A review on recent developments in mass spectrometry instrumentation and quantitative tools advancing bacterial proteomics

Proteomics has evolved substantially since its early days, some 20 years ago. In this mini-review, we aim to provide an overview of general methodologies and more recent developments in mass spectrometric approaches used for relative and absolute quantitation of proteins. Enhancement of sensitivity of the mass spectrometers as well as improved sample preparation and protein fractionation methods are resulting in a more comprehensive analysis of proteomes. We also document some upcoming trends for quantitative proteomics such as the use of label-free quantification methods. Hopefully, microbiologists will continue to explore proteomics as a tool in their research to understand the adaptation of microorganisms to their ever changing environment. We encourage them to incorporate some of the described new developments in mass spectrometry to facilitate their analyses and improve the general knowledge of the fascinating world of microorganisms.     

Can Nanotechnology Improve the Sustainability of Biobased Products?

Recent developments in nanotechnology, especially in the area of nanoclay composites, are improving the technical performance of biobased polymers and moving them toward technical and economic competitiveness with petroleum‐based polymers and conventional composites. We assess whether these developments also improve the environmental sustainability of biopolymers, by using a life cycle approach. We estimate energy use and emissions from the nanoclay production process and compare these with prior life cycle data for biopolymers as well as other fibers, and we find that nanoclay production results in lower energy use and greenhouse gas emissions than production of many common biopolymers and glass fibers. Nanoclay composites hence can improve the life cycle environmental performance of several common biopolymers. However, for some biopolymers the relative performance depends on the functional unit.     

Recent advances in drug repurposing using machine learning

Drug repurposing aims to find new uses for already existing and approved drugs. We now provide a brief overview of recent developments in drug repurposing using machine learning alongside other computational approaches for comparison. We also highlight several applications for cancer using kinase inhibitors, Alzheimer’s disease as well as COVID-19.     

Optogenetics in psychiatric animal models

Optogenetics is the optical control of neuronal excitability by genetically delivered light-activated channels and pumps and represents a promising tool to fuel the study of circuit function in psychiatric animal models. This review highlights three developments. First, we examine the application of optogenetics in one of the neuromodulators central to the pathophysiology of many psychiatric disorders, the dopaminergic system. We then discuss recent work in translating functional magnetic resonance imaging in small animals (in which optogenetics can be employed to reveal physiological mechanisms underlying disease-related alterations in brain circuits) to patients. Finally, we describe emerging technological developments for circuit manipulation in freely behaving animals.     

Aptamers and riboswitches: perspectives in biotechnology

Aptamers are short, single stranded nucleic acids which bind a wide range of different ligands with extraordinary high binding affinity and specificity. The steadily increasing number of aptamers is accompanied by an expanding range of applications in biotechnology. We will describe new developments in the field including the use of aptamers for conditional gene regulation and as biosensors. In addition, we will discuss the potential of aptamers as tags to visualize RNA and protein distribution in living cells and as therapeutics. Furthermore, we will consider biotechnological applications of riboswitches for gene regulation and as drug target.     

Machine learning methods for predicting protein structure from single sequences

Recent breakthroughs in protein structure prediction have increasingly relied on the use of deep neural networks. These recent methods are notable in that they produce 3-D atomic coordinates as a direct output of the networks, a feature which presents many advantages. Although most techniques of this type make use of multiple sequence alignments as their primary input, a new wave of methods have attempted to use just single sequences as the input. We discuss the make-up and operating principles of these models, and highlight new developments in these areas, as well as areas for future development.     

The insertions of the cruropedal muscles and implications for the locomotor evolution in primates

We examined gross-anatomically the cruropedal muscles, which control the toe movements, in some species of insectivores, rodents and primates including humans, with a focus on the phylogenetic developments of these muscles including the distribution patterns of the tendons to the toes. Morphological changes corresponding to the phylogenetic advancement from primitive terrestrial mammals to arboreal primates were found in the short extensors and flexors, presumably in association with the enhancement of independent digital mobility. In contrast, the changes which correspond to the acquisition of terrestrial bipedality in humans were identified in the development of extensors and flexors which govern the first toe, as well as in establishment of the peroneus tertius that dorsi-flexes the talocrural joint.