Data-processing in phytosociology,retrospect and anticipation

Summary The existence of the Working Group for Data-Processing in Phytosociology spans about six years, 1969–1975. Its activities are summarized and a series of papers to appear in Vegetatio, presenting results of various numerical treatments, mainly of salt marsh vegetation, is introduced. A survey is given of seven releve selections to which treatments were applied. Five main fields of activities are discussed: systematical data-processing, rearrangement of phytosociological tables, development of classification and ordination techniques, numerical syntaxonomy, and theoretical phytosociology.The establishment of the Working Group for Theoretical Phytosociology and its first symposium on theoretical aspects is announced.Contribution from the Working Group for Data-Processing in Phytosociology, International Society for Vegetation Science.     

Reaction within the coulomb-cage; science in retrospect

The Coulomb-cage is defined as the space where the electrostatic interaction between two bodies is more intensive than the thermal energy (k_BT). For small molecule, the Coulomb-cage is a small sphere, extending only few water molecules towards the bulk and its radius is sensitive to the ionic strength of the solution. For charged proteins or membranal structures, the Coulomb-cage can engulf large fraction of the surface and provides a preferred pathway for ion propagation along the surface. Similarly, electrostatic potential at the inner space of a channel can form preferential trajectories passage for ions. The dynamics of ions inside the Coulomb-cage of ions was formulated by the studies of proton-anion recombination of excited photoacids. In the present article, we recount the study of intra- Coulomb-cage reaction taking place on the surface of macro-molecular bodies like micelles, membranes, proteins and intra-protein cavities. The study progressed stepwise, tracing the dynamics of a proton ejected from a photo-acid molecule located at defined sites (on membrane, inter-membrane space, active site of enzyme, inside Large Pore Channels etc.). Accumulation of experimental observations encouraged us to study of the reaction mechanism by molecular dynamics simulations of ions within the Coulomb-cage of proteins surface or inside large pores. The intra-Coulomb-cage proton transfer events follows closely the fine structure of the electrostatic field inside the cage and reflects the shape of nearby dielectric boundaries, the temporal ordering of the solvent molecules and the structural fluctuations of the charged side chains. The article sums some 40 years of research, which in retrospect clarifies the intra-Coulomb-cage reaction mechanism.     

Angiotensin, thirst, and sodium appetite: retrospect and prospect.

The fact that drinking in response to some hypovolemic stimuli was attenuated by nephrectomy but not by ureteric ligation led to the suggestion that the renal renin-angiotensin system may play a role in hypovolemic thirst. The isolation of a thirst factor from the kidney and the demonstration that this substance was renin supported the hypothesis. Subsequently, it was shown that the effects of renin on drinking were mediated through angiotensin II, which proved to be a potent dipsogenic substance when administered systemically or injected directly into the brain. Recently, it has been shown that angiotensin II, infused intravenously or through the carotid artery at rates that produce increases in plasma angiotensin II levels similar to those that occur in mild sodium depletion, causes the water-replete animal to drink. This discovery establishes that angiotensin is a physiological stimulus to drinking but it leaves open the question of the extent of the involvement of renal renin in normal thirst. Other unsolved problems are the role of cerebral isorenin in angiotensin thirst and its relationship with renal renin, and in view of its stimulating action on sodium intake when infused into the brain, whether angiotensin plays a significant role in sodium appetite.     

Rotavirus infection and intussusception: a view from retrospect

A live orally-administrable rhesus rotavirus (RRV) tetravalent (TV) vaccine, licensed in the U.S.A. and the European Union, was recalled from the market because it was suspected to increase the risk of intussusception during the week following immunization. In contrast, natural rotavirus infection is generally believed not to cause intussusception. Because my experience contributed to the first paper that linked intussusception with rotavirus infection, I have re-examined our own data published 22 years ago and other studies on this issue. I also made a case study of adenovirus and intussusception as a paradigm to establish an etiological association of viral infection and intussusception. My hypothesis postulated in this review is that natural infection of susceptible (or predisposed) infants with some rotavirus strains, probably serotype G3 rotaviruses, will result in an appreciable fraction of idiopathic intussusception. Thus, the number of rotavirus-induced intussusception cases may change reflecting the relative frequency of G3 strains, which I believe was much higher in the 70s than during the last two decades. The epidemiological data indicate that the RRV-TV vaccine triggers intussusception at a rate significantly higher than the background incidence rate following the week of vaccination, particularly after the first dose. In contrast, the data do not suggest that the cumulative incidence among the vaccine recipients increases accordingly, implicating that the risk of intussusception attributable to the RRV-TV vaccine may be minimal.     

Isolation and identification of the scent of the moth,Galleria mellonella,and a revaluation of its sex pheromone

The strong aromatic scent of the male greater wax moth, Galleria mellonella, has been isolated and identified as a combination of n-nonanal and n-undecanal with the former compound predominating. Gas-liquid chromatography, electroantennagram, and bioassay studies established that the scent is the same material that causes typical sexual behaviour in the female and is the same behaviour elicited by either male moths or by authentic standards.     

Phylogeography: retrospect and prospect

Phylogeography has grown explosively in the two decades since the word was coined and the discipline was outlined in 1987. Here I summarize the many achievements and novel perspectives that phylogeography has brought to population genetics, phylogenetic biology and biogeography. I also address future directions for the field. From the introduction of mitochondrial DNA assays in the late 1970s, to the key distinction between gene trees and species phylogenies, to the ongoing era of multi-locus coalescent theory, phylogeographic perspectives have consistently challenged conventional genetic and evolutionary paradigms, and they have forged empirical and conceptual bridges between the formerly separate disciplines of population genetics (microevolutionary analysis) and phylogenetic biology (in macroevolution).     

A revaluation of lake-phosphorus loading models using a Bayesian hierarchical framework

We revisit the phosphorus-retention and nutrient-loading models in limnology using a Bayesian hierarchical framework. This methodological tool relaxes a basic assumption of regression models fitted to data sets consisting of observations from multiple systems, i.e., the systems are assumed to be identical in behavior, and therefore the models have a single common set of parameters for all systems. Under the hierarchical structure, the models are dissected into levels (hierarchies) that explicitly account for the role of significant sources of variability (e.g., morphometry, mixing regime, geographical location, land-use patterns, trophic status), thereby allowing for intersystem parameter differences. Thus, the proposed approach is a compromise between site-specific (where limited local data is a problem) and globally common (where heterogeneous systems in wide geographical areas are assumed to be identical) parameter estimates. In this study, we used critical values of the mean lake depth $ \left( {\bar{z} = 10.3\,{\text{m}}} \right) $ and the hydraulic residence time (τ _w = 2.6 years) to specify the hierarchical levels of the models. Our analysis demonstrates that the hierarchical configuration led to an improvement of the performance of six out of the seven hypothesized relationships used to predict lake-phosphorus concentrations. We also highlight the differences in the posterior moments of the group-specific parameter distributions, although the inference regarding the importance of different predictors (e.g., inflow-weighted total phosphorus input concentration, and hydraulic retention time) of lake phosphorus or the relative predictability of the models examined are not markedly different from an earlier study by Brett and Benjamin. The best fit to the observed data was obtained by the model that considers the first-order rate coefficient for total phosphorus loss from the lake as an inverse function of the lake hydraulic retention time. Finally, our analysis also demonstrates how the Bayesian hierarchical framework can be used for assessing the exceedance frequency and confidence of compliance of water-quality standards. We conclude that the proposed methodological framework will be very useful in the policy-making process and can optimize environmental management actions in space and time.     

Translation: in retrospect and prospect

This review is occasioned by the fact that the problem of translation, which has simmered on the biological sidelines for the last 40 years, is about to erupt center stage--thanks to the recent spectacular advances in ribosome structure. This most complex, beautiful, and fascinating of cellular mechanisms, the translation apparatus, is also the most important. Translation not only defines gene expression, but it is the sine qua non without which modern (protein-based) cells would not have come into existence. Yet from the start, the problem of translation has been misunderstood--a reflection of the molecular perspective that dominated Biology of the last century. In that the our conception of translation will play a significant role in creating the structure that is 21st century Biology, it is critical that our current (and fundamentally flawed) view of translation be understood for what it is and be reformulated to become an all-embracing perspective about which 21st century Biology can develop. Therefore, the present review is both a retrospective and a plea to biologists to establish a new evolutionary, RNA-World-centered concept of translation. What is needed is an evolutionarily oriented perspective that, first and foremost, focuses on the nature (and origin) of a primitive translation apparatus, the apparatus that transformed an ancient evolutionary era of nucleic acid life, the RNA World, into the world of modern cells.     

RAAS,ACE2 and COVID-19; a mechanistic review

The use of angiotensin-converting enzyme inhibitors (ACEIs) and angiotensin receptor blockers (ARBs) in coronavirus disease 2019 (COVID-19) patients has been claimed as associated with the risk of COVID-19 infection and its subsequent morbidities and mortalities. These claims were resulting from the possibility of upregulating the expression of angiotensin-converting enzyme 2 (ACE2), facilitation of SARS-CoV-2 entry, and increasing the susceptibility of infection in such treated cardiovascular patients. ACE2 and renin-angiotensin-aldosterone system (RAAS) products have a critical function in controlling the severity of lung injury, fibrosis, and failure following the initiation of the disease. This review is to clarify the mechanisms beyond the possible deleterious effects of angiotensin II (Ang II), and the potential protective role of angiotensin 1–7 (Ang 1–7) against pulmonary fibrosis, with a subsequent discussion of the latest updates on ACEIs/ARBs use and COVID-19 susceptibility in the light of these mechanisms and biochemical explanation.