The integrated Michaelis-Menten rate equation: déjà vu or vu jàdé?

A recent article of Johnson and Goody (Biochemistry, 2011;50:8264–8269) described the almost-100-years-old paper of Michaelis and Menten. Johnson and Goody translated this classic article and presented the historical perspective to one of incipient enzyme-reaction data analysis, including a pioneering global fit of the integrated rate equation in its implicit form to the experimental time-course data. They reanalyzed these data, although only numerical techniques were used to solve the model equations. However, there is also the still little known algebraic rate-integration equation in a closed form that enables direct fitting of the data. Therefore, in this commentary, I briefly present the integral solution of the Michaelis-Menten rate equation, which has been largely overlooked for three decades. This solution is expressed in terms of the Lambert W function, and I demonstrate here its use for global nonlinear regression curve fitting, as carried out with the original time-course dataset of Michaelis and Menten.     

Mysterious Ca(2+)-independent muscular contraction: déjà vu

The permeabilized cells and muscle fibres technique allows one to study the functional properties of mitochondria without their isolation, thus preserving all of the contacts with cellular structures, mostly the cytoskeleton, to study the whole mitochondrial population in the cell in their natural surroundings and it is increasingly being used in both experimental and clinical studies. The functional parameters (affinity for ADP in regulation of respiration) of mitochondria in permeabilized myocytes or myocardial fibres are very different from those in isolated mitochondria in vitro. In the present study, we have analysed the data showing the dependence of this parameter upon the muscle contractile state. Most remarkable is the effect of recently described Ca(2+)-independent contraction of permeabilized muscle fibres induced by elevated temperatures (30-37°C). We show that very similar strong spontaneous Ca(2+)-independent contraction can be produced by proteolytic treatment of permeabilized muscle fibres that result in a disorganization of mitochondrial arrangement, leading to a significant increase in affinity for ADP. These data show that Ca(2+)-insensitive contraction may be related to the destruction of cytoskeleton structures by intracellular proteases. Therefore the use of their inhibitors is strongly advised at the permeabilization step with careful washing of fibres or cells afterwards. A possible physiologically relevant relationship between Ca(2+)-regulated ATP-dependent contraction and mitochondrial functional parameters is also discussed.     

Café Scientifique--déjà vu

Is the Café Scientifique a fashionable by-product of a comfortable age or an indicator of the changing relationship between science and society?     

Invertebrate memory: honeybees with a sense of déjà vu

Recent studies of visual sequence learning in honeybees have investigated the bees' ability to perform delayed-matching-to-sample and their short-term memory during such tasks. The insect's successful performance raises questions about the underlying mechanisms.     

Targeting B cells in systemic lupus erythematosus: not just déjà vu all over again

Epratuzumab (anti-CD22) is a humanized monoclonal antibody that recognizes a pan-B-cell marker. It potentially downregulates B cell activity through negative signaling, as well as depleting B cells moderately. The uncontrolled series discussed by Dörner and colleagues in this issue of Arthritis Research &; Therapy suggests that epratuzumab may be safe and efficacious for systemic lupus erythematosus. A randomized controlled trial is currently active to test this possibility.     

Déjà vu all over again: finding and analyzing protein structure similarities

Structure comparison is a crucial aspect of structural biology today. The field of structure comparison is developing rapidly, with the development of new algorithms, similarity scores, and statistical scores. The predicted large increase of experimental structures and structural models made possible by high-throughput efforts means that structural comparison and searching of structural databases using automated methods will become increasingly common. This Ways & Means article is meant to guide the structural biologist in the basics of structural alignment, and to provide an overview of the available software tools. The main purpose is to encourage users to gain some understanding of the strengths and limitations of structural alignment, and to take these factors into account when interpreting the results of different programs.     

HCV versus HIV drug discovery: Déjà vu all over again?

Efforts to address HIV infection have been highly successful, enabling chronic suppression of viral replication with once-daily regimens. More recent research into HCV therapeutics have also resulted in very promising clinical candidates. This Digest explores similarities and differences in the two fields and compares the chronology of drug discovery relative to the availability of enabling tools, and concludes that safe and convenient, once-daily regimens are likely to reach approval much more rapidly for HCV than was the case for HIV.     

This is not déjà vu all over again: male guppy colour in a new experimental introduction

We use an experimental introduction in nature to examine factors that influence parallel evolution. In 1996, 200 high-predation guppies (Poecilia reticulata) from the Yarra River were introduced into the Damier River, which previously lacked guppies. Eight years later, we quantified the colour of wild-caught guppies ('phenotypic' divergence) and lab-reared guppies ('genetic' divergence) from low- and high-predation environments in both rivers. Phenotypic and genetic divergence between predation environments within the Yarra was evident for black and for orange. Phenotypic divergence within the Damier was parallel to the Yarra for black but not for orange. Genetic divergence was absent between predation environments within the Damier, but was evident when comparing both Damier populations to their Yarra ancestors. The evolution of male colour thus depends on factors other than the simple contrast between 'high' and 'low' predation. We suggest that the parallel evolution of male signalling traits may sometimes first require the parallel evolution of female preferences.     

Biofeedback and hypertension: a déjà vu experience. Comments on Yucha's "Problems inherent in assessing biofeedback efficacy studies"

The author makes several comments and observations on Yucha's recent paper on biofeedback treatment of hypertension (C. B. Yucha, 2001). In particular, he highlights the need for replicability of biofeedback treatment effects to move the field forward.     

Déjà vu in proteomics. A hit parade of repeatedly identified differentially expressed proteins

After reading many 2-DE-based articles featuring lists of the differentially expressed proteins, one starts experiencing a disturbing déjà vu. The same proteins seem to predominate regardless of the experiment, tissue or species. To quantify the occurrence of individual differentially expressed proteins in 2-DE experiment reports, we compiled the identities of differentially expressed proteins identified in human, mouse, and rat tissues published in three recent volumes of Proteomics and calculated the appearance of the most predominant proteins in the dataset. The most frequently identified protein is a highly abundant glycolytic enzyme enolase 1, differentially expressed in nearly every third experiment on both human and rodent tissues. Heat-shock protein 27 (HSP27) and heat-shock protein 60 (HSP60) were differentially expressed in about 30 percent of human and rodent samples, respectively. Considering protein families as units, keratins and peroxiredoxins are the most frequently identified molecules, with at least one member of the group being differentially expressed in about 40 percent of all experiments. We suggest that the frequent identification of these proteins must be considered in the interpretation of any 2-DE studies. We consider if these commonly observed changes represent common cellular stress responses or are a reflection of the technical limitations of 2-DE.