Preventive therapies: weighing the pros and cons.

The author comments on three issues raised by Dr. Kenneth G. Marshall in his series on the benefits and harms of preventive therapies, which begins in this issue on page 1493. First, because the method by which the results of clinical trials are presented markedly affects the perception of those results some measure of absolute benefit and harm must be used when the results of clinical trials are presented. Second, there is increasing interest in decision aids as a means of helping patients to understand evidence and make therapeutic choices. It is important that these aids undergo rigorous testing before they are adopted for common use. Third, evidence-based clinical practice guidelines are a welcome resource for busy clinicians. However, physicians and patients should bear in mind that interpretations of the available evidence can vary, leading to different conclusions about the appropriateness of preventive therapies.     

Traction fibres in chromosome movement: the pros and cons

The current discussion on the mechanism of chromosome movement in anaphase is dominated by a new hypothesis assuming active movement of the chromosome along stationary kinetochore microtubules. The aim of this article is to call attention to several older as well as to more recent observations on spindle structural dynamics and microtubule rearrangements which, in the author's opinion, cannot be explained by the new model. In fact, the observations seem to be more consistent with the classical concept of a traction fibre. For this reason, these observations should not be disregarded.     

Discontinuous native protein gel electrophoresis: pros and cons

A new native protein gel system was recently developed that enables the rapid and convenient analysis of virtually all soluble proteins, in particular including basic proteins, in their native oligomeric states. This gel system combines the addition of negative charges to the proteins by the dye SERVA Blue G with a Tris-histidine discontinuous buffer system and the use of polyacrylamide gradient gels. The use of histidine for sample focusing rather than glycine as a slow dipolar ion following from the cathode buffer serves to improve migration of basic proteins. In this review, the principle of function as well as the advantages and disadvantages of the new gel system are discussed in the context of other native protein gel systems and further methods for the analysis of the oligomeric state of a protein.     

Cytosine methylation: remaining faithful

DNA methyltransferase-1 (DNMT1) has a higher specific activity on hemimethylated DNA than on unmethylated DNA, but this preference is too small to explain the faithful mitotic inheritance of genomic methylation patterns. New genetic studies in plants and mammals have identified a novel factor that increases the fidelity of maintenance methylation.     

Messages in spike timing-dependent plasticity: pros and cons

Spike-timing dependent plasticity (STDP), a synaptic modification depending on a relative timing of presynaptic and postsynaptic spikes, has fascinated researchers in the fields of neurophysiology and computational neuroscience, because it is not only conceptually simple or biologically reasonable but is also versatile in neural network simulations. The STDP rule may be valid only under specific conditions, however. We propose herein a method that could find more natural and potent rules of synaptic plasticity.     

Correlation versus gradient type motion detectors: the pros and cons

Visual motion contains a wealth of information about self-motion as well as the three-dimensional structure of the environment. Therefore, it is of utmost importance for any organism with eyes. However, visual motion information is not explicitly represented at the photoreceptor level, but rather has to be computed by the nervous system from the changing retinal images as one of the first processing steps. Two prominent models have been proposed to account for this neural computation: the Reichardt detector and the gradient detector. While the Reichardt detector correlates the luminance levels derived from two adjacent image points, the gradient detector provides an estimate of the local retinal image velocity by dividing the spatial and the temporal luminance gradient. As a consequence of their different internal processing structure, both the models differ in a number of functional aspects such as their dependence on the spatial-pattern structure as well as their sensitivity to photon noise. These different properties lead to the proposal that an ideal motion detector should be of Reichardt type at low luminance levels, but of gradient type at high luminance levels. However, experiments on the fly visual systems provided unambiguous evidence in favour of the Reichardt detector under all luminance conditions. Does this mean that the fly nervous system uses suboptimal computations, or is there a functional aspect missing in the optimality criterion? In the following, I will argue in favour of the latter, showing that Reichardt detectors have an automatic gain control allowing them to dynamically adjust their input–output relationships to the statistical range of velocities presented, while gradient detectors do not have this property. As a consequence, Reichardt detectors, but not gradient detectors, always provide a maximum amount of information about stimulus velocity over a large range of velocities. This important property might explain why Reichardt type of computations have been demonstrated to underlie the extraction of motion information in the fly visual system under all luminance levels.     

Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax

Background

Cytosine methylation of DNA is conserved across eukaryotes and plays important functional roles regulating gene expression during differentiation and development in animals, plants and fungi. Hydroxymethylation was recently identified as another epigenetic modification marking genes important for pluripotency in embryonic stem cells.

Results

Here we describe de novo cytosine methylation and hydroxymethylation in the ciliate Oxytricha trifallax. These DNA modifications occur only during nuclear development and programmed genome rearrangement. We detect methylcytosine and hydroxymethylcytosine directly by high-resolution nano-flow UPLC mass spectrometry, and indirectly by immunofluorescence, methyl-DNA immunoprecipitation and bisulfite sequencing. We describe these modifications in three classes of eliminated DNA: germline-limited transposons and satellite repeats, aberrant DNA rearrangements, and DNA from the parental genome undergoing degradation. Methylation and hydroxymethylation generally occur on the same sequence elements, modifying cytosines in all sequence contexts. We show that the DNA methyltransferase-inhibiting drugs azacitidine and decitabine induce demethylation of both somatic and germline sequence elements during genome rearrangements, with consequent elevated levels of germline-limited repetitive elements in exconjugant cells.

Conclusions

These data strongly support a functional link between cytosine DNA methylation/hydroxymethylation and DNA elimination. We identify a motif strongly enriched in methylated/hydroxymethylated regions, and we propose that this motif recruits DNA modification machinery to specific chromosomes in the parental macronucleus. No recognizable methyltransferase enzyme has yet been described in O. trifallax, raising the possibility that it might employ a novel cytosine methylation machinery to mark DNA sequences for elimination during genome rearrangements.     

Affordable assisted reproductive technologies in developing countries: pros and cons

¹ Correspondence address. E-mail: akandewole{at}yahoo.com Infertility in developing countries is pervasive and a seriousconcern. In addition to the personal grief and suffering itcauses, the inability to have children especially in poor communitiescan create broader problems, particularly for the woman. Infertilityservices in developing countries span the spectrum from preventionto treatment. From a societal and public health standpoint,prevention is cost–effective and is considered by manygovernments and public health care providers to be a priorityfor service delivery. While prevention remains paramount, takenalone it ignores the plight of infertile couples, includingthose with non-infectious causes of infertility. Two key argumentsare frequently used to challenge the development of new reproductivetechnologies in developing countries: overpopulation and limitedresources. Evidence supports the conclusion that there is acompelling need for infertility treatment beyond prevention.In many instances, assisted reproductive technologies (ART)are the last hope or the only means to achieve a child for couples.In an effort to make much needed ART to developing countriesaccessible and affordable, developing countries should lookto public–private partnerships. Governments have a responsibilityto ensure safe and effective services including the controlof standards for clinical procedures and the regulation of professionalpractice.     

Parthenogenesis in mammals: pros and cons in pluripotent cell derivation

Embryonic stem cells (ESCs) represent a useful tool for cell therapy studies, however the use of embryos for their derivation give rise to ethical, religious and legal problems when applied to the human. During the last years parthenogenesis has been proposed as an alternative source to obtain ESCs. Based on the fact that parthenotes avoid many concerns surrounding the “ad hoc” in vitro production and following destruction of viable human embryos. Unfortunately many aspects related to parthenogenetic cell biology are not fully understood and still need to be elucidated. In this review we describe advantages and limits of these cells. We discuss their typical ESC morphology and high telomerase activity, which disappears after differentiation. We examine the pluripotency signature that they share with bi-parental ESCs. We review their high differentiation plasticity that allow for the derivation of several mature cell type populations when we expose these cells to adequate conditions. On the other hand, in-depth analysis demonstrated chromosome mal-segregation and altered mechanisms controlling centriole arrangement and mitotic spindle formation in these cells. We hypothesize their monoparental origin as one of the possible cause of these anomalies and suggest a great caution if a therapeutic use is considered.     

Cytosine methylation can induce local distortions in the structure of duplex DNA.

Methyl groups at the C5 position of pyrimidines located within oligopurine-oligopyrimidine tracts in DNA have been shown previously to modulate curvature generated by those tracts. However, it was not known whether the influence of such methyl groups is consequent to the altered helical structure within the tracts themselves. In the current study, it is demonstrated that methylation of cytosines up to three base pairs away from a (dA)5.(dT)5 tract (A-tract) can still result in alterations of the net curvature of the A-tract-containing DNA, as measured by alterations in electrophoretic mobility. This latter effect depends strongly on both the sequence of the non-A-tract DNA and the positions of the methylated C residues. The current results lend further support to the notion that the biological consequences of cytosine methylation may be effected through local alterations in DNA structure as well as through direct protein-DNA interactions.     

Cytosine methylation in gene-silencing mechanisms

Cytosine methylation is associated with gene-silencing mechanisms in a number of eukaryotic organisms. Recent studies directed at the involvement of methylation in promoter inactivation, X-chromosome and duplicate sequence inactivation and in chromatin structure changes, are presented.