Ageing of mammals

Thymic Involution in Ontogenesis: Role in Aging Program

In most mammals, involution of the thymus occurs with aging. In this issue of Biochemistry (Moscow) devoted to phenoptosis, A. V. Khalyavkin considered involution of a thymus as an example of the program of development and further--of proliferation control and prevention of tumor growth. However, in animals devoid of a thymus (e.g. naked mice), stimulation of carcinogenesis, but not its prevention was observed. In this report, we focus on the involution of the thymus as a manifestation of the aging program (slow phenoptosis). We also consider methods of reversal/arrest of this program at different levels of organization of life (cell, tissue, and organism) including surgical manipulations, hormonal effects, genetic techniques, as well as the use of conventional and mitochondria-targeted antioxidants. We conclude that programmed aging (at least on the model of age-dependent thymic atrophy) can be inhibited.

Cellular differentiation: a theory based on simulation with computer graphics

Rules are outlined in order to construct graphically a computer model that deals with cell growth, multiplication and differentiation. The process starts with a multicoloured stem cell and the end product will be differentiated cells represented by different colours. Various biological processes and neoplastic transformation can also be simulated. Based on the idea that the model corresponds to real events, predictions are made about the possible results of future experiments.

Isoleucyl-tRNA synthetase from baker's yeast. Influence of substrate concentrations on aminoacylation pathways, discrimination between tRNAIle and tRNAVal, and between isoleucine and valine

The influence of substrate concentrations on aminoacylation pathways and substrate specificities was investigated in the acylation reaction catalyzed by isoleucyl-tRNA synthetase from yeast. For the cognate substrates isoleucine and tRNAIle two Km values each differing by a factor about five were determined; the higher values were observed at concentrations higher than 1 microM, the lower values below 1 microM isoleucine or tRNAIle, respectively. At substrate concentrations below 1 microM also kcat values of the isoleucylation reaction are lowered. With the noncognate substrates valine and tRNAVal such differences could not be detected. The substrate ATP did not show any change of its Km value as far as the reaction was measurable. Under six different new assay conditions orders of substrate addition and product release followed sixtimes a sequential ordered ter-ter steady-state mechanism with ATP as the first substrate to be added, isoleucine as the second, and tRNAIle as the third one; pyrophosphate is the first product to be released, isoleucyl-tRNA the second, and AMP the third one. In one case this mechanism was modified by a rapid equilibrium segment for addition of ATP and isoleucine. From kcat and Km values and from AMP formation rates discrimination factors for discrimination between tRNAIleII and tRNAValI as well as between isoleucine and valine were determined. In the first case discrimination factors can vary up to a factor of thirty by changes of tRNA or amino-acid concentrations, in the second case discrimination factors are practically invariant. The two different Km values are hypothetically explained by assumption of anticooperativity in a flip-flop mechanism. Two hypothetical catalytic cycles are postulated.

Isoleucyl-tRNA synthetase from bakers' yeast: multistep proofreading in discrimination between isoleucine and valine with modulated accuracy, a scheme for molecular recognition by energy dissipation

For discrimination between isoleucine and valine by isoleucyl-tRNA synthetase from yeast, a multistep sequence is established. The initial discrimination of the substrates is followed by a pretransfer and a posttransfer hydrolytic proofreading process. The overall discrimination factor D was determined from kcat and Km values observed in aminoacylation of tRNAIle-C-C-A with isoleucine and valine. From aminoacylation of the modified tRNA species tRNAIle-C-C-3'dA and tRNAIle-C-C-A (3'NH2), the initial discrimination factor I (valid for the reversible substrate binding) and the proofreading factor P1 (valid for the aminoacyl adenylate formation) could be determined. Factor I was computed from ATP consumption and D1, the overall discrimination factor for this partial reaction which can be obtained from kinetic constants, and P1 was calculated from AMP formation rates. Proofreading factor P2 (valid for aminoacyl transfer reaction) was determined from AMP formation rates observed in aminoacylation of tRNAIle-C-C-A and tRNAIle-C-C-3'dA. From the initial discrimination factor I and the AMP formation rates, discrimination factor DAMP in aminoacylation of tRNAIle-C-C-A can be calculated. These values deviate by a factor II from factor D obtained by kinetics which may be due to the fact that for acylation of tRNAIle-C-C-A an initial discrimination factor I' = III is valid. The observed overall discrimination varies up to a factor of 16 according to conditions. Under optimal conditions, 38 000 correct aminoacyl-tRNAs are produced per 1 error while the energy of 5.5 ATPs is dissipated. With the determined energetic and molecular flows for the various steps of the enzymatic reaction, a coherent picture of this new type of "far away from equilibrium enzyme" emerges.

Isoleucyl-tRNA synthetase from bakers' yeast: variable discrimination between tRNAIle and tRNAVal and different pathways of cognate and noncognate aminoacylation under standard conditions, in the presence of pyrophosphatase, elongation factor Tu-GTP complex, and spermine

Error rates in discrimination between cognate tRNAIle and noncognate tRNAVal in the aminoacylation reaction with isoleucine catalyzed by isoleucyl-tRNA synthetase from yeast have been investigated in three sets of experiments under different assay conditions. The overall discrimination factor was first determined by isoleucylation of tRNAVal/tRNAIle mixtures. In the second set of experiments, the number of AMP molecules formed per Ile-tRNA in the cognate and noncognate reactions was measured. The higher AMP formation in the noncognate aminoacylation is assigned to a proofreading reaction step. The calculated proofreading factors and an estimated initial discrimination factor yield overall discriminations that are consistent with those obtained from the first set of experiments. In the third series of studies, the orders of substrate addition and product release of cognate and noncognate isoleucylation reactions were investigated by initial rate kinetic methods. From kcat and Km values, the overall discrimination factors were calculated and showed again a good coincidence with those observed in the preceding sets of experiments. Besides under standard assay conditions, aminoacylation reactions were studied in the presence of pyrophosphatase or elongation factor Tu-GTP complex, under addition of both these proteins, in presence of these two additional proteins and spermine at high and low magnesium concentrations, and under special conditions that favor misacylations. Furthermore, isoleucylation of tRNAIle was tested at increased and decreased pH in the standard enzyme assay. Variation of the assay conditions results in changing discrimination factors, which differ by a factor of about 10. Substitution of tRNAIle by tRNAVal in the isoleucylation reaction causes changes in substrate addition and product release orders and thus of the whole catalytic cycle. For aminoacylation of tRNAIle, four different orders of substrate addition and product release appear: the sequential ordered ter-ter, the rapid equilibrium sequential random ter-ter, the random bi-uni uni-bi ping-pong, and a bi-bi uni-uni ping-pong mechanism with a rapid equilibrium segment. tRNAVal is aminoacylated in rapid equilibrium random ter-ter order, in a bi-bi uni-uni ping-pong mechanism with a rapid equilibrium segment, and in two bi-uni uni-bi ping-pong mechanisms. It is assumed that the different assay conditions can be regarded as a stepwise approximation to physiological conditions and that considerable changes in error rates may be also possible in vivo up to 1 order of magnitude.

The relevance of growth control (chalones) to the aging process

A large amount of data suggests that a wide variety of cells and tissues contain cell-specific endogenous inhibitors of mitosis which are non species-specific. Increasingly, it appears that these chalone inhibitors are actually relatively small polypeptides capable of complexing with large molecular weight anionic molecules. The purification and chamical characterization of these inhibitors has been rendered extraordinarily difficult and the results have been very slow in forthcoming because of this ability to form complexes with anionic polyelectrolytes. Our recent understanding of this behavior should markedly accelerate our understanding and knowledge of chalone biochemistry in the future. If, in fact, chalones are ubiquitously important to the control of cell proliferation, then they will be important to our understanding of the development of post-mitotic cells and to our concepts of programmed senescence; both in turn might be important to our knowledge of the aging process.

Genetic recombination in mammalian somatic cells: a brief note

Crossing over in somatic cells is a likely source of genotypic modification observed in ageing and in carcinogenesis. The possible evolutionary significance of this mechanism is discussed.

Senescence: a stochastic molecular control theory

A theoretical model of transcriptional control, in a preliminary form, is presented. The model has a critical boundary between a region of values in which the system is stable and essentially self-perpetuating and a region in which the essential macromolecules tend to disappear and not to be regenerated. The possibility of the transition results from cell division. Variation in the values of kinetic parameters or fluctuation in the partition of the macromolecules between the daughter cells of a division subject some cells in the population to the instability. Cells on the wrong side of the critical boundary may accumulate in G2, and will eventually die, at rates and frequencies depending on the specific peculiarities of various cell types (e.g., tissues). Such phenomena, in association with the characteristic division patterns predicted by the theory, have been observed in vitro and in vivo. "Programmed death" in morphogenesis may be an instance. Problems in the future development of the theory are outlined. The significance of clonal selection for atherogenesis and perhaps oncogenesis is noted. The theory is briefly contrasted with "damage" and "error" theories; and the eventual possibility of constructive intervention in ageing at the molecular level is suggested.

Inhibition of cell proliferation in the livers of hepatectomized rats by a rabbit hepatic chalone

A purified chalone isolated from rabbit liver was tested in vitro on regenerating rat liver slices incubated with tritiated thymidine to determine more precisely the phase of the normal cell cycle that was blocked by that substance. Biochemical and radioautographic studies showed that the inhibition of tritiated thymidine incorporation during chromosomal DNA replication resulted chiefly from a block in the G(1)-S transition in the normal cell cycle. Under these conditions the chalone had little inhibitory effect on hepatocytes that were in the S phase of the cell cycle. The inhibitory effects of the liver chalone appeared to be specific for hepatocytes and no significant inhibition of cell division was observed when that compound was tested against intestinal villi or tongue epithelial cells of the rat. When, on the other hand, the purified chalone was injected into rats following partial hepatectomy, not only was an inhibition observed during the G(1)-S transition but an increase in the ratio of metaphases to anaphases was found, suggesting that a block also occurs at metaphase as a result of the action of the purified liver chalone used in this study. The injection of a crude supernatant fluid obtained from rabbit liver homogenates into partially hepatectomized rats resulted not only in a more pronounced block at the G(1)-S transition than was observed when the purified chalone was used, but the supernatant liquid also affected significantly DNA synthesis during the S phase of the cell cycle. These inhibitory effects were observed not only in hepatocytes but in intestinal epithelium and tongue epithelial cells of the rat as well. The rabbit liver supernatant fluid thus appears to contain, in addition to the liver chalone, one or more nonspecific inhibitors of DNA synthesis.

Nuclear DNA content and minimum generation time in herbaceous plants

Many components of cell and nuclear size and mass are correlated with nuclear DNA content in plants, as also are the durations and rates of such developmental processes as mitosis and meiosis. It is suggested that the multiple effects of the mass of nuclear DNA which affect all cells and apply throughout the life of the plant can together determine the minimum generation time for each species. The durations of mitosis and of meiosis are both positively correlated with nuclear DNA content and, therefore, species with a short minimum generation time might be expected to have a shorter mean cell cycle time and mean meiotic duration, and a lower mean nuclear DNA content, than species with a long mean minimum generation time. In tests of this hypothesis, using data collated from the literature, it is shown that the mean cell cycle time and the mean meiotic duration in annual species is significantly shorter than in perennial species. Furthermore, the mean nuclear DNA content of annual species is significantly lower than for perennial species both in dicotyledons and monocotyledons. Ephemeral species have a significantly lower mean nuclear DNA content than annual species. Among perennial monocotyledons the mean nuclear DNA content of species which can complete a life cycle within one year (facultative perennials) is significantly lower than the mean nuclear DNA content of those which cannot (obligate perennials). However, the mean nuclear DNA content of facultative perennials does not differ significantly from the mean for annual species. It is suggested that the effects of nuclear DNA content on the duration of developmental processes are most obvious during its determinant stages, and that the largest effects of nuclear DNA mass are expressed at times when development is slowest, for instance, during meiosis or at low temperature. It has been suggested that DNA influences development in two ways, directly through its informational content, and indirectly by the physical-mechanical effects of its mass. The term 'nucleotype' is used to describe those conditions of the nucleus which effect the phenotype independently of the informational content of the DNA. It is suggested that cell cycle time, meiotic duration, and minimum generation time are determined by the nucleotype. In addition, it may be that satellite DNA is significant in its nucleotypic effects on developmental processes.