Redundancy of information content in the genome of mammalian species as a protective mechanism determining aging rate

Ageing: definitions, mechanisms and the magnitude of the problem

All multi-cellular organisms undergo change with time. Conception heralds the onset of growth and development, leading to reproductive competence and propagation of the species. With time, organisms age, leading to death as a final end-point. Whilst our knowledge and definitions of growth and reproduction are firmly established, the concept of ageing remains less well understood. One of the reasons for the lack of a singular definition of ageing is that it can be considered in many different ways, according to social, behavioural, physiological, morphological, cellular and molecular changes. Research has led to a number of theories being proposed that may explain the ageing process. In this chapter, we will review some of these theories and address some of the following fundamental questions: What is ageing? How can ageing be measured? When does ageing begin? When is an organism defined as old?

Effects of dietary restriction and antioxidants on presbyacusis

OBJECTIVES/HYPOTHESIS

The premise of this study is that the membrane hypothesis of aging, also known as the mitochondrial clock theory of aging, is the basis for presbyacusis. Furthermore, it is proposed that treatment with antioxidants or dietary restriction can attenuate age-related hearing loss. Many studies have demonstrated a reduction in blood flow to specific tissues, including the cochlea, with aging. Hypoperfusion leads to the formation of reactive oxygen metabolites (ROM). ROM are highly toxic molecules that directly affect tissues including inner ear structures. In addition, ROM can damage mitochondrial DNA (mtDNA), resulting in the production of specific mtDNA deletions (mtDNA del4977 [human] or mtDNA del4834 [rat]; also known as the common aging deletion]. Previous corroborating data suggest that the common aging deletion mtDNA4834 may be associated not only with aging but also with presbyacusis, thus further strengthening the basis of the current studies. In this study, experiments provide compelling evidence that long-term treatment with compounds that block or scavenge reactive oxygen metabolites attenuate age-related hearing loss and reduce the impact of associated deleterious changes at the molecular level.

STUDY DESIGN

Prospective randomized study.

METHODS

One hundred thirty rats were randomly assigned to one of six groups with appropriate controls. Animals were divided into the following treatment arms: group 1, 30% caloric restriction; group 2, vitamin E oversupplementation; group 3, vitamin C over-supplementation; group 4, melatonin treatment; group 5, lazaroid treatment; and group 6, placebo. In addition, 10 animals were used to determine the appropriate caloric restriction. All subjects underwent baseline and every-3-month testing until their health failed (range, 18-28 mo; average, 25 mo). This testing included auditory sensitivity studies using auditory brainstem response (ABR) testing, as well as tissue analysis for mtDNA deletions using molecular biological techniques. At the conclusion of the study, animals underwent a final ABR test and were tested for mtDNA deletions in brain and inner ear tissues, and the opposite ear was used for histological analysis.

RESULTS

Results indicated that the 30%-caloric-restricted group maintained the most acute auditory sensitivities, the lowest quantity of mtDNA deletions, and the least amount of outer hair cell loss. The antioxidant-treated subjects had improved auditory sensitivities, and a trend for fewer mtDNA deletions was observed compared with the placebo subjects. The placebo subjects had the poorest auditory sensitivity, the most mtDNA deletions, and the greatest degree of outer hair cell loss.

CONCLUSIONS

Intervention designed to reduce reactive oxygen metabolite damage appears to protect against age-related hearing loss specifically and aging in general. This is reflected by an overall reduction in mtDNA deletions. These data also suggest that the common aging deletion appears to be associated with presbyacusis, as demonstrated by an increased frequency of the mtDNA del4834 in the cochleae with the most significant hearing loss. Nutritional and pharmacological strategies may very well provide rational treatment options that would limit the age-associated increase in ROM generation, reduce mtDNA damage, and reduce the degree of hearing loss as the organism advances in age.

Aging and mortality: manifestations of increasing informational entropy of the genome?

Information theory has provided insight to the means by which organisms maintain life against the inevitable influence of the second law of thermodynamics. The low entropy content of genetic information is used to harness the energy that an organism in an open system must utilize to maintain its low entropy and life. Redundancy lowers informational entropy, enhances meaning and promotes complexity. The genome is characterized by large quantities of 'redundant' DNA. Longitudinal Gompertzian analysis has shown that 'the rate of loss of vitality' (from the Strehler-Mildvan modification of the Gompertz model of aging and mortality) has remained constant for general and disease-specific mortality. Applying the concepts of information theory to aging and mortality suggests that 'the rate of loss of vitality' may be synonymous with the rate of degradation of redundant genetic information (or alternatively, the rate of increase in informational entropy of the genome). This interpretation is consistent with the hypothesis that genetic instability of repeated DNA sequences may be fundamentally related to the process of aging. Consequently, there may be no specific aging or 'death' genes per se, but rather aging and mortality are the inevitable natural consequence of increasing informational entropy (decreasing redundancy) contained within the genome.

Biological mechanisms of ageing

In a short review of the theories or proposed biological mechanisms of ageing it is necessary to be very selective in the ideas which are included or rejected. Although many theories of ageing are advanced in the literature a high proportion can be considered to be special cases of a previous hypothesis. No one individual theory satisfactorily explains the biological mechanism of ageing, indeed elements of many theories may be required to understand such a complex phenomena. Such a view has been formally expressed by Wright and Davison who consider that all theories represent too simplistic an approach to the understanding of ageing, a biochemical complexity which can only be resolved using system analysis techniques.

Developmental switches in reiterated genes may reduce the rate of age changes in DNA

The possible role of the redundancy of genetic information in the regulation of the ageing rate has been discussed in several works. However, it was shown recently that the gene reiteration in most cases is represented by families of similar, but not identical genes. Their expression usually related to the different stages of development and when "early" embryonic or fetal genes are active, the "late" or adult genes are repressed. It is known that the DNA repair needs double stranded structure of DNA which is usual for inactive genes. Genes which are being transcribed and active are repressed by unwound, relaxed DNA which is less protected by the DNA repair enzymes. Aging of genetic information in somatic cells can be, therefore, considered as stage specific and alterations of "early" embryonic and fetal genes do not constitute the genetic load which influences the ageing rate of differentiated cells.

Evolution of human longevity: a critical overview

Evolution of longevity of the ungulates, carnivores and primates is reviewed. Special emphasis is focused on recent evolutionary history of longevity along the hominid ancestral-descendant sequence leading to modern man. Maximum life span potential (MLP) or the change in MLP is predicted in extinct species by (1) a phylogenetic analysis of the MLP of present living species and (2) an empirical equation using brain and body weight estimates from fossils. Both of these methods indicate MLP generally increased during mammalian evolution and at an extremely fast rate during the appearance of the hominid species. These results suggest that relatively few genetic alterations were necessary during the recent evolutionary history of man to significantly extend his innate ability to maintain mental and physical health. Much evidence indicates these genetic alterations principally involve regulatory genes, which control a conserved set of structural genes. Evolution of longevity in man could therefore be a result of simple changes in temporal and quantitative expression. Whether these genetic alterations result from mutational changes and/or chromosomal rearrangement cannot yet be evaluated.

Nucleolar changes in senescing WI-38 cells

Changes in the area, dry mass and morphology of nucleoli were studied during in vitro aging of WI-38 cells. Interferometric methods were used for nucleolar dry mass determinations. The results show that there is (1) an increase in the fraction of cells with one large nucleolus per nucleus, 17% at population doubling 27.3 vs. 93% at population doubling 41.2, (2) an increase in mean nucleolar dry mass (583% at the last doubling), and (3) an increase in mean nucleolar area (236% at the last doubling) with in vitro senescence of WI-38 fibroblast cells. A strong correlation (r = 0.92) between nucleolar dry mass and nucleolar area was demonstrated.

Ribosomal RNA gene dosage as a function of tissue and age for mouse and human

The average number of rRNA genes per haploid genome (rRNA gene dosage) of the cells present in liver and brain was determined throughout the lifespan of the inbred C57BL/6J mouse strain and of human. Ribosomal RNA gene dosage was determined using the RNA-excess DNA - RNA hybridization technique. DNA was extracted and purified using a CsCl/chloroform method with a high percent yield (over 90%) to minimize any possible effects of tissue and age-dependent selective loss or gain of rRNA genes. Radioactive rRNA was from the liver of the youngest age group for either mouse or human in all hybridization experiments, with DNA from the different tissues and age groups being the only variable. In the young mouse (35-49 days), the rRNA gene dosage was 36% higher in brain (114 genes), as compared to liver (84 genes). The rRNA gene dosage remained essentially constant as a function of age for mouse brain; but between the age of about 220 to 440 days, it increased in liver, attaining approximately an equal value to that of brain. No significant difference was found in the rRNA gene dosage of brain or liver between different mice of the same age. In contrast to this result, a significant difference was found between human tissues of similar age. The rRNA gene dosage ranged about 2-fold (148-289) between 2 months to 75 years of age. An age-dependent trend, similar to that for mouse liver, was found when the averages of four different age groups totaling 20 individuals were compared. However, this was not statistically significant. No difference in the rRNA gene dosage as a function of sex or tissue was apparent. Several models are discussed to account for these results.

Percent satellite DNA as a function of tissue and age of mice

A selective loss of satellite DNA was found to occur to different extents as a function of tissue and age of mice using several common DNA extraction and purification procedures. This result emphasizes a serious problem that may be encountered in comparative studies of DNA structure and composition if selective loss of specific DNA sequences occurs. We have developed a DNA extraction and purification procedure that is simple and reliable and gives a high percent DNA yield, which substantially reduces the selective loss of heterochromatin DNA sequences. The method features a centrifugation step of a proteolytic digest of chromatin in 2.4 M CsCl. Percent DNA yield of 82-98% are routinely obtained with no apparent loss of satellite DNA sequences from different tissues or ages of mice. Utilizing this method, percent satellite DNA was found to remain essentially constant at 11 +/- 1% for spleen, kidney, and brain tissues obtained from mice of 10-780 days of age. However, for liver, percent satellite DNA remained at about 7-8% from 10 to 300 days of age and then increased to about 12-13% from 300 to 600 days of age. During this latter time interval (300-600 days), an increase of DNA per nucleus of about 3-fold occurred, due to the formation of tetra- and octaploid cell types. A steady loss in the total number of nuclei per gram of liver as a function of age was also found. These two opposing effects resulted in a nearly constant amount of DNA per gram and per organ for liver throughout the lifespan of the mouse.

Evolution of human longevity and the genetic complexity governing aging rate

Genetic complexity of processes governing the aging rate of man was estimated by determining the maximum rate lifespan has evolved along the hominid ancestral-descendant sequence. Maximum lifespan potential was found to have increased approximately 2-fold over the past 3 million years, reaching a maximum rate of increase of 14 years per 100,000 years about 100,000 years ago. It is estimated that about 0.6% of the total functional genes have received substitutions leading to one or more adaptive amino acid changes during this 100,000-year time-period. This suggests that aging is not the result of an expression of a large number of independently acting processes. Instead, primary aging processes appear to exist where only a few genetic changes are necessary to decrease uniformly the aging rate of many different physiological functions.

Alteration in cellular RNAs during the in vitro lifespan of cultured human diploid fibroblasts

An abrupt concommitant increase in total cellular RNA and protein was observed as cultured human diploid fibroblasts entered the senescent phase of their in vitro lifespan. DNA content remained stable from early to final passages. Fractionation of cellular RNAs by polyacrylamide gel electrophoresis demonstrated an increase in both 28S and 18S ribosomal and 4S transfer RNAs in these senescent cells. Separation of poly(A) RNA (mRNA) by oligo(dT)-cellulose chromatography suggests an increase in this group of RNAs. However, the ratios of 28S to 18S rRNAs, tRNA to rRNA, and mRNA to total cellular RNA were not significantly different in cells before and after senescence, indicating that the overall increases in total cellular RNA was not due to an accumulation of a single RNA class.