Do you want to live forever?

What controls the aging process? Is there a genetic component? Or is it strictly entropy: trapped as we are in the vector of inevitable decline as we stumble towards equilibrium. Probably, like the answer to just about everything else, it is neither one nor the other, but an inextricable mix of the two. This is my stock answer at cocktail parties when asked the Inevitable Question (IQ): is it nature or is it nurture? My answer always emerges like some mealy-mouthed prevarication, symptomatic of a failure to take sides.

But it’s true. Aging is an inextricable mix of genetics and environment. There is a genetic component. Many of us know families in which longevity appears to be inherited, like a hot temper, or a hitchhiker’s thumb. And nature abounds with closely related species with vastly different lifespans. Maybe what we think of as aging is in fact a complex mechanism that controls the distribution of metabolic resources, yielding a variety of life strategies in response to environmental conditions, a genetic mechanism exposed to the sieve of natural selection. A trait, in other words, that can evolve, or more importantly to us, be manipulated.

Aging has experienced something of a renaissance in research these days. I’m about to dump a whole pile of aging data (pun intended) so here is a preamble, for context. Remember – PMID references are obtainable by simply plugging the number into your browser of choice. Mostly, you’ll get at least the abstract. Sometimes, a link to the article as well (depends on the paywall and the funding source). Also another reminder: you may note apparent inconsistencies in gene/protein nomenclature. I try to stick to the accepted nomenclature for different model organisms – it’s a bit confusing. Typically the gene is indicated in italics, and the protein in non-italic text. Sometimes, the protein is capitalized, sometimes not. Go figure.

Radical free radicals

The mitochondrial electron transport chain

The mitochondrial electron transport chain and its role in oxidative phosphorylation, or, how we get ATP by passing the electrons stripped from glucose to oxygen.

Let’s start in the 1950’s, with the proposal that the accumulation of free radicals in cells promotes the aging process (Denham Harman – PMID: 13332224). Remember free radicals? Odd numbers of valence electrons, often resulting from interactions with oxygen. They are highly reactive, and can and do wreak havoc on cellular structures. Cellular respiration is rife with opportunities for the generation of free radicals, and like everything else, mitochondria are not immune to entropy. Consider the last step in the electron transport chain, where cytochrome oxidase (in complex IV) has to carefully reduce oxygen to water, adding one electron at a time to the second most electronegative atom in the universe. Like trying to feed a starving tiger, and if this step malfunctions, the consequences are predictable. Harman’s proposal also included a nod to the potential beneficial effects of reducing compounds (antioxidants). Not sure he got any financial benefit from the massive nutritional supplement market that has since exploded. Or what I like to call the Very Expensive Urine Section of the pharmacy (most of the supplements on offer won’t be metabolized in the form in which they are sold. Imagine my surprise when I learned this is not news. )

Crazy diets and caloric restriction

Leap ahead here, from 1950’s big puffy skirts and road yachts to 1980’s – big puffy hair File Jul 06, 12 28 20 AMand shoulderpads – with a substantial study that investigated the effects of reducing caloric intake in mice. Caloric restriction in aid of lifespan extension is an example of hormesis – a term typically used in toxicology to refer to the potential beneficial effects from low doses of a toxin, but in aging, a reference to the application of some environmental stress that actually improves life and health span. Hormesis in non-scientific circles is rife with quackery – low oxygen chambers, any number of peculiar starvation diets etc. But there is a mechanistic truth underlying the morass of snake oil somewhere, and the 1982 Weindruch study (PMID: 7063854) was among the first to examine this phenomenon in a controlled environment.  (OK, the first published study was quite a bit further back in time – published right in the midst of the great depression PMID: 2520283). Weindruch’s group saw a 10-20% increase in mean and maximal lifespan (when compared with controls) in mice fed a diet that promoted “undernutrition without malnutrition.” There also appeared to be inhibition of some kinds of cancer as well. In sum, caloric restriction has been solidly and repeatedly demonstrated as a non-genetic intervention that can extend lifespan, increase resistance to oxidative stress, increase insulin sensitivity and efficiency of glucose metabolism, decrease cholesterol levels, decrease oxygen consumption, lower body temperature and delay the onset of age-related diseases. (PMID: 8658196; PMID: 15619470). Needless to say, finding a molecular genetic explanation for this panacea is tantamount to finding the Holy Grail. A side note: there has been some terminological ping-ponging between caloric restriction and dietary restriction: mostly due to the observation that the age-related effects of food intake is not restricted to calories, but to amino acids as well (particularly methionine PMID: 26663138). I am sticking with caloric restriction for historical reasons – but do be aware that the term is very broadly applied.

Teloscoping telomeres

Still in the 1980’s, and Elizabeth Blackburn and her colleagues have discovered telomerase in the protozoan Tetrahymena (but very quickly found to be pretty much universal). Telomerase is an enzyme that maintains the ends of linear chromosomes (PMID: 3907856). Why is this important? Because the structure of DNA as an antiparallel double helix requires a very complex replication mechanism, where one strand can be copied seamlessly (the leading strand), but the other has to employ a messy leap-frogging kind of process (the lagging strand – the discovery of which is an entirely different and also very interesting story. Also the single most challenging lecture to teach in my intro courses. Second only to photosynthesis). The upshot is that on both sides of a linear chromosome, synthesis of the lagging strand cannot be completed, which means overhanging flapping single stranded DNA on both ends of the newly replicated DNA molecule that nucleases by default chew back (single stranded DNA in a cell is usually symptomatic of Something Bad – perhaps an invading virus, or catastrophic damage). This means that each round of replication will result in shorter and shorter chromosomes, eventually cutting into essential genes that will affect the viability of the organism. And indeed, cellular senescence correlates with shortened telomeres. Telomerase uses an RNA template to add repeats to the ends of chromosomes, thus providing a buffer of additional non-coding sequence that is also folded in interesting ways and complexed with additional proteins – rather like a shoelace protector (an aglet for the crossword enthusiasts among you). But telomerase is not always active – indeed overexpression of telomerase can immortalize cells and make them cancerous, so…good news, bad news, as usual. But shortening telomeres – another mechanistic – molecular – contribution to the aging process (PMID: 9454332; also Blackburn and colleagues were awarded a Nobel for this discovery – more details here).

Insulin signaling: sensing nutrients

The aptly named nematode worm Caenorhabditis elegans
The aptly named nematode worm Caenorhabditis elegans.
Thank you, Wikipedia

OK now we are in the 1990’s, and one of the most striking discoveries came out of Cynthia Kenyon’s lab (PMID: 8247153). She and a phalanx of undergraduate students discovered that a mutation in a gene in the nematode worm C. elegans, that normally plays a role in triggering a kind of larval hibernation (called a dauer state) in fact lengthened adult life and health span dramatically – the worms lived roughly twice as long as their wild type counterparts, and did not show any significant impairment in motility or reproductive ability. The gene is called daf-2 (“dauer-formation -2) and the lifespan extending effect requires another gene called daf-16, and importantly, the involvement of both genes suggested that the genetic machinery controlling the arrested growth exhibited in dauers, could also play a role later in development to modulate lifespan. Also, one aspect of dauer formation involved nutrient-sensing: are times tough? Is there low glucose? Time to hibernate: slow down metabolism, hunker down until things improve.

And since we are in the 1990’s now, cloning and characterizing genes is red meat for publication. What do these genes, daf-2 and daf-16 encode? An insulin receptor, and a transcription factor. So, a cellular receptor and a nuclear regulator of gene expression: scaffolding for a signaling pathway that involves insulin. Really? Worms have insulin? Well, not quite. Insulin, like everything in evolution, is something of a moving target. The pathway is more correctly called the IIS pathway, or the insulin/insulin-like growth factor pathway – the split moniker arising from the fact that invertebrates, like worms and flies, have a single insulin-like receptor (that binds and responds to insulin-like peptides) while vertebrates like us have multiple receptors and regulatory networks that involve, among other things, the peptide hormone insulin.

Insulin signaling is one of those crucial and conserved pathways that permit multicellular organisms to sense and respond to the environment (PMID: 15708981), a nutrient-sensing pathway that mediates the balance between somatic maintenance and the costs of reproduction.  Most of my students think of insulin as a hormone produced by the pancreas in response to elevated levels of blood glucose that occur, say, after a meal. They know that insulin “tells” cells to take up the glucose, where it can enter the glycolytic pathway to begin respiration. If oxygen is present (hopefully) then as we all remember, glucose can be oxidized to carbon dioxide and oxygen gets reduced to water, and the energy from that process is partly used to fuel ATP synthesis. Food = energy, thanks to insulin. This is one, very well known, function of insulin/insulin-like growth factor signaling (IIS). But it is one thread woven in a complex tapestry.  IIS signaling turns out to be a major conduit across multiple animal species, impacting metabolism, growth, reproduction, lifespan, and the ability to respond to environmental stress. Further supporting  the role of this pathway in lifespan comes from well-established long-lived mouse models (Ames, Snell, Little Mice) that exhibit reduced IIS signaling (PMID: 14698816). These mice (as you might surmise from at least one of the names) are smaller than normal. They also have reduced growth hormone signaling, so, likely some cross talk there. Dogs show a similar pattern – PMID: 22903739. Our Best Friend is also


Image from Wikipedia: citation here

an accidentally useful model organism because of the (some would say) ludicrous degree of inbreeding to which Fido and his kin have been subjected. (Don’t worry, the research is usually very benign – DNA taken from simple blood tests, some prophylactics that have been extensively tested elsewhere – check out the Dog Aging Project at University of Washington in Seattle).

There is even a human model supporting this argument: populations harboring mutations in growth hormone who also show reduced IIS signaling, resistance to a range of age-related diseases, and yes, longer life (PMID: 21325617 – a double edged sword – check out the full range of symptoms that describe this disorder, called Laron syndrome).

So while worms (and flies) do not have insulin per se, they do have insulin-like peptides, that bind to an insulin-like receptor (DAF-2) which initiates a pathway that ultimately prevents a transcription factor (DAF-16 – also known as FOXO, which stands for “Forkhead box O” – forkhead is a kind of DNA binding domain) from entering the nucleus. So, increased IIS signaling, less FOXO transcription factor in the nucleus.  What does FOXO regulate? A variety of genes, but they have in common the ability to confer a resistance to a variety of stressors, and support somatic (tissue and genome) homeostasis (PMID: 23325358). All this makes sense of the observation that laboratory animals with extended lifespan due to downregulation of this pathway (which remember, means FOXO/daf-16 can now enter the nucleus and regulate its target stress-busting genes) also often show enhanced resistance to stressors like heat (PMID: 1570898).

And the same resistance to many of the same stressors can be observed in animals subjected to caloric restriction, so is IIS signaling the holy grail mechanistic explanation for the life-extending effects of caloric restriction? Alas, lifespan extension arising from reduced IIS signaling can be separated from the effects of caloric restriction on life span in a number of different model organisms (PMID: 18221413, PMID: 19956092 flies, PMID: 17081160 worms). So, no, IIS signaling cannot be the whole story.

(What happens in plants? As usual, plants form an almost entirely parallel universe, where similar management systems have evolved, but independently. There is no IIS in plants per se, but they face the same challenges we do, and carry out essentially the same metabolic processes (with the notable exception of photosynthesis….until we make a photosynthetic pig). But there is glucose regulation of course…or rather, sucrose, but this is another story….)

Yes Sir, no Sir….maybe Sir

Around the same time the IIS pathway was being excavated in multiple model organisms, a group of researchers led by Leonard Guarante in MIT  found that upregulation of a gene called SIR2 in yeast increased lifespan by ~30% (PMID: 10521401). How on earth do you measure longevity in a single-celled organism like yeast? Two ways: chronological cellular aging, or the length of time a yeast cell can survive without dividing (considered a model for how cells age post mitotically, like our adult somatic (body – not germ) cells), and replicative lifespan, or the number of times a mother cell can continue to divide (reviewed in PMID: 28064165). Replicative and chronological lifespan in yeast is increased by caloric restriction, and calorically restricted yeast cells show increased Sir2 activity (PMID: 11000115).  This effect has been kind of reproduced in other models – of highest interest, in metazoans where aging cells are not mitotic (PMID: 15734680). But there are contradictory results: PMID: 21938067, PMID: 15328540, PMID: 24036492.

Sir2 is a protein deacetylase that requires NAD as a coenzyme. Recall that NAD is also an electron carrier in respiration (check out the electron transport figure above), so, like insulin signaling, a tantalizing link between aging and the regulation of metabolism. Moreover, a hunt for compounds that stimulated Sir2 activity (with a view to marketing prophylactic life span extension) led to the discovery of resveratrol, a polyphenol compound found in grapes and other fruits. Resveratrol lengthened yeast replicative lifespan by a whopping 70% (PMID: 12939617), a finding that probably did wonders for the wine trade, as well as whetting entrepreneurial appetites, resulting in some truly

DNA face cream,

I used to be a singer. Hence the posh pic.

staggering financial investments in a potential fountain of youth. The most hysterical manifestations come from the usual suspects that manufacture anti-aging creams and cosmetics – presumably rubbing Sirtuin-enriched compounds into your skin can lead to that youthful firm plump supple look. I dare not post any images from the commercial websites describing this garbage, but all you have to do is google “sirtuins and skincare” and have a good larf.

Humans have seven versions of Sir2, collectively called Sirtuins, with SIRT1 showing the highest sequence homology to yeast Sir2. Sirt1, 3 and 6 levels are elevated in CR (calorically restricted) animals (PMID: 23661364), but mammals are rather more complex than yeasts – mammals are multicellular, and the Sirtuins all show different patterns of cellular localization and tissue specificity.  So does SIRT1 extend mammalian lifespan when upregulated? Well, SIRT1 knockout mice do not show CR-dependent lifespan extension (PMID: 18590691), which argues for a SIRT1 mediated role in CR. But upregulated SIRT1 in mice did not lengthen lifespan (PMID: 20975665) though it did lengthen health span – meaning age related diseases like cancer and diabetes were held at bay. Turns out that the data are equivocal in other organisms too (PMID: 21938067), revealing more or less what we already knew, that aging is a complex trait, highly sensitive to things like genetic background and experimental conditions, most notably, diet.

So is Sir2 the mechanistic lynch pin explaining the long established effects of caloric restriction of lifespan? Yes, and no. Yes, Sir2, and particularly Sirtuins in mammals, play a confirmed role in stress resistance, metabolic homeostasis, DNA repair, and so on, clearly extending health span. No, Sirtuins are not the whole story.

The mighty TOR


Maoi -massive statues, possibly representing ancestors, built by the early inhabitants of Easter Island – the Rapa Nui. Photo by Aurbina.

By the early 2000’s, it was possible to make a library of yeast mutants, each one defective in a single gene, with an otherwise uniform genetic background. In 2005, Matt Kaeberlein’s lab screened this library for effects on replicative lifespan, and discovered a set of genes that encoded products that functioned in a pathway centered on a protein kinase called TOR, for Target of Rapamycin. What’s rapamycin? A bacterial metabolite isolated from the soil of Easter Island (the inhabitants were called Rapa nui, hence the name). Rapamycin inhibits fungal growth and also arrests cells of the immune system, so functions as a potent immunosuppressive drug (PMID 1700475). And of course, as mentioned, rapamycin also inhibits the eponymous TOR kinase, a highly conserved protein which is truly the control freak’s dream kinase, at the center of multiple pathways that regulate nutrient sensing, growth control, ribosome and mitochondrial function, translation, amino acid uptake and metabolism, autophagy (an intracellular degradation system)…just about everything really. Deletions of genes encoding TOR or other members of the TOR pathway in yeast also extended chronological life span (PMID: 16418483), same for flies (PMID: 15186745) and C. elegans (PMID: 15253933), and reducing TOR expression in mice extends lifespan too (PMID: 23994476). In addition, many studies feeding many different model organisms rapamycin show similar results – extended lifespan (PMID: 16418483 yeast, PMID: 22560223 worms, PMID: 20074526 flies, PMID: 19587680, mouse – importantly lifespan was extended in this mouse study even when the rapamycin was administered to middle-aged mice! Note also, the Dog Project described above includes a Rapamycin trial).

So is TOR signaling the pathway through which caloric restriction acts? If so, then calorically restricting animals that are already long lived due to down regulation of the TOR pathway should not lead to further lifespan extension. This is same rationale I’ve already alluded to in previous paragraphs, linking given pathways to each other. The term describing this interaction in linear or parallel biochemical pathways is called epistasis, from the greek: translated as “stopping” or “standing upon.” If CR and TOR signaling are affecting the same pathway,  blocking both would be the same as blocking one or the other (since they would be affecting the same thing); there would be no additional lifespan extension. If, on the other hand, CR and TOR signaling were in different pathways, then the effects of inhibiting both would likely be additive – a longer lifespan would be in evidence from feeding rapamycin (which inhibits TOR, remember) to calorically restricted animals. So what happens? Drumroll, please. “Rapamycin extended life span beyond the maximum seen with DR  (sic CR) and lessened the reduction in life span with full feeding, suggesting that rapamycin treatment captures some of the mechanisms by which DR extends life span but also acts through additional mechanisms.” (PMID: 20074526). Surprise, surprise.

Are we there yet???

TOR and IIS and SIR cross talk modified from PMID: 20157541

TOR and IIS and SIR cross talk modified from PMID: 20157541

By the mid to late 2000’s, IIS signaling research and TOR signaling research converged to reveal abundant interconnections between these two major pathways – dominated by a set of highly conserved protein kinases. The figure to the left shows a very simplified diagram describing the cross talk between TOR and IIS signaling in a mammalian system – I have put asterisks by the proteins that function in phosphorylation: red for the kinases (adds phosphate groups), blue for the phosphatase (removes them). Note that the TOR kinase functions in two complexes – mTORC1 (this is the nomenclature for the mouse version), which controls the bulk of metabolic responses, and mTORC2, that plays a larger role in cytoskeletal dynamics.  IIS and TOR signaling both extend lifespan when down regulated, both respond to nutrients, growth cues, and both control responses to stress. And Sirtuins make an appearance in this network as well. It’s complicated. And somehow, caloric restriction triggers a particular thread in this complex series of interconnected pathways. The race is on for prophylactic mimics of CR. We want to have our cake, eat it, and yet not get fat, not get sick and die.  And as usual, everything is disruptive in progress. If you have ideas or business plans or promising findings, click here for $$$$:

So the bottom line is organisms are constantly presented with physiological trade-offs between reproduction and somatic maintenance. Increased reproduction depletes resources, diverting them away from reducing oxidative damage, managing heat and chemical stress, keeping the error rate in DNA replication low. Decreased reproduction restores those resources, and metabolic plasticity in the face of these constant adjustments is itself an evolutionary strategy. Genetic manipulations of the IIS or TOR pathways, both involved in nutrient sensing, phenocopy this plasticity, and sometimes can even be uncoupled from reproduction (PMID: 18682271). Aging research is a tough row to hoe – model organisms like worms and flies and even mice are very tractable etc but they aren’t humans. And humans are terrible model organisms, they don’t consent to control matings, they don’t fit well in the vials and cages etc. And longevity studies are by definition longitudinal, or, long. So, for humans, fascinating (and appalling) diseases that cause rapid and premature aging provide windows into the many tissue-specific manifestations of pathways that control aging – as they typically result from hits in genes that control cellular proliferation, DNA repair, telomere function, stem cell biology, among others (PMID: 20651707). Likewise, massively parallel high throughput this and that technology (sorry not my forte and the papers are rather dull but yes, massively important) are also shedding light on the genomes of centenarians that are still going and going like the Energizer Bunny. Take a look at this table, which comes from PMID: 21115529, a study that scanned the genomes of centenarians for single nucleotide polymorphisms (SNPs) that segregate with long life: some of these genes should be familiar.

T1 from PMID

IIS pathway components are there (IGFR, FOXO3A); APOE, the high-risk allele for Alzheimer’s is there, hTERT is the human telomerase enzyme, and MCP…well I don’t really know what that is, but apparently it is involved in lipoprotein assembly (PMID: 12518019) which perhaps ties in with APOE and Alzheimer’s.

All in all, we started with a blurry but complex picture, zeroed in on a few pathways that rapidly proliferated into a gradually more refined, but yes, still very complex picture. Can the Fountain of Youth be within reach?

Paternal age, mental illness, and the perils of statistics



Carpeaux: Ugolino and his sons. 1860-2

So I’ve been thinking about the to-ing and fro-ing concerning the role paternal mutations play in the development of mental disorders. It’s an interesting subject because firstly, it has relieved some of the vaguely sexist genetic blame on older women being responsible for contributing to the chromosomal disorder that results in Down Syndrome (and who knows what else, those selfish older women who insist on trying to have it all), and secondly because studying how mutations move through generations has really become easier with the truly exponential increase in whole genome sequencing facility. So there are  science-hype-publicity crap implications and genuine biological interest that relate to this subject. And I am always looking for new ways to torture my students with interesting genetic conundrums.

Biologically, understanding the role of age in parental mutation contribution depends on understanding how the germ cells, the gametes, eggs and sperm, are formed. In mammals like us, there is a big difference between how this process works in men vs. women. The cells that are destined to become the gametes are set aside in embryogenesis, and for men, spermatogenesis begins at puberty. The cell division that forms gametes is called meiosis, which consists of two stages – in Meiosis I the number of chromosomes is halved, and in Meiosis II, the chromosomes themselves divide to produce four cells, each with half the regular number of chromosomes. These meiotic products then undergo gametogenesis, or germ cell formation. For men, this process is continuous virtually throughout life.

oogen & sperm 02

For women, a limited number of eggs is produced during embryogenesis – a million or so. Those pre-egg cells then proceed to the first stage of Meiosis I, and then arrest. When a girl reaches puberty, Meiosis I is completed, resulting in two daughter cells of which only one survives (the other degrades).  Meiosis II is initiated, and of the two daughter cells from this second part of meiosis, only one cell survives again, and also arrests again unless the egg is fertilized. In men, for every meiotic pre-sperm cell, 4 mature sperm are formed, but for women, for every meiotic pre-egg cell, only one egg ever makes it.  And of course, after menopause, the ovaries the pack up. As for men, who knows when they begin to shoot blanks.

So think about what aging entails. It entails, basically, falling apart. A living organism is a complex biochemical machine, driven by thousands and thousands of interconnected chemical reactions, that slowly slide towards equilibrium, as all things must (in this universe, anyway). There are elaborate molecular machineries associated with the formation of germ cells. For women, errors in the machinery of cell division are most likely to have profound impacts on older conceptions (pregnancies arising in older women). Most commonly of course is Down Syndrome – which can arise by other means, but a failure in the machinery that properly segregates the chromosomes in completing those arrested meioses described earlier leads to the formation of eggs with sometimes missing, sometimes extra chromosomes (this is called aneuploidy). Most gametes that are aneuploid are targeted for destruction, or if fertilization happens, the embryo does not survive. Having extra or missing chromosomes results in an imbalance in the expression of genes that reside on those chromosomes, upsetting the delicate balance of biochemistry that makes a functioning organism. But sometimes the aneuploidy is tolerated, though not without consequence – Down Syndrome arises largely from the offspring receiving an extra chromosome 21.

For a long time this story of Down Syndrome was a warning for women to reproduce early, OR ELSE. Rarely, when I was growing up, did I hear about the problems associated with aging fathers. I’ve always found that rather annoying. But Haldane alluded to this problem in the 1930’s, long before the ideas of DNA and mutagenesis were realized. And yes, men have to worry about entropy in their machinery also. For men, the formation of sperm is continuous, meaning many, many, many millions if not billions of rounds of DNA replication to produce sperm throughout their lives. DNA replication is a remarkable and odd process that is probably one of the most difficult things I have to teach in introductory cell and molecular biology classes, with a fascinating evolutionary history. Our 46 chromosomes add up to over 6 billion base pairs of DNA, which have to be faithfully replicated every time a cell divides. A profound selective pressure for accuracy in this vast process has resulted in the evolution of a magnificent capacity for proof-reading and correcting errors during and after replication. This is the machinery that men have to worry about as they age, contributing to an increasing likelihood of errors accumulating the DNA of their continually produced sperm cells. (For a comprehensive review, see PMID: 11262873)

There have been a lot of studies about this recently. Look here and here for some nice summaries. These reviews refer to an Icelandic study from 2012 (PMID:22914163) and a Swedish study from 2014 (PMID:24577047). A very recent study (PMID: 27213288)  was published by an Australian group (summary here) which appears to contradict the claims made by the earlier studies, or at least, offer an alternative (and to my mind, rather unconvincing) hypothesis.

Full disclaimer: I am not a statistician, not an epidemiologist, not a population geneticist. I am a fruit fly geneticist. If it doesn’t happen in a fly, then I tend not to get it right away. And all these papers are seriously heavy on the statistical front. I found that my eyes ran and my nose bled for some of the more impenetrable parts. Like most statistical analyses and epidemiological surveys, the data tend to be heavy on correlation, and the impenetrable part comes from an attempt to use statistics to control for things that are virtually uncontrollable (socioeconomic stuff, I.Q., psychological propensities, meaning of life, folly of human existence etc). Of the lot, I really only felt I gained some understanding from the Icelandic study, which had a biological dimension that made some sense.

So in the 2012 Icelandic study, 78 parent-offspring groups had their genomes fully sequenced. What’s a genome? Very messy definitions abound: in my class, I define a genome as the information represented in a haploid set of chromosomes. As we are diploid, resulting from the fusion of haploid eggs and sperm, each of our (non egg or sperm) cells possesses two genomes (excepting some weird polyploid tissues – don’t worry about that). As humans, we divide our genomes into 23 chunks called chromosomes and as we get one set of 23 chromosomes from mum and the other from dad, each of those 23 chromosomes are arranged in so-called homologous (maternal and paternal) pairs. Algebraically, humans are 2n=46 (n=23 haploid state in the egg or sperm). Sequencing a full genome, (messy definition, see?) means presumably the diploid content. So the 2012 Icelandic study sequenced 219 complete diploid genomes, representing 78 families consisting of two parents and one or more offspring. 65 of the offspring were diagnosed with Autism Spectrum Disorder (ASD) or Schizophrenia. (More than 2000 additional Icelandic people were sequenced for statistical controls and artefact reduction purposes – all part of a large genome sequencing project in Iceland where the population has remained somewhat isolated and therefore very interesting to geneticists).

The researchers were looking for de novo or new mutations, changes in the DNA sequence that appeared in the offspring but were not present in either parent. So how do the researchers in this Icelandic study know if a mutation originated in the sperm, the egg, or the embryo? For most of these families, technically they don’t know. Previous sequencing studies likewise didn’t know either (example PMID: 22495306) but did notice a strong correlation between paternal age and the appearance of these de novo mutations (many of which occur in brain-expressed genes, considered candidate genetic contributors to ASD). The Icelandic paper however did include data from 5 families in which a third generation was sequenced, and this provided a stronger link to paternal age. The rationale is complex, and highly statistical, as it should be, and requires an understanding of something called a haplotype – which is essentially the DNA sequence context of a mutation. So, we are a very recently evolved species, and our genomes across the planet are very uniform, differing in perhaps 1 for every 1000 nucleotides in sequence. This means, that across a given stretch of DNA sequence, there is virtually no difference in DNA sequence between mum and dad, but the few differences there are provide a way of identifying the sequence context of a given mutation. So if a mutation occurs in the sperm, then it will appear in the fathers haplotype or sequence context, in the progeny. Likewise, if it occurred in the egg, then it will appear in the maternal context in the progeny. But that isn’t sufficient – how would you then distinguish a mutation that occurred in the embryo, that happened to occur on the paternal chromosome (and therefore in the paternal sequence context or haplotype)? Likewise for an embryonic mutation that occurred in the maternal context?

That’s were the third generation comes in. If mutation can occur randomly  in the maternal haplotype or paternal haplotype, then you would expect the offspring to transmit that mutation in the maternal or paternal haplotype with approximately equal frequency to the next generation. But if the mutation occurred more frequently in the sperm from the first generation, then the mutation would segregate (be passed down together) with that paternal context, or haplotype, more frequently than expected. And that is indeed what was observed in the five families in which three generations were sequenced. Here are the data – the five families in which three generations were sequenced so that the paternal vs maternal assignment of de novo mutations could be made:

denovo icelandic

Notice two things. Firstly, even in younger parents, the segregation of de novo mutations is predominantly from the paternal line. Secondly, notice how the ratio of paternal to maternal de novo mutations is dramatically larger in the single family with the oldest parents. This is a very small data set, but it provides some biological support for the correlation linking older fathers with the appearance of ASD/Schizophrenia in their offspring observed in the fully sequenced two generation family groups from this study.  This correlation between paternal age and mental illness in progeny is supported by both epidemiological studies (like PMID:24577047 – essentially analyses of medical records rather than anything molecular or biological), and other sequencing studies (like PMID: 22495306 – studies that did not perform the three generation analysis that permits parental assignment of de novo mutation).

So what are we to conclude? Do these findings support these kinds of headlines:

Father Time: Children with Older Dads at Greater Risk for Mental Illness

More Bad News for Older Dads: Higher Risk of Kids With Mental Illness

Too Old to Be a Dad?

Father’s Age is Linked to Autism and Schizophrenia

Devastating’ health risks older fathers may pass to children

Children with older fathers have lower IQs

….and so on. There probably isn’t any overt social engineering going on here (breed young, have nice nuclear families with 2.3 children and buy a dog called Spot etc) but do these studies, any of them, warrant sound-byte headlines designed to scare the crap out of new parents? All these studies show  (or at least the ones I have attempted to digest) is that the chances of a de novo mutation appearing in offspring increase with paternal age. Just like the chances of chromosomal segregation defects occuring increase with maternal age. But NONE of these studies, nor any others I have found, have identified the genetic basis for Autism Spectrum Disorder or Schizophrenia. (One possible exception, and not initiated by interest in paternal age and disease onset in offspring – read here: (PMID: 26814963)).  Indeed, one study I alluded to earlier from Australia (PMID: 27213288) makes the peculiar argument that de novo mutations in the male germline might not play a significant role at all – rather that men with mental illness of necessity tend to delay fatherhood and then pass on their mental illness genes. (But most of the older fathers I know are simply older because they married a second, or third time, and were wealthy enough to have a second round of kids – and I imagine this is supremely common whereas mental illness is not).

From what I can tell, the more interesting questions relate to  how the machinery of cell division and DNA replication age, and what the genetic basis for complex mental disorders might be. Like as not, the genetic basis will be highly complex – mutations in multiple genes yielding an inherited propensity at best. And don’t forget about the epigenetic dimension that inevitably plays a role in the phenotypic interpretation of genotypes – none of which is amenable to raw DNA sequence analysis. Dissecting the polygenic basis of complex traits is both frustrating and fascinating, and not reducible to socially provocative headlines. Dads, try not to worry. Welcome to Mums’ world.