The nationwide experiment will initially include around 100,000 volunteers.
Not one to shy away from controversy, Bruce Ames has pitted himself against industry groups, environmentalists, and his peers through his work identifying DNA mutagens. And he’s not done yet.
June 1, 2014|
© PAUL SIMCOCK PHOTOGRAPHYOn an otherwise ordinary day in 1964, Bruce Ames picked up a box of potato chips and read the list of ingredients. A biochemist at the National Institutes of Health (NIH) in Bethesda, Maryland, Ames spent his days studying mutations in strains of Salmonella, so it wasn’t unusual that he began to wonder if any of the preservatives or chemicals on that long list of ingredients might mutate DNA. Ames decided to use his Salmonella to try to detect genetic damage caused by chemicals. “I figured the world needed some quick, easy test to detect mutagens,” says Ames.
Ames had hundreds of strains of S. typhimurium with mutations in the genes required to produce histidine, a standard amino acid for making proteins. These strains could not grow without the addition of histidine. When millions of bacteria were placed in media lacking the amino acid, however, a few would spontaneously mutate, produce histidine again, and survive as a colony. Ames figured if he added a chemical, such as a potato-chip preservative, to the Salmonella strains, and the chemical increased the number of surviving colonies, it was a mutagen.
“Nutrition is a muddy field, but I like getting into muddy fields.”
Ames began tinkering with the test as a hobby. Then, in 1967, when he moved to the University of California, Berkeley, he got some undergraduates to help him develop the assay further. They added rat liver homogenate to the Salmonella as an approximation of mammalian metabolism, which activates many chemicals whose mutagenic action couldn’t be detected by the bacteria alone, and the “Ames test” was born—a simple, inexpensive method for detecting DNA mutagens. Ames immediately put the assay to work: he tested 174 suspected cancer-causing chemicals for the ability to mutate DNA, using a range of concentrations up to the level toxic to the bacteria—and a whopping 90 percent of them were mutagens. It was some of the first evidence that carcinogens mutate DNA.
“Like a lot of hobbies, it slowly took over my life,” says Ames. Over the years, he grew and gave away thousands of samples of the bacteria to other laboratories, and today the Ames test is still used in academic and industrial laboratories worldwide.
His work on mutagens subsequently drew Ames’s interest to cancer prevention, then age-related diseases, then nutrition. A recipient of the National Medal of Science from President Bill Clinton, Ames has published more than 550 papers and is one of the most-cited scientists across all fields.
Here, Ames takes us on a whirlwind tour of his career, from studies of hair dye and children’s pajamas to the defense of pesticide use and vitamins.
Middling around. Ames attended the Bronx High School of Science in New York City, and then went straight to Cornell University after graduation. “I was never a top student. I was always marching to my own drummer. I’d get interested in Tolstoy and read all his books, then get interested in folk dancing and do a lot of folk dancing, and so on.”
Molding students. In 1950, the California Institute of Technology accepted Ames into its PhD program—“despite my less than stellar grades,” he admits—where he joined the lab of Herschel Mitchell. Under Mitchell’s mentorship, Ames studied the biochemical genetics of mutant strains of the bread mold Neurospora that couldn’t produce histidine. “No one knew much about the pathway, and Mitchell really encouraged students to just go off on their own, so I worked on it using mutants to figure out the pathway and got my PhD in three years. It gave me confidence in my creativity, even if I was incorrigibly distractible.”
Salmonella switch. Ames then did a postdoc at the NIH and stayed on, first as an independent investigator and later section chief, for 14 years. “I continued in biochemical genetics. Phil Hartman at Johns Hopkins was pioneering bacterial genetics in Salmonella, and he started isolating histidine-requiring mutants. I soon realized that was an easier system to work on, so I switched to Salmonella.” In this species, Ames's group found that the histidine genes existed in a cluster, later known as the histidine operon, and were controlled as a group by a regulatory sequence producing a single RNA. It was one of the earliest studies documenting how genes are turned on and off.
To dye for. In 1973, after moving to Berkeley, he published details of the Ames test and put it to use straightaway. “I used to teach an undergraduate lab at Berkeley, and I told my students to go bring something in to test. And you know students, what do they test but marijuana and birth control pills and things like that? But one day a student brought in his girlfriend’s hair dye, and it was screamingly mutagenic. So I sent one of my technicians out to the drug store to buy $100 worth of hair dyes. All the permanent hair dyes were mutagenic because they contained aromatic amines, which are often carcinogens. We published a paper on it, and I sent a copy to all the hair-dye companies in the world and said, ‘You guys need to start thinking about this.’ They eventually developed hair dyes that aren’t mutagenic.”
Cataloging cancer. Ames’s team subsequently showed that cigarette smoke was mutagenic, as was the main flame retardant used in children’s pajamas, a chemical called tris-BP. “I didn’t want to put my kids in these pajamas, so we bought their pajamas in Europe when we were there,” he says. Around the same time, Ames became interested in animal cancer tests. “I wanted to look at the relationship between mutagens and carcinogens in animal tests. No one had ever systematized that.” Ames applied for a federal grant to create a database of the potency of rodent carcinogens, but was turned down flat. “They said I didn’t know any pathology or statistics and I wasn’t the right person to do it. But we wanted to do it, and no one else was doing it, so we did it.”
Big dose of controversy. Using that database, the still-active Carcinogenic Potency Database, Ames and his collaborator Lois Gold “got into a number of controversies,” he says. “Half of the chemicals tested, whether natural or synthetic, in the standard assay at the maximum tolerated dose were carcinogens. That made us suspicious; something was fishy.” They argued that the huge dose, not the chemical formulation itself, was responsible for inflammation, cell death, and cell proliferation. Their conclusions—that animal cancer tests do not provide a good assessment of low-dose cancer risk—“got all the scientists that had spent their lives doing these [animal cancer] tests angry at us,” says Ames.
Rankling ranking. In 1987, Ames and Gold ranked natural and synthetic pesticides and found that cancer risks from traces of pesticide residues on fruits and vegetables are minuscule compared with the cancer-causing potential of some natural chemicals in plants. “We wrote a review pointing out that every plant has a hundred or so toxic chemicals—nature’s pesticides—to kill off insects, animals, and other predators, and that we were getting 10,000 times more of them than [of] man-made pesticides. Still, everybody is buying expensive organic food,” says Ames. “It’s the new religion. We won the scientific battle but we lost the public-relations battle.” For that work and more, arguing that traces of synthetic chemicals are not a cancer risk, Ames and Gold have been criticized as being in the pocket of the pesticide industry, despite never accepting money, consulting with industry companies, or testifying in trials.
Big break. In 1989, cytogeneticist Jim MacGregor spent a sabbatical year in Ames’s lab at Berkeley. “Before he came to the lab, he was looking at radiation breaking chromosomes in precursors of mouse red blood cells, and one day all his control mice were full of chromosome breaks. It turned out the company that sold him the vitamin mix for the mice had left out folic acid, and a lack of folic acid breaks chromosomes just like radiation does. MacGregor started looking in people, and he found a guy who had 20 times the level of chromosome breaks as everyone else. The guy ate a pretty poor diet without a lot of veggies, so he was folic-acid deficient.” Ames was already familiar with folic acid: Herschel Mitchell, Ames’s graduate mentor, discovered folic acid by isolating it from four tons of spinach. “Around 10 percent of the US population and half the poor were folic-acid deficient, so I said, ‘I’m getting into this area.’ Nutrition is a muddy field, but I like getting into muddy fields.” A few years later, Ames and his team determined that folate deficiency results in the massive incorporation of uracil, an RNA chemical base, into DNA, leading to chromosome breaks after excision by a repair enzyme.
Damaging diet. “From there, I became interested in all the essential vitamins and minerals. There are about 30 of them, and according to recommended dietary allowances from the USDA, almost everyone in the population is low in one or more. So I started looking to see if you get DNA damage from a vitamin or mineral deficiency.” Beginning at Berkeley and continuing at Children’s Hospital Oakland Research Institute (CHORI), which Ames joined in 2000, he and his lab found many examples of this phenomenon: iron deficiency causes neuron decay and mitochondrial DNA damage, for example, and zinc deficiency damages DNA and disables tumor suppressor p53. But Ames still didn’t know how such deficiencies could directly damage DNA.
Winners and losers. “Then one day I had this epiphany: When you run out of a vitamin or mineral, which happened all the time throughout evolution, maybe nature rations what it has.” In 2006, Ames proposed the triage theory—that natural selection has developed a rationing response to shortages of micronutrients (vitamins and minerals). When cells run out of a vitamin or mineral, that scarce micronutrient is allotted to proteins essential for short-term survival. Proteins needed for long-term health, including those that protect DNA, lose out and become disabled. With Joyce McCann at CHORI, Ames has demonstrated this rationing is present in cells short on vitamin K and selenium: essential proteins incorporate the micronutrients, and nonessential proteins are disabled or lost. “This suggests you’re paying a price any time you get a little low on any vitamin or mineral,” says Ames.
Nutrients for all. In an effort to apply his nutrition discoveries to cancer prevention, Ames helped develop a micronutrient-dense, low-calorie fruit bar, called the CHORI-bar. “The local USDA was making a bar out of excess California fruit, and we said, ‘Hey, can you add some vitamins to that bar?’ They said sure, and now we’ve been collaborating for about 10 years. It tasted terrible when we first made it, but it’s quite tasty now.” And consumption of the bar is showing an association with indicators of good health. In a two-week clinical trial involving 25 individuals, the addition of two CHORI-bars per day to a typical American diet, with no other dietary interventions, raised levels of high-density lipoprotein and improved antioxidant defense.
Hormonal reaction. Ames’s latest work involves nutrient deficiency and brain dysfunction. “It turns out vitamin D is converted into a hormone that controls 900 genes, many in the brain. I have a wonderful new postdoc, Rhonda Patrick, an energetic scholar, who started looking into autism and vitamin D.” It was previously known that individuals with autism often have low levels of vitamin D in the blood, as well as low serotonin, a hormone critical for social behavior, in the brain. Earlier this year, Patrick found a mechanism linking the two: vitamin D hormone activates the enzyme that converts tryptophan to serotonin in the brain. “This is relevant not only to autism but to antisocial behavior and all kinds of psychiatric disease,” says Ames. “The four papers Rhonda is churning out are as important as any that have ever come out of my lab.”
The cost of innovation. “American science is really in trouble. Entitlements are eating up the entire federal budget. It’s the worst I’ve seen in all my 60 years in science. If you’re innovative, it’s the kiss of death. I’ve been doing most of my innovative work through private charity and [out of] my own pocket.”
iVitamins. “I think the future of avoiding the degenerative diseases of aging is not drugs but getting your metabolism and nutrition tuned up. In the future, you will put your finger in a machine and have all the marker proteins in blood analyzed from a finger prick. The machine will say, ‘You’re low on magnesium’ and send a message to your iPhone that you should eat a big plate of spinach or kale every once in a while. Everybody knows their cholesterol number, but in the future they’ll know their magnesium number, vitamin D number, and more.”
Practice what you preach. “I have an Italian wife, so I get a wonderful Mediterranean diet: lots of fish, vegetables, and fruit for dessert. My wife keeps nagging me to get more exercise, but I told her that when I feel like exercise, I run my experiments, I skip my controls, and I jump to conclusions. After I told that joke about 50 times, she said, ‘I’ve heard enough of that damn joke. I’m getting you a personal trainer.’”
Die laughing. “I’m 85, so I don’t know how many more years I have left, as my mitochondria are decaying ever more rapidly. However, I’ve finally figured out what they’re decaying into—hypochondria. But seriously, my five-year plan is to live to 90. My wife says I should have a 10-year plan instead.”
June 11, 2014
So does this mean that taking more vitamins than thought necessary (thought not absurdly more, just enough to make sure that you get enough of everything) is justified? It can be an expensive hobby and I've always been uncertain of the benefits, though I do it anyway.
June 11, 2014
This is the most enjoyable article I've read in the Scientist. Bruce Ames is my kinda guy. Perhaps the anti-GMO group who always complain that they need to know what's in the (organic) food they eat would be interested in knowing the facts: hundreds of mutagens!
June 11, 2014
Re: If you’re innovative, it’s the kiss of death. I’ve been doing most of my innovative work through private charity and [out of] my own pocket.”
So have I --with the exception of some funds from Pheromones.com
In any case, Nutrient-dependent/pheromone-controlled adaptive evolution: a model led to an invited review of nutritional epigenetics that linked atoms to ecosystems. The invited review was rejected because no one would review it. I think it was too innovative in its refutation of neo-Darwinian mutation-initiated natural selection and the evolution of biodiversity.
I focused on Darwin's 'conditions of life' and linked nutrient uptake to pheromone-controlled reproduction via conserved molecular mechanisms that enable amino acid substitutions in species from microbes to man. The links from the epigenetic landscape to the physical landscape of DNA in the organized genomes of all species are as clear as they are in Patrick and Ames (2014) Vitamin D hormone regulates serotonin synthesis. Part 1: relevance for autism, which was reported as New research indicates causal link between vitamin D, serotonin synthesis and autism.
Simply put, you don't arrive at socio-cognitive niche construction without ecological, social, and neurogenic niche construction, which explains activation of serotonin, oxytocin, and vasopressin by vitamin D. If those three brain hormones that affect social behavior were not nutritionally activated, there could be no such thing as nutrient-dependent hormone-organized and hormone-activated behaviors like those we detailed in the context of cell type differentiation in From Fertilization to Adult Sexual Behavior.
Unfortunately, even after extension of our model to invertebrates and the life cycle transitions of the honeybee, I may not get to publish another article -- like Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems, which refutes the population geneticist's ideas about mutations, natural selection and the evolution of biodiversity. They would rather have people continue to believe that some mutations must be beneficial, although no experimental evidence ever suggested that perturbed protein folding created new functional proteins that were manifested in the morphological and behavioral phenotypes of any species.
Hemoglobin S, for example, involves a vitamin D-dependent amino acid substitution that stabilizes the organized genome in human populations where endemic malaria could otherwise have limited their adaptive radiation.
July 4, 2014
Bruce, I am your age and would like to know if you have had any experience with
cycloastragenol, and seperately, PQQ, for longevity? Thank you!
July 5, 2014
Great article! But the fact that some pesticides don't cause cancer with the Ames test is not enough to say they are good! They still cause allergies and other diseases (Agent Organge anyone?). But much worse, they reduce biodiversity and are also leding to social problems by economic monopoly by few companies such as Monsanto and Dow Chemical....