Researchers have identified new enemies in the war on cancer: ones that are already inside cells and that no one can avoid.
Random mistakes made as stem cells divide are responsible for about two-thirds of the mutations in cancer cells, researchers from Johns Hopkins University report in the March 24 Science. Across all cancer types, environment and lifestyle factors, such as smoking and obesity, contribute 29 percent of cancer mutations, and 5 percent are inherited. That finding challenges the common wisdom that cancer is the product of heredity and the environment. “There’s a third cause and this cause of mutations is a major cause,” says cancer geneticist Bert Vogelstein.
Such random mutations build up over time and help explain why cancer strikes older people more often. Knowing that the enemy will strike from within even when people protect themselves against external threats indicates that early cancer detection and treatment deserve greater attention than they have previously gotten, Vogelstein says.
Vogelstein and biomathematician Cristian Tomasetti proposed in 2015 that random mutations are the reason some organs are more prone to cancer than others. For instance, stem cells are constantly renewing the intestinal lining of the colon, which develops tumors more often than the brain, where cell division is uncommon. That report was controversial because it was interpreted as saying that most cancers are the result of “bad luck.” The analysis didn’t include breast and prostate cancers. Factoring in those common cancers might change the results, some scientists said. And because the researchers looked at only cancer within the United States, critics charged that the finding might not hold up when considering places around the world where different environmental factors, such as infections, affect cancer development.
In the new study, Vogelstein, Tomasetti and Hopkins colleague Lu Li examined data from 69 countries about 17 types of cancer, this time including breast and prostate. Again, the researchers found a strong link between cancer and tissues with lots of dividing stem cells. The team also used DNA data and epidemiological studies to calculate the proportions of mutations in cancer cells caused by heredity or environmental and lifestyle factors. Remaining mutations were attributed to random errors — including typos, insertions or deletions of genes, epigenetic changes (alterations of chemical tags on DNA or proteins that affect gene activity) and gene rearrangements. Such errors unavoidably happen when cells divide. Usually cancer results after a cell accumulates many mutations. Some people will have accumulated a variety of cancer-associated mutations but won’t get cancer until some final insult goads the cell into becoming malignant (SN: 12/26/15, p. 28). For some tumors, all the mutations may be the hit-and-miss result of cell division mistakes. There’s no way to evade those cancers, Vogelstein says. Other malignancies may spring up as a result of different combinations of heritable, environmental and random mutations. Lung cancer and other tumor types that are strongly associated with environmentally caused mutations could be eluded by avoiding the carcinogen, even when most of the mutations that spur cancer growth arise from random mistakes, Tomasetti says.
“They are venturing into new territory,” says Giovanni Parmigiani, a biostatistician at the Harvard T.H. Chan School of Public Health. Tomasetti, Li and Vogelstein are the first to rigorously estimate the contribution of environment, heredity and DNA-copying errors to cancer, he says. “Perhaps the estimates will improve in the future, but theirs seems like a very solid starting point.”
Now that the Hopkins researchers have pointed it out, the relationship between dividing cells and cancer seems obvious, says biological physicist Bartlomiej Waclaw of the University of Edinburgh. “I don’t think that the existence of this correlation is surprising,” he says. “What’s surprising is that it’s not stronger.”
Some tissues develop cancers more or less often than other tissues with a similar number of cell divisions, Waclaw and Martin Nowak of Harvard University pointed out in a commentary on the Hopkins study, published in the same issue of Science. That suggests some organs are better at nipping cancer in the bud. Discovering how those tissues avoid cancer could lead to new ways to prevent tumors elsewhere in the body, Waclaw suggests.
Other researchers say the Hopkins team is guilty of faulty reasoning. “They are assuming that just because tissues which have high stem cell turnover also have high cancer rates, that one is causing the other,” says cancer researcher Anne McTiernan of the Fred Hutchinson Cancer Research Center in Seattle. “In this new paper, they’ve added data from other countries but haven’t gotten away from this biased thinking.”
Tomasetti and colleagues based their calculations on data from Cancer Research UK that suggest that 42 percent of cancers are preventable. Preventable cancers are ones for which people could avoid a risk factor, such as unprotected sun exposure or tanning bed use, or take positive steps to lower cancer risks, such as exercising regularly and eating fruits and vegetables. But those estimates may not be accurate, McTiernan says. “In reality, it’s very difficult to measure environmental exposures, so our estimates of preventability are likely very underestimated.”
To attribute so many cancer mutations to chance seems to negate public health messages, Waclaw says, and some people may find the calculation that 66 percent of cancer-associated mutations are unavoidable disturbing because they spend a lot of time trying to prevent cancer. “It’s important to consider the randomness, or bad luck, that comes with cellular division,” he says.
In fact, Tomasetti and Vogelstein stress that their findings are compatible with cancer-prevention recommendations. Avoiding smoking, tanning beds, obesity and other known carcinogens can prevent the “environmental” mutations that combine with inherited and random mutations to tip cells into cancer. Without those final straws loaded from environmental exposures, tumors may be averted or greatly delayed.
People with cancer may be able to take some comfort from the study, says Elaine Mardis, a cancer genomicist at the Nationwide Children’s Hospital in Columbus, Ohio. “Perhaps the positive message here is that, other than known risk factors, such as smoking, radiation exposure and obesity, there is a component of cancer that is simply a consequence of being human.”
The Martian atmosphere definitely had more gas in the past.
Data from NASA’s MAVEN spacecraft indicate that the Red Planet has lost most of the gas that ever existed in its atmosphere. The results, published in the March 31 Science, are the first to quantify how much gas has been lost with time and offer clues to how Mars went from a warm, wet place to a cold, dry one.
Mars is constantly bombarded by charged particles streaming from the sun. Without a protective magnetic field to deflect this solar wind, the planet loses about 100 grams of its now thin atmosphere every second (SN: 12/12/15, p. 31). To determine how much atmosphere has been lost during the planet’s lifetime, MAVEN principal investigator Bruce Jakosky of the University of Colorado Boulder and colleagues measured and compared the abundances of two isotopes of argon at different altitudes in the Martian atmosphere. Using those measurements and an assumption about the amounts of the isotopes in the planet’s early atmosphere, the team estimates that about two-thirds of all of Mars’ argon gas has been ejected into space. Extrapolating from the argon data, the researchers also determined that the majority of carbon dioxide that the Martian atmosphere ever had also was kicked into space by the solar wind.
A thicker atmosphere filled with carbon dioxide and other greenhouse gases could have insulated early Mars and kept it warm enough for liquid water and possibly life. Losing an extreme amount of gas, as the results suggest, may explain how the planet morphed from lush and wet to barren and icy, the researchers write.
The way babies learn to speak is nothing short of breathtaking. Their brains are learning the differences between sounds, rehearsing mouth movements and mastering vocabulary by putting words into meaningful context. It’s a lot to fit in between naps and diaper changes.
A recent study shows just how durable this early language learning is. Dutch-speaking adults who were adopted from South Korea as preverbal babies held on to latent Korean language skills, researchers report online January 18 in Royal Society Open Science. In the first months of their lives, these people had already laid down the foundation for speaking Korean — a foundation that persisted for decades undetected, only revealing itself later in careful laboratory tests.
Researchers tested how well people could learn to identify and speak tricky Korean sounds. “For Korean listeners, these sounds are easy to distinguish, but for second-language learners they are very difficult to master,” says study coauthor Mirjam Broersma, a psycholinguist of Radboud University in Nijmegen, Netherlands. For instance, a native Dutch speaker would listen to three distinct Korean sounds and hear only the same “t” sound.
Broersma and her colleagues compared the language-absorbing skills of a group of 29 native Dutch speakers to 29 South Korea-born Dutch speakers. Half of the adoptees moved to the Netherlands when they were older than 17 months — ages at which the kids had probably begun talking. The other half were adopted as preverbal babies younger than 6 months. As a group, the South Korea-born adults outperformed the native-born Dutch adults, more easily learning both to recognize and speak the Korean sounds.
This advantage held when the researchers looked at only adults who had been adopted before turning 6 months old. “Even those who were only 3 to 5 months old at the time of adoption already knew a lot about the sounds of their birth language, enough even to help them relearn those sounds decades later,” Broersma says.
Uncovering this latent skill decades after it had been imprinted in babies younger than 6 months was thrilling, Broersma says. Many researchers had assumed that infants start to learn the sounds of their first language later, around 6 to 8 months after birth. “Our results show that that assumption must have been wrong,” she says.
It’s possible that some of these language skills were acquired during pregnancy, as other studies have hinted. Because the current study didn’t include babies who were adopted immediately after birth, the results can’t say whether language heard during gestation would have had an influence on later language skills. Still, the results suggest that babies start picking up language as soon as they possibly can.
Computers don’t have eyes, but they could revolutionize the way scientists visualize cells.
Researchers at the Allen Institute for Cell Science in Seattle have devised 3-D representations of cells, compiled by computers learning where thousands of real cells tuck their component parts.
Most drawings of cells in textbooks come from human interpretations gleaned by looking at just a few dead cells at a time. The new Allen Cell Explorer, which premiered online April 5, presents 3-D images of genetically identical stem cells grown in lab dishes (composite, above), revealing a huge variety of structural differences. Each cell comes from a skin cell that was reprogrammed into a stem cell. Important proteins were tagged with fluorescent molecules so researchers could keep tabs on the cell membrane, DNA-containing nucleus, energy-generating mitochondria, microtubules and other cell parts. Using the 3-D images, computer programs learned where the cellular parts are in relation to each other. From those rules, the programs can generate predictive transparent models of a cell’s structure (below). The new views, which can capture cells at different time points, may offer clues into their inner workings. The project’s tools are available for other researchers to use on various types of cells. Insights gained from the explorations might lead to a better understanding of human development, cancer, health and diseases.
Researchers have already learned from the project that stem cells aren’t the shapeless blobs they might appear to be, says Susanne Rafelski, a quantitative cell biologist at the Allen Institute. Instead, the stem cells have a definite bottom and top, a proposed structure that’s now confirmed by the combined cell data, Rafelski says. A solid foundation of skeleton proteins forms at the bottom. The nucleus is usually found in the cell’s center. Microtubules bundle together into large fibers that tend to radiate from the top of the cell toward the bottom. During cell division, microtubules form structures called bipolar spindles that are necessary to divvy up DNA. One surprise was that the membrane surrounding the nucleus gets ruffled, but never completely disappears, during cell division. Near the top of the cell, above the nucleus, stem cells store tubelike mitochondria much the way plumbing and electrical wires are tucked into ceilings. The tubular mitochondria were notable because some researchers thought that since stem cells don’t require much energy, the organelles might separate into small, individual units.
Old ways of observing cells were like trying to get to know a city by looking at a map, Rafelski says. The cell explorer is more like a documentary of the lives of the citizens.
Nuclear physicist Evangeline Downie hadn’t planned to study one of the thorniest puzzles of the proton.
But when opportunity knocked, Downie couldn’t say no. “It’s the proton,” she exclaims. The mysteries that still swirl around this jewel of the subatomic realm were too tantalizing to resist. The plentiful particles make up much of the visible matter in the universe. “We’re made of them, and we don’t understand them fully,” she says.
Many physicists delving deep into the heart of matter in recent decades have been lured to the more exotic and unfamiliar subatomic particles: mesons, neutrinos and the famous Higgs boson — not the humble proton. But rather than chasing the rarest of the rare, scientists like Downie are painstakingly scrutinizing the proton itself with ever-higher precision. In the process, some of these proton enthusiasts have stumbled upon problems in areas of physics that scientists thought they had figured out.
Surprisingly, some of the particle’s most basic characteristics are not fully pinned down. The latest measurements of its radius disagree with one another by a wide margin, for example, a fact that captivated Downie. Likewise, scientists can’t yet explain the source of the proton’s spin, a basic quantum property. And some physicists have a deep but unconfirmed suspicion that the seemingly eternal particles don’t live forever — protons may decay. Such a decay is predicted by theories that unite disparate forces of nature under one grand umbrella. But decay has not yet been witnessed.
Like the base of a pyramid, the physics of the proton serves as a foundation for much of what scientists know about the behavior of matter. To understand the intricacies of the universe, says Downie, of George Washington University in Washington, D.C., “we have to start with, in a sense, the simplest system.”
Sizing things up For most of the universe’s history, protons have been VIPs — very important particles. They formed just millionths of a second after the Big Bang, once the cosmos cooled enough for the positively charged particles to take shape. But protons didn’t step into the spotlight until about 100 years ago, when Ernest Rutherford bombarded nitrogen with radioactively produced particles, breaking up the nuclei and releasing protons.
A single proton in concert with a single electron makes up hydrogen — the most plentiful element in the universe. One or more protons are present in the nucleus of every atom. Each element has a unique number of protons, signified by an element’s atomic number. In the core of the sun, fusing protons generate heat and light needed for life to flourish. Lone protons are also found as cosmic rays, whizzing through space at breakneck speeds, colliding with Earth’s atmosphere and producing showers of other particles, such as electrons, muons and neutrinos.
In short, protons are everywhere. Even minor tweaks to scientists’ understanding of the minuscule particle, therefore, could have far-reaching implications. So any nagging questions, however small in scale, can get proton researchers riled up.
A disagreement of a few percent in measurements of the proton’s radius has attracted intense interest, for example. Until several years ago, scientists agreed: The proton’s radius was about 0.88 femtometers, or 0.88 millionths of a billionth of a meter — about a trillionth the width of a poppy seed. But that neat picture was upended in the span of a few hours, in May 2010, at the Precision Physics of Simple Atomic Systems conference in Les Houches, France. Two teams of scientists presented new, more precise measurements, unveiling what they thought would be the definitive size of the proton. Instead the figures disagreed by about 4 percent (SN: 7/31/10, p. 7). “We both expected that we would get the same number, so we were both surprised,” says physicist Jan Bernauer of MIT.
By itself, a slight revision of the proton’s radius wouldn’t upend physics. But despite extensive efforts, the groups can’t explain why they get different numbers. As researchers have eliminated simple explanations for the impasse, they’ve begun wondering if the mismatch could be the first hint of a breakdown that could shatter accepted tenets of physics.
The two groups each used different methods to size up the proton. In an experiment at the MAMI particle accelerator in Mainz, Germany, Bernauer and colleagues estimated the proton’s girth by measuring how much electrons’ trajectories were deflected when fired at protons. That test found the expected radius of about 0.88 femtometers (SN Online: 12/17/10).
But a team led by physicist Randolf Pohl of the Max Planck Institute of Quantum Optics in Garching, Germany, used a new, more precise method. The researchers created muonic hydrogen, a proton that is accompanied not by an electron but by a heftier cousin — a muon.
In an experiment at the Paul Scherrer Institute in Villigen, Switzerland, Pohl and collaborators used lasers to bump the muons to higher energy levels. The amount of energy required depends on the size of the proton. Because the more massive muon hugs closer to the proton than electrons do, the energy levels of muonic hydrogen are more sensitive to the proton’s size than ordinary hydrogen, allowing for measurements 10 times as precise as electron-scattering measurements.
Pohl’s results suggested a smaller proton radius, about 0.841 femtometers, a stark difference from the other measurement. Follow-up measurements of muonic deuterium — which has a proton and a neutron in its nucleus — also revealed a smaller than expected size, he and collaborators reported last year in Science. Physicists have racked their brains to explain why the two measurements don’t agree. Experimental error could be to blame, but no one can pinpoint its source. And the theoretical physics used to calculate the radius from the experimental data seems solid.
Now, more outlandish possibilities are being tossed around. An unexpected new particle that interacts with muons but not electrons could explain the difference (SN: 2/23/13, p. 8). That would be revolutionary: Physicists believe that electrons and muons should behave identically in particle interactions. “It’s a very sacred principle in theoretical physics,” says John Negele, a theoretical particle physicist at MIT. “If there’s unambiguous evidence that it’s been broken, that’s really a fundamental discovery.”
But established physics theories die hard. Shaking the foundations of physics, Pohl says, is “what I dream of, but I think that’s not going to happen.” Instead, he suspects, the discrepancy is more likely to be explained through minor tweaks to the experiments or the theory.
The alluring mystery of the proton radius reeled Downie in. During conversations in the lab with some fellow physicists, she learned of an upcoming experiment that could help settle the issue. The experiment’s founders were looking for collaborators, and Downie leaped on the bandwagon. The Muon Proton Scattering Experiment, or MUSE, to take place at the Paul Scherrer Institute beginning in 2018, will scatter both electrons and muons off of protons and compare the results. It offers a way to test whether the two particles behave differently, says Downie, who is now a spokesperson for MUSE.
A host of other experiments are in progress or planning stages. Scientists with the Proton Radius Experiment, or PRad, located at Jefferson Lab in Newport News, Va., hope to improve on Bernauer and colleagues’ electron-scattering measurements. PRad researchers are analyzing their data and should have a new number for the proton radius soon.
But for now, the proton’s identity crisis, at least regarding its size, remains. That poses problems for ultrasensitive tests of one of physicists’ most essential theories. Quantum electrodynamics, or QED, the theory that unites quantum mechanics and Albert Einstein’s special theory of relativity, describes the physics of electromagnetism on small scales. Using this theory, scientists can calculate the properties of quantum systems, such as hydrogen atoms, in exquisite detail — and so far the predictions match reality. But such calculations require some input — including the proton’s radius. Therefore, to subject the theory to even more stringent tests, gauging the proton’s size is a must-do task. Spin doctors Even if scientists eventually sort out the proton’s size snags, there’s much left to understand. Dig deep into the proton’s guts, and the seemingly simple particle becomes a kaleidoscope of complexity. Rattling around inside each proton is a trio of particles called quarks: one negatively charged “down” quark and two positively charged “up” quarks. Neutrons, on the flip side, comprise two down quarks and one up quark.
Yet even the quark-trio picture is too simplistic. In addition to the three quarks that are always present, a chaotic swarm of transient particles churns within the proton. Evanescent throngs of additional quarks and their antimatter partners, antiquarks, continually swirl into existence, then annihilate each other. Gluons, the particle “glue” that holds the proton together, careen between particles. Gluons are the messengers of the strong nuclear force, an interaction that causes quarks to fervently attract one another. As a result of this chaos, the properties of protons — and neutrons as well — are difficult to get a handle on. One property, spin, has taken decades of careful investigation, and it’s still not sorted out. Quantum particles almost seem to be whirling at blistering speed, like the Earth rotating about its axis. This spin produces angular momentum — a quality of a rotating object that, for example, keeps a top revolving until friction slows it. The spin also makes protons behave like tiny magnets, because a rotating electric charge produces a magnetic field. This property is the key to the medical imaging procedure called magnetic resonance imaging, or MRI.
But, like nearly everything quantum, there’s some weirdness mixed in: There’s no actual spinning going on. Because fundamental particles like quarks don’t have a finite physical size — as far as scientists know — they can’t twirl. Despite the lack of spinning, the particles still behave like they have a spin, which can take on only certain values: integer multiples of 1/2.
Quarks have a spin of 1/2, and gluons a spin of 1. These spins combine to help yield the proton’s total spin. In addition, just as the Earth is both spinning about its own axis and orbiting the sun, quarks and gluons may also circle about the proton’s center, producing additional angular momentum that can contribute to the proton’s total spin.
Somehow, the spin and orbital motion of quarks and gluons within the proton combine to produce its spin of 1/2. Originally, physicists expected that the explanation would be simple. The only particles that mattered, they thought, were the proton’s three main quarks, each with a spin of 1/2. If two of those spins were oriented in opposite directions, they could cancel one another out to produce a total spin of 1/2. But experiments beginning in the 1980s showed that “this picture was very far from true,” says theoretical high-energy physicist Juan Rojo of Vrije University Amsterdam. Surprisingly, only a small fraction of the spin seemed to be coming from the quarks, befuddling scientists with what became known as the “spin crisis” (SN: 9/6/97, p. 158). Neutron spin was likewise enigmatic.
Scientists’ next hunch was that gluons contribute to the proton’s spin. “Verifying this hypothesis was very difficult,” Rojo says. It required experimental studies at the Relativistic Heavy Ion Collider, RHIC, a particle accelerator at Brookhaven National Laboratory in Upton, N.Y.
In these experiments, scientists collided protons that were polarized: The two protons’ spins were either aligned or pointed in opposite directions. Researchers counted the products of those collisions and compared the results for aligned and opposing spins. The results revealed how much of the spin comes from gluons. According to an analysis by Rojo and colleagues, published in Nuclear Physics B in 2014, gluons make up about 35 percent of the proton’s spin. Since the quarks make up about 25 percent, that leaves another 40 percent still unaccounted for.
“We have absolutely no idea how the entire spin is made up,” says nuclear physicist Elke-Caroline Aschenauer of Brookhaven. “We maybe have understood a small fraction of it.” That’s because each quark or gluon carries a certain fraction of the proton’s energy, and the lowest energy quarks and gluons cannot be spotted at RHIC. A proposed collider, called the Electron-Ion Collider (location to be determined), could help scientists investigate the neglected territory.
The Electron-Ion Collider could also allow scientists to map the still-unmeasured orbital motion of quarks and gluons, which may contribute to the proton’s spin as well. An unruly force Experimental physicists get little help from theoretical physics when attempting to unravel the proton’s spin and its other perplexities. “The proton is not something you can calculate from first principles,” Aschenauer says. Quantum chromo-dynamics, or QCD — the theory of the quark-corralling strong force transmitted by gluons — is an unruly beast. It is so complex that scientists can’t directly solve the theory’s equations.
The difficulty lies with the behavior of the strong force. As long as quarks and their companions stick relatively close, they are happy and can mill about the proton at will. But absence makes the heart grow fonder: The farther apart the quarks get, the more insistently the strong force pulls them back together, containing them within the proton. This behavior explains why no one has found a single quark in isolation. It also makes the proton’s properties especially difficult to calculate. Without accurate theoretical calculations, scientists can’t predict what the proton’s radius should be, or how the spin should be divvied up. To simplify the math of the proton, physicists use a technique called lattice QCD, in which they imagine that the world is made of a grid of points in space and time (SN: 8/7/04, p. 90). A quark can sit at one point or another in the grid, but not in the spaces in between. Time, likewise, proceeds in jumps. In such a situation, QCD becomes more manageable, though calculations still require powerful supercomputers.
Lattice QCD calculations of the proton’s spin are making progress, but there’s still plenty of uncertainty. In 2015, theoretical particle and nuclear physicist Keh-Fei Liu and colleagues calculated the spin contributions from the gluons, the quarks and the quarks’ angular momentum, reporting the results in Physical Review D. By their calculation, about half of the spin comes from the quarks’ motion within the proton, about a quarter from the quarks’ spin, with the last quarter or so from the gluons. The numbers don’t exactly match the experimental measurements, but that’s understandable — the lattice QCD numbers are still fuzzy. The calculation relies on various approximations, so it “is not cast in stone,” says Liu, of the University of Kentucky in Lexington.
Death of a proton Although protons seem to live forever, scientists have long questioned that immortality. Some popular theories predict that protons decay, disintegrating into other particles over long timescales. Yet despite extensive searches, no hint of this demise has materialized.
A class of ideas known as grand unified theories predict that protons eventually succumb. These theories unite three of the forces of nature, creating a single framework that could explain electromagnetism, the strong nuclear force and the weak nuclear force, which is responsible for certain types of radioactive decay. (Nature’s fourth force, gravity, is not yet incorporated into these models.) Under such unified theories, the three forces reach equal strengths at extremely high energies. Such energetic conditions were present in the early universe — well before protons formed — just a trillionth of a trillionth of a trillionth of a second after the Big Bang. As the cosmos cooled, those forces would have separated into three different facets that scientists now observe. “We have a lot of circumstantial evidence that something like unification must be happening,” says theoretical high-energy physicist Kaladi Babu of Oklahoma State University in Stillwater. Beyond the appeal of uniting the forces, grand unified theories could explain some curious coincidences of physics, such as the fact that the proton’s electric charge precisely balances the electron’s charge. Another bonus is that the particles in grand unified theories fill out a family tree, with quarks becoming the kin of electrons, for example.
Under these theories, a decaying proton would disintegrate into other particles, such as a positron (the antimatter version of an electron) and a particle called a pion, composed of a quark and an antiquark, which itself eventually decays. If such a grand unified theory is correct and protons do decay, the process must be extremely rare — protons must live a very long time, on average, before they break down. If most protons decayed rapidly, atoms wouldn’t stick around long either, and the matter that makes up stars, planets — even human bodies — would be falling apart left and right.
Protons have existed for 13.8 billion years, since just after the Big Bang. So they must live exceedingly long lives, on average. But the particles could perish at even longer timescales. If they do, scientists should be able to monitor many particles at once to see a few protons bite the dust ahead of the curve (SN: 12/15/79, p. 405). But searches for decaying protons have so far come up empty.
Still, the search continues. To hunt for decaying protons, scientists go deep underground, for example, to a mine in Hida, Japan. There, at the Super-Kamiokande experiment (SN: 2/18/17, p. 24), they monitor a giant tank of water — 50,000 metric tons’ worth — waiting for a single proton to wink out of existence. After watching that water tank for nearly two decades, the scientists reported in the Jan. 1 Physical Review D that protons must live longer than 1.6 × 1034 years on average, assuming they decay predominantly into a positron and a pion.
Experimental limits on the proton lifetime “are sort of painting the theorists into a corner,” says Ed Kearns of Boston University, who searches for proton decay with Super-K. If a new theory predicts a proton lifetime shorter than what Super-K has measured, it’s wrong. Physicists must go back to the drawing board until they come up with a theory that agrees with Super-K’s proton-decay drought.
Many grand unified theories that remain standing in the wake of Super-K’s measurements incorporate supersymmetry, the idea that each known particle has another, more massive partner. In such theories, those new particles are additional pieces in the puzzle, fitting into an even larger family tree of interconnected particles. But theories that rely on supersymmetry may be in trouble. “We would have preferred to see supersymmetry at the Large Hadron Collider by now,” Babu says, referring to the particle accelerator located at the European particle physics lab, CERN, in Geneva, which has consistently come up empty in supersymmetry searches since it turned on in 2009 (SN: 10/1/16, p. 12).
But supersymmetric particles could simply be too massive for the LHC to find. And some grand unified theories that don’t require supersymmetry still remain viable. Versions of these theories predict proton lifetimes within reach of an upcoming generation of experiments. Scientists plan to follow up Super-K with Hyper-K, with an even bigger tank of water. And DUNE, the Deep Underground Neutrino Experiment, planned for installation in a former gold mine in Lead, S.D., will use liquid argon to detect protons decaying into particles that the water detectors might miss. If protons do decay, the universe will become frail in its old age. According to Super-K, sometime well after its 1034 birthday, the cosmos will become a barren sea of light. Stars, planets and life will disappear. If seemingly dependable protons give in, it could spell the death of the universe as we know it.
Although protons may eventually become extinct, proton research isn’t going out of style anytime soon. Even if scientists resolve the dilemmas of radius, spin and lifetime, more questions will pile up — it’s part of the labyrinthine task of studying quantum particles that multiply in complexity the closer scientists look. These deeper studies are worthwhile, says Downie. The inscrutable proton is “the most fundamental building block of everything, and until we understand that, we can’t say we understand anything else.”
Every year science offers a diverse menu of anniversaries to celebrate. Births (or deaths) of famous scientists, landmark discoveries or scientific papers — significant events of all sorts qualify for celebratory consideration, as long as the number of years gone by is some worthy number, like 25, 50, 75 or 100. Or simple multiples thereof with polysyllabic names.
2017 has more than enough such anniversaries for a Top 10 list, so some worthwhile events don’t even make the cut, such as the births of Stephen Hawking (1942) and Arthur C. Clarke (1917). The sesquicentennial of Michael Faraday’s death (1867) almost made the list, but was bumped at the last minute by a book. Namely:
On Growth and Form, centennial (1917) A true magnum opus, by the Scottish biologist D’Arcy Wentworth Thompson, On Growth and Form has inspired many biologists with its mathematical analysis of physical and structural forces underlying the diversity of shapes and forms in the biological world. Nobel laureate biologist Sir Peter Medawar praised Thompson’s book as “beyond comparison the finest work of literature in all the annals of science that have been recorded in the English tongue.”
Birth of Abraham de Moivre, semiseptcentennial (1667). Born in France on May 26, 1667, de Moivre moved as a young man to London where he did his best work, earning election to the Royal Society. Despite exceptional mathematical skill, though, he attained no academic position and earned a meager living as a tutor. He is most famous for his book The Doctrine of Chances, which was in essence an 18th century version of Gambling for Dummies. It contained major advances in probability theory and in later editions introduced the concept of the famous bell curve. Isaac Newton was impressed; the legend goes that when anyone asked him about probability, Newton said to go talk to de Moivre.
Exoplanets, quadranscentennial (1992)It seems like exoplanets have been around almost forever (and probably actually were), but the first confirmed by Earthbound astronomers were reported just a quarter century ago. Three planets showed up orbiting not an ordinary star, but a pulsar, a rapidly spinning neutron star left behind by a supernova. Astrophysicists Aleksander Wolszczan and Dale Frail found a sign of the planets, first detected with the Arecibo radio telescope, in irregularities in the radio pulses from the millisecond pulsar PSR1257+12. Some luck was involved. In 1990, the Arecibo telescope was being repaired and couldn’t pivot to point at a specific target; instead it constantly watched just one region of the sky. PSR1257+12 just happened to float by.
Birth of Marie Curie, sesquicentennial (1867) No doubt the most famous Polish-born scientist since Copernicus, Curie was born in Warsaw on November 7, 1867, as Maria Sklodowska. Challenged by poverty, family tragedies and poor health, she nevertheless excelled as a high school student. But she then worked as a governess, while continuing as much science education as possible, until her married sister invited her to Paris. There she completed her physics education with honors and met and married another young physicist, Pierre Curie.
Together they tackled the mystery of the newly discovered radioactivity, winning the physics Nobel in 1903 along with radioactivity’s discoverer, Henri Becquerel. Marie continued the work after her husband’s tragic death in 1906; she became the first person to win a second Nobel, awarded in chemistry in 1911 for her discovery of the new radioactive elements polonium and radium.
Laws of Robotics, semisesquicentennial (1942) One of science fiction’s greatest contributions to modern technological philosophy was Isaac Asimov’s Laws of Robotics, which first appeared in a short story in the March 1942 issue of Astounding Science Fiction. Later, those laws formed the motif of his many robot novels and appeared in his famous Foundation Trilogy (and subsequent sequels and prequels). They were:
A robot may not injure a human being or, through inaction, allow a human being to come to harm. A robot must obey the orders given to it by human beings, except where such orders would conflict with the First Law. A robot must protect its own existence as long as such protection does not conflict with the First or Second Law. Much later Asimov added a “zeroth law,” requiring robots to protect all of humankind even if that meant violating the other three laws. Artificial intelligence researchers all know about Asimov’s laws, but somehow have not managed to enforce them on social media. Incidentally, this year is also the quadranscentennial of Asimov’s death in 1992.
First sustained nuclear fission chain reaction, semisesquicentennial (1942) Enrico Fermi, the Italian Nobel laureate, escaped fascist Italy to come to the United States shortly after nuclear fission’s discovery in Germany. Fermi directed construction of the “atomic pile,” or nuclear reactor, on a squash court under the stands of the University of Chicago’s football stadium. Fermi and his collaborators showed that neutrons emitted from fissioning uranium nuclei could induce more fission, creating a chain reaction capable of releasing enormous amounts of energy. Which it later did.
Discovery of pulsars, semicentennial (1967) Science’s awareness of the existence of pulsars turns 50 this year, thanks to the diligence of Irish astrophysicist Jocelyn Bell Burnell. She spent many late-night hours examining the data recordings from the radio telescope she helped to build that first spotted a signal from a pulsar. She recognized that the signal was something special even though others thought it was just a glitch in the apparatus. But she was a graduate student so her supervisor got the Nobel Prize instead of her.
Einstein’s theory of lasers, centennial (1917) Albert Einstein did not actually invent the laser, but he developed the mathematical understanding that made lasers possible. By 1917, physicists knew that quantum physics played a part in the working of atoms, but the details were fuzzy. Niels Bohr had shown in 1913 that an atom’s electrons occupy different energy levels, and that falling from a high energy level to a lower one emits radiation.
Einstein worked out the math describing this process when many atoms have electrons in high-energy states and emit radiation. His analysis of matter-radiation interaction indicated that it would be possible to prepare many atoms in the same high-energy state and then stimulate them to emit radiation all at once. Properly done, all the atoms would emit radiation of identical wavelength with the waves in phase. A few decades later other physicists figured out how to build such a device for use as a powerful weapon or to read bar codes at grocery stores.
Qubits, quadranscentennial (1992) An even better quantum anniversary than lasers is the presentation to the world of the concept of quantum bits of information. Physicist Ben Schumacher of Kenyon College in Ohio unveiled the idea at a conference in Dallas in 1992 (I was there). A “quantum bit” of information, or qubit, represents the information contained in a quantum particle, which can exist in multiple states at once. A photon, for instance, might simultaneously be in a state of horizontal or vertical polarization. Or an electron’s spin could be up and down at the same time.
Such states differ from classical bits of information in a computer, recorded as either a 0 or 1; a quantum bit is both 0 and 1 at the same time. It becomes one or the other only when observed, much like a flipped coin is nether heads nor tails until somebody catches it, or it lands on the 50 yard line. Schumacher’s idea did not get a lot of attention at first, but it eventually became the foundational idea for quantum information theory, a field now booming with efforts to construct a quantum computer based on the manipulation of qubits.
Birth of modern cosmology, centennial (1917) It might seem unfair that Einstein gets two Top 10 anniversaries in 2017, but 1917 was a good year for him. Before publishing his laser paper, Einstein tweaked the equations of his brand-new general theory of relativity in order to better explain the universe (details in Part 1). Weirdly, Einstein didn’t understand the universe, and he later thought the term he added to his equations was a mistake. But it turns out that today’s understanding of the universe’s behavior — expanding at an accelerating rate — seems to require the term that Einstein thought he had added erroneously. But you can’t expect Einstein to have foreseen everything. He probably had no idea that lasers would revolutionize grocery shopping either.
A lizard’s intricately patterned skin follows rules like those used by a simple type of computer program.
As the ocellated lizard (Timon lepidus) grows, it transforms from a drab, polka-dotted youngster to an emerald-flecked adult. Its scales first morph from white and brown to green and black. Then, as the animal ages, individual scales flip from black to green, or vice versa.
Biophysicist Michel Milinkovitch of the University of Geneva realized that the scales weren’t changing their colors by chance. “You have chains of green and chains of black, and they form this labyrinthine pattern that very clearly is not random,” he says. That intricate ornamentation, he and colleagues report April 13 in Nature, can be explained by a cellular automaton, a concept developed by mathematicians in the 1940s and ’50s to simulate diverse complex systems. A cellular automaton is composed of a grid of colored pixels. Using a set of rules, each pixel has a chance of switching its shade, based on the colors of surrounding pixels. By comparing photos of T. lepidus at different ages, the scientists showed that its scales obey such rules. In the adult lizard, if a black scale is surrounded by other black scales, it is more likely to switch than a black one bounded by green, the researchers found. Eventually, the lizards’ scales settle down into a mostly stable state. Black scales wind up with around three green neighbors, and green scales have around four black ones. The researchers propose that interacting pigment cells could explain the color flips.
Computer scientists use cellular automata to simulate the real world, re-creating the turbulent motions of fluids or nerve cell activity in the brain, for example. But the new study is the first time the process has been seen with the naked eye in a real-life animal. The scales on an ocellated lizard change color as the animal ages (more than three years of growth shown in first clip). Circles highlight four instances of color-flipping scales. Blue circles indicate a scale that switches from green to black, the green circle indicates a black to green transformation, and the light blue circle marks a scale that flip-flops from green to black to green. Researchers used a cellular automaton to simulate the adult lizard’s color-swapping scales (second clip), and re-create the labyrinthine patterns that develop on its skin.
Dad bod is a big deal for albatrosses. Bigger male wandering albatrosses live longer and are more likely to breed successfully compared with lighter birds, while mass has no observable effect on female breeding or survival, researchers report May 3 in Proceedings of the Royal Society B.
Climate change could shift the degree to which some seabirds pack on the pounds. It’s unclear how those shifts will play out in species like wandering albatrosses (Diomedea exulans), in which males are much bigger than females.
To investigate, Tina Cornioley of the University of Zurich and her colleagues examined how body mass affects certain aspects of an albatross’s life — survival, odds of mating, having chicks, chick size and chick survival. From 1988 to 2013, the team tracked 662 adult albatrosses on Possession Island in the southern Indian Ocean. Albatross parents take turns sitting on their eggs, but dads actually invest more energy in rearing chicks after they hatch.
In addition to the survival and breeding advantages, the team also found that heavier dads were more likely to have heavier sons, but not daughters, and those sons had better survival odds. Although the team can’t rule out the possibility of a genetic element, the fact that body mass fluctuates throughout a bird’s life and the absence of the trend in mothers and daughters makes genetics a less likely explanation, says Cornioley. Instead, the researchers think that heftier dads invest more in sons than daughters.
A strain of wild Hawaiian worms has helped unmask long-studied genes as just plain selfish. The scammers beat the usual odds of inheritance and spread extra fast by making mother worms poison some of their offspring.
Biologists have for decades discussed how two genes in the familiar lab nematode Caenorhabditis elegans might help embryos build their organs. Working with a little-studied wild strain, however, caused a rethink of the genes’ supposedly beneficial role “that flipped it on its head,” says UCLA geneticist Leonid Kruglyak. Instead of doing some body sculpting, the gene sup-35 doses the eggs with a toxin that will kill them after fertilization, two postdocs in the Kruglyak lab discovered. The toxin gene doesn’t poison itself out of the gene pool because it’s linked to a partner, pha-1, that lets embryos manufacture an antidote. Embryos die unless they inherit a copy of the antidote gene in either egg or sperm, and so the poison-antidote duo can spread unusually fast through populations.
Making a mom on occasion poison some of her offspring doesn’t benefit her but certainly helps the genes. Thus the long-known sup-35 and pha-1 form what’s called a selfish genetic element, Kruglyak’s team proposes May 11 in Science.
That analysis is “very clearly accurate,” says evolutionary geneticist Jack Werren of the University of Rochester in New York. The idea that a gene could behave selfishly, promoting its own spread regardless of its host’s interests, was once controversial (SN: 3/19/16, p. 12). But as molecular biology techniques have improved, researchers have found more and more examples. Many of the most dramatic forms of selfishness, the murderous cheats, come from bacteria, so Werren welcomes the C. elegans scam as a rare case discovered in animals. Kruglyak’s lab has described an earlier example in C. elegans: a gene that doses sperm with a toxin that kills embryos unless an antidote gene rescues them. Finding a second selfish element in the nematode, he says, suggests that these may not be as rare in animals as people have thought. The big community of researchers regularly studying C. elegans had missed discovering the selfish role for a simple reason: The main lab strain of nematodes carries the selfish element, explains study coauthor Eyal Ben-David. Whenever the standard strain mates or self-fertilizes (the species has both males and hermaphrodites), all the offspring inherit sup-35 and pha-1. Researchers see no weird die-offs.
In the Kruglyak lab, however, Ben-David and fellow postdoc Alejandro Burga were doing a project that required crossing the usual lab nematodes with the DL238 strain from Hawaii. In its natural state, this strain has somehow escaped invasion by the selfish sup-35/pha-1 pair.
A series of oddities in interbreeding the disparate strains pushed the researchers to reconsider the two genes. For instance, much higher percentages of offspring died in mixed-parent crosses than the routine few percent in same-strain pairings. And when Ben-David and Burga looked at the genes in the Hawaiian strain isolated from the wild, sup-35 and pha-1 just weren’t there.
That was a shock. Earlier experiments in the lab strain had shown that disabling pha-1 caused death in offspring — which it certainly does. The feeding tube of the dying embryos was not forming properly, so researchers at first speculated that the gene controlled tube development. Later work suggested a more nuanced role for it, Ben-David says, but the overall hypothesis remained that the genes helped regulate embryo development. The Hawaiian strain changed that thinking: “How is this wild isolate alive and happy without a gene that’s supposed to be essential for development?” Kruglyak wanted to know.
A better way of interpreting the old experiments, he and his colleagues suggest, is that the embryos died because pha-1 wasn’t providing the antidote to the sup-35 toxin. “No one had previously considered the possibility,” says David S. Fay of the University of Wyoming in Laramie, who has done much of the work exploring the role of these genes. “All the data, including a lot of our previous published and unpublished findings, seem to fit the [selfish gene] model perfectly,” he says. And perhaps the highest praise: “I wish we had somehow come up with the solution ourselves.”
Dogged genetic detective work has led scientists to a hybrid red blood cell protein that offers some protection against malaria.
Reporting online May 18 in Science, researchers describe a genetic variant that apparently is responsible for the fusion of two proteins that protrude from the membranes of red blood cells. In its hybrid form, the protein somehow makes it more difficult for the malaria parasite to invade the blood cells.
Successful invasion by the parasite can cause flulike illness, and in severe cases, death. In 2015, 212 million cases of malaria occurred worldwide, according to the World Health Organization, and 429,000 people died, mostly young children. People carrying the protective genetic variant are 30 to 50 percent less likely to develop severe malaria than those without, the researchers report. The genetic change was found largely in people from Kenya, Malawi and Tanzania, suggesting that it occurred relatively recently in East Africa.
Discovering any genetic changes that protect against malaria is of great interest, says hematologist and malaria specialist Dave Roberts of the University of Oxford, who was not involved with the study. Understanding such changes, he says, “may help us understand the pathological pathways by which the parasite causes so much disease.”
Previous research had hinted that genetic changes to a particular stretch of DNA on chromosome 4 offered some protection against malaria. But the research team, an international collaboration that included researchers and clinicians from across Africa, had to do substantial legwork spanning 10 years to unmask the changes. Databases that gather the genetic instruction books, or genomes, of individuals are biased toward European populations, while African samples are underrepresented. And human genetic diversity is particularly high in sub-Saharan Africa, so genomes with rare genetic changes can be easily missed.
To overcome these hurdles, the researchers analyzed the genomes of more than 12,000 people, sampling widely in Africa. They surveyed 765 individuals from 10 ethnic groups in Gambia, Burkina Faso, Cameroon and Tanzania, as well as more than 2,000 genomes from the 1000 Genomes Project, a public catalog of genetic data. The team also examined genomes of nearly 10,000 people from Gambia, Kenya and Malawi, about half of whom had been hospitalized with severe malaria.
The team discovered that the stretch of DNA in question has undergone major changes; chunks of genes have been deleted, other chunks duplicated or even triplicated. One result stood out in the DNA of the people who were less at risk for malaria: Two genes that provide instructions for two proteins called glycophorin A and glycophorin B were snipped, fused together and duplicated. These proteins are known red blood cell proteins that the malaria parasite Plasmodium falciparum can use to gain access to the cells. This genetic mash-up seems to lead to a protein mash-up: The arm sticking inside the red blood cell is made up of protein A, while the arm sticking out of the cell is made up of protein B. This hybrid protein turns out to have been first described in 1984. Called the Dantu antigen, it’s found on red blood cells of only a small percentage of people outside of Africa and is part of a rare blood group called MNS. It isn’t clear why the hybrid protein makes it harder for the malaria parasite to breach a blood cell. “It might just make the cell more squishy so it feels different to the parasite,” says study coauthor Chris Spencer, a statistical geneticist at Oxford.
The new research suggests that there may be other stretches of DNA in the human genome that may reveal the diversity of responses to the parasite. Those spots are worth looking for, even if the search is difficult, says Spencer.
Typically, genome analysis studies primarily look for single changes — one altered unit of DNA — not wholesale copying or halving of genes. And because researchers break apart and then reassemble the 3-billion-letter-long genetic instruction book in order to analyze it, sections that have duplicated genes are harder to put in the right order and thus harder to study, which was the case with the region containing the red blood cell protein DNA.
“The genome is a big place and it’s natural to look at the things that are easiest,” Spencer says. “But it could be that the most interesting parts of the genome we just haven’t looked at yet.”
