Team determines the architecture of a second subcomplex of the nuclear pore complex
Not just anything is allowed to enter the nucleus, the heart of eukaryotic cells where, among other things, genetic information is stored. A double membrane, called the nuclear envelope, serves as a wall, protecting the contents of the nucleus. Any molecules trying to enter or exit the nucleus must do so via a cellular gatekeeper known as the nuclear pore complex (NPC), or pore, that exists within the envelope.
How can the NPC be such an effective gatekeeper—preventing much from entering the nucleus while helping to shuttle certain molecules across the nuclear envelope? Scientists have been trying to figure that out for decades, at least in part because the NPC is targeted by a number of diseases, including some aggressive forms of leukemia and nervous system disorders such as a hereditary form of Lou Gehrig's disease. Now a team led by André Hoelz, assistant professor of biochemistry at Caltech, has solved a crucial piece of the puzzle.
In February of this year, Hoelz and his colleagues published a paper describing the atomic structure of the NPC's coat nucleoporin complex, a subcomplex that forms what they now call the outer rings (see illustration). Building on that work, the team has now solved the architecture of the pore's inner ring, a subcomplex that is central to the NPC's ability to serve as a barrier and transport facilitator. In order to the determine that architecture, which determines how the ring's proteins interact with each other, the biochemists built up the complex in a test tube and then systematically dissected it to understand the individual interactions between components. Then they validated that this is actually how it works in vivo, in a species of fungus.
For more than a decade, other researchers have suggested that the inner ring is highly flexible and expands to allow large macromolecules to pass through. "People have proposed some complicated models to explain how this might happen," says Hoelz. But now he and his colleagues have shown that these models are incorrect and that these dilations simply do not occur.
"Using an interdisciplinary approach, we solved the architecture of this subcomplex and showed that it cannot change shape significantly," says Hoelz. "It is a relatively rigid scaffold that is incorporated into the pore and basically just sits as a decoration, like pom-poms on a bicycle. It cannot dilate."
The new paper appears online ahead of print on August 27 in Science Express. The four co-lead authors on the paper are Caltech postdoctoral scholars Tobias Stuwe, Christopher J. Bley, and Karsten Thierbach, and graduate student Stefan Petrovic.
Crystal Structure of Fungal Channel Nucleoporin Complex This video features a rotating three-dimensional crystal structure of the fungal channel nucleoporin complex bound to the adaptor nucleoporin Nic96. This interaction is the complex's sole site of attachment to the rest of the inner ring of the NPC. The channel nucleoporin complex borders the central transport channel and fills it with filamentous structures (phenylalanine-glycine repeats) that form a diffusion barrier and provide docking sites for proteins that ferry molecules across the nuclear envelope. Credit: Andre Hoelz/Caltech and Science
Together, the inner and outer rings make up the symmetric core of the NPC, a structure that includes 21 different proteins. The symmetric core is so named because of its radial symmetry (the two remaining subcomplexes of the NPC are specific to either the side that faces the cell's cytoplasm or the side that faces the nucleus and are therefore not symmetric). Having previously solved the structure of the coat nucleoporin complex and located it in the outer rings, the researchers knew that the remaining components that are not membrane anchored must make up the inner ring.
They started solving the architecture by focusing on the channel nucleoporin complex, or channel, which lines the central transport channel and is made up of three proteins, accounting for about half of the inner ring. This complex produces filamentous structures that serve as docking sites for specific proteins that ferry molecules across the nuclear envelope.
The biochemists employed bacteria to make the proteins associated with the inner ring in a test tube and mixed various combinations until they built the entire subcomplex. Once they had reconstituted the inner ring subcomplex, they were able to modify it to investigate how it is held together and which of its components are critical, and to determine how the channel is attached to the rest of the pore.
Hoelz and his team found that the channel is attached at only one site. This means that it cannot stretch significantly because such shape changes require multiple attachment points. Hoelz notes that a new electron microscopy study of the NPC published in 2013 by Martin Beck's group at the European Molecular Biology Laboratory (EMBL) in Heidelberg, Germany, indicated that the central channel is bigger than previously thought and wide enough to accommodate even the largest cargoes known to pass through the pore.
When the researchers introduced mutations that effectively eliminated the channel's single attachment, the complex could no longer be incorporated into the inner ring. After proving this in the test tube, they also showed this to be true in living cells.
"This whole complex is a very complicated machine to assemble. The cool thing here is that nature has found an elegant way to wait until the very end of the assembly of the nuclear pore to incorporate the channel," says Hoelz. "By incorporating the channel, you establish two things at once: you immediately form a barrier and you generate the ability for regulated transport to occur through the pore." Prior to the channel's incorporation, there is simply a hole through which macromolecules can freely pass.
Next, Hoelz and his colleagues used X-ray crystallography to determine the structure of the channel nucleoporin subcomplex bound to the adaptor nucleoporin Nic96, which is its only nuclear pore attachment site. X-ray crystallography involves shining X-rays on a crystallized sample and analyzing the pattern of rays reflected off the atoms in the crystal. Because the NPC is a large and complex molecular machine that also has many moving parts, they used an engineered antibody to essentially "superglue" many copies of the complex into place to form a nicely ordered crystalline sample. Then they analyzed hundreds of samples using Caltech's Molecular Observatory—a facility developed with support from the Gordon and Betty Moore Foundation that includes an automated X-ray beam line at the Stanford Synchrotron Radiation Laboratory that can be controlled remotely from Caltech—and the GM/CA beam line at the Advanced Photon Source at the Argonne National Laboratory. Eventually, they were able to determine the size, shape, and position of all the atoms of the channel nucleoporin subcomplex and its location within the full NPC.
"The crystal structure nailed it," Hoelz says. "There is no way that the channel is changing shape. All of that other work that, for more than 10 years, suggested it was dilating was wrong."
The researchers also solved a number of crystal structures from other parts of the NPC and determined how they interact with components of the inner ring. In doing so they demonstrated that one such interaction is critical for positioning the channel in the center of the inner ring. They found that exact positioning is needed for the proper export from the nucleus of mRNA and components of ribosomes, the cell's protein-making complexes, rendering it critical in the flow of genetic information from DNA to mRNA to protein.
Hoelz adds that now that the architectures of the inner and outer rings of the NPC are known, getting an atomic structure of the entire symmetric core is "a sprint to the summit."
"When I started at Caltech, I thought it might take another 10, 20 years to do this," he says. "In the end, we have really only been working on this for four and a half years, and the thing is basically tackled. I want to emphasize that this kind of work is not doable everywhere. The people who worked on this are truly special, talented, and smart; and they worked day and night on this for years."
Ultimately, Hoelz says he would like to understand how the NPC works in great detail so that he might be able to generate therapies for diseases associated with the dysfunction of the complex. He also dreams of building up an entire pore in the test tube so that he can fully study it and understand what happens as it is modified in various ways. "Just as they did previously when I said that I wanted to solve the atomic structure of the nuclear pore, people will say that I'm crazy for trying to do this," he says. "But if we don't do it, it is likely that nobody else will."
The paper, "Architecture of the fungal nuclear pore inner ring complex," had a number of additional Caltech authors: Sandra Schilbach (now of the Max Planck Institute of Biophysical Chemistry), Daniel J. Mayo, Thibaud Perriches, Emily J. Rundlet, Young E. Jeon, Leslie N. Collins, Ferdinand M. Huber, and Daniel H. Lin. Additional coauthors include Marcin Paduch, Akiko Koide, Vincent Lu, Shohei Koide, and Anthony A. Kossiakoff of the University of Chicago; and Jessica Fischer and Ed Hurt of Heidelberg University.
In July, scientists at the Large Hadron Collider (LHC) reported the discovery of the pentaquark, a long-sought particle first predicted to exist in the 1960s as a consequence of the theory of elementary particles and their interactions proposed by Murray Gell-Mann, Caltech's Robert Andrews Millikan Professor of Theoretical Physics, Emeritus.
In work for which he won the Nobel Prize in Physics in 1969, Gell-Mann introduced the concept of the quark—a fundamental building block of matter. Quarks come in six types, known as "flavors": up, down, top, bottom, strange, and charm. As described in his model, groups of quarks combine into composite particles called hadrons. Combining a quark and an antiquark (a quark's antimatter equivalent) creates a type of hadron called a meson, while baryons are hadrons composed of three quarks. Protons, for example, have two up quarks and one down quark, while neutrons have one up and two down quarks. Gell-Mann's scheme also allowed for more exotic forms of composite particles, including tetraquarks, made of four quarks, and the pentaquark, consisting of four quarks and an antiquark.
The pentaquark was detected at the LHC—the most powerful particle accelerator on Earth—by scientists carrying out the "beauty" experiment, or LHCb. The LHC accelerates protons around a ring almost five miles wide to nearly the speed of light, producing two proton beams that careen toward each other. A small fraction of the protons collide, creating other particles in the process. During investigations of the behavior of one such particle, an unstable three-quark object known as the bottom lambda baryon that decays quickly once formed, LHCb researchers observed unusually heavy objects, each with about 4.5 times the mass of a proton. After further analysis, the researchers concluded that the objects were pentaquarks composed of two up quarks, one down quark, one charm quark, and one anticharm quark. A paper describing the discovery has been published in the journal Physical Review Letters.
It is thought that pentaquarks and other exotic particles may form naturally in violent environments such as exploding stars and would have been created during the Big Bang. A better understanding of these complex arrangements of quarks could offer insight into the forces that hold together all matter as well as the earliest moments of the universe.
"This is part of a long process of discovery of particle states," said Gell-Mann in a statement released by the Santa Fe Institute, where he currently is a Distinguished Fellow. "[In the future] they may find more and more of them, made of quarks and antiquarks and various combinations."
When the transistor was invented in 1947 at Bell Labs, few could have foreseen the future impact of the device. This fundamental development in science and engineering was critical to the invention of handheld radios, led to modern computing, and enabled technologies such as the smartphone. This is one of the values of basic research.
In a similar fashion, a branch of fundamental physics research, the study of so-called correlated electrons, focuses on interactions between the electrons in metals.
The key to understanding these interactions and the unique properties they produce—information that could lead to the development of novel materials and technologies—is to experimentally verify their presence and physically probe the interactions at microscopic scales. To this end, Caltech's Thomas F. Rosenbaum and colleagues at the University of Chicago and the Argonne National Laboratory recently used a synchrotron X-ray source to investigate the existence of instabilities in the arrangement of the electrons in metals as a function of both temperature and pressure, and to pinpoint, for the first time, how those instabilities arise. Rosenbaum, professor of physics and holder of the Sonja and William Davidow Presidential Chair, is the corresponding author on the paper that was published on July 27, 2015, in the journal Nature Physics.
"We spent over 10 years developing the instrumentation to perform these studies," says Yejun Feng of Argonne National Laboratory, a coauthor of the paper. "We now have a very unique capability that's due to the long-term relationship between Dr. Rosenbaum and the facilities at the Argonne National Laboratory."
Within atoms, electrons are organized into orbital shells and subshells. Although they are often depicted as physical entities, orbitals actually represent probability distributions—regions of space where electrons have a certain likelihood of being found in a particular element at a particular energy. The characteristic electron configuration of a given element explains that element's peculiar properties.
The work in correlated electrons looks at a subset of electrons. Metals, as an example, have an unfilled outermost orbital and electrons are free to move from atom to atom. Thus, metals are good electrical conductors. When metal atoms are tightly packed into lattices (or crystals) these electrons mingle together into a "sea" of electrons. The metallic element mercury is liquid at room temperature, in part due to its electron configuration, and shows very little resistance to electric current due to its electron configuration. At 4 degrees above absolute zero (just barely above -460 degrees Fahrenheit), mercury's electron arrangement and other properties create communal electrons that show no resistance to electric current, a state known as superconductivity.
Mercury's superconductivity and similar phenomena are due to the existence of many pairs of correlated electrons. In superconducting states, correlated electrons pair to form an elastic, collective state through an excitation in the crystal lattice known as a phonon (specifically, a periodic, collective excitation of the atoms). The electrons are then able to move cooperatively in the elastic state through a material without energy loss.
Electrons in crystals can interact in many ways with the periodic structure of the underlying atoms. Sometimes the electrons modulate themselves periodically in space. The question then arises as to whether this "charge order" derives from the interactions of the electrons with the atoms, a theory first proposed more than 60 years ago, or solely from interactions among the sea of electrons themselves. This question was the focus of the Nature Physics study. Electrons also behave as microscopic magnets and can demonstrate "spin order," which raises similar questions about the origin of the local magnetism.
To see where the charge order arises, the researchers turned to the Advanced Photon Source at Argonne. The Photon Source is a synchrotron (a relative of the cyclotron, commonly known as an "atom-smasher"). These machines generate intense X-ray beams that can be used for X-ray diffraction studies. In X-ray diffraction, the patterns of scattered X-rays are used to provide information about repeating structures with wavelengths at the atomic scale.
In the experiment, the researchers used the X-ray beams to investigate charge-order effects in two metals, chromium and niobium diselenide, at pressures ranging from 0 (a vacuum) to 100 kilobar (100,000 times normal atmospheric pressure) and at temperatures ranging from 3 to 300 K (or -454 to 80 degrees Fahrenheit). Niobium diselenide was selected because it has a high degree of charge order, while chromium, in contrast, has a high degree of spin order.
The researchers found that there is a simple correlation between pressure and how the communal electrons organize themselves within the crystal. Materials with completely different types of crystal structures all behave similarly. "These sorts of charge- and spin-order phenomena have been known for a long time, but their underlying mechanisms have not been understood until now," says Rosenbaum.
Paper coauthors Jasper van Wezel, formerly of Argonne National Laboratory and presently of the Institute for Theoretical Physics at the University of Amsterdam, and Peter Littlewood, a professor at the University of Chicago and the director of Argonne National Laboratory, helped to provide a new theoretical perspective to explain the experimental results.
Rosenbaum and colleagues point out that there are no immediate practical applications of the results. However, Rosenbaum notes, "This work should have applicability to new materials as well as to the kind of interactions that are useful to create magnetic states that are often the antecedents of superconductors," says Rosenbaum.
"The attraction of this sort of research is to ask fundamental questions that are ubiquitous in nature," says Rosenbaum. "I think it is very much a Caltech tradition to try to develop new tools that can interrogate materials in ways that illuminate the fundamental aspects of the problem." He adds, "There is real power in being able to have general microscopic insights to develop the most powerful breakthroughs."
The coauthors on the paper, titled "Itinerant density wave instabilities at classical and quantum critical points," are Yejun Feng and Peter Littlewood of the Argonne National Laboratory, Jasper van Wezel of the University of Amsterdam, Daniel M. Silevitch and Jiyang Wang of the University of Chicago, and Felix Flicker of the University of Bristol. Work performed at the Argonne National Laboratory was supported by the U.S. Department of Energy. Work performed at the University of Chicago was funded by the National Science Foundation. Additional support was received from the Netherlands Organization for Scientific Research.
For more than 20 years, Caltech geologist Jean-Philippe Avouac has collaborated with the Department of Mines and Geology of Nepal to study the Himalayas—the most active, above-water mountain range on Earth—to learn more about the processes that build mountains and trigger earthquakes. Over that period, he and his colleagues have installed a network of GPS stations in Nepal that allows them to monitor the way Earth's crust moves during and in between earthquakes. So when he heard on April 25 that a magnitude 7.8 earthquake had struck near Gorkha, Nepal, not far from Kathmandu, he thought he knew what to expect—utter devastation throughout Kathmandu and a death toll in the hundreds of thousands.
"At first when I saw the news trickling in from Kathmandu, I thought there was a problem of communication, that we weren't hearing the full extent of the damage," says Avouac, Caltech's Earle C. Anthony Professor of Geology. "As it turns out, there was little damage to the regular dwellings, and thankfully, as a result, there were far fewer deaths than I originally anticipated."
Using data from the GPS stations, an accelerometer that measures ground motion in Kathmandu, data from seismological stations around the world, and radar images collected by orbiting satellites, an international team of scientists led by Caltech has pieced together the first complete account of what physically happened during the Gorkha earthquake—a picture that explains how the large earthquake wound up leaving the majority of low-story buildings unscathed while devastating some treasured taller structures.
The findings are described in two papers that now appear online. The first, in the journal Nature Geoscience, is based on an analysis of seismological records collected more than 1,000 kilometers from the epicenter and places the event in the context of what scientists knew of the seismic setting near Gorkha before the earthquake. The second paper, appearing in ScienceExpress, goes into finer detail about the rupture process during the April 25 earthquake and how it shook the ground in Kathmandu.
Build Up and Release of Strain on Himalaya Megathrust(caption and credit in video attached in upper right)
In the first study, the researchers show that the earthquake occurred on the Main Himalayan Thrust (MHT), the main megathrust fault along which northern India is pushing beneath Eurasia at a rate of about two centimeters per year, driving the Himalayas upward. Based on GPS measurements, scientists know that a large portion of this fault is "locked." Large earthquakes typically release stress on such locked faults—as the lower tectonic plate (here, the Indian plate) pulls the upper plate (here, the Eurasian plate) downward, strain builds in these locked sections until the upper plate breaks free, releasing strain and producing an earthquake. There are areas along the fault in western Nepal that are known to be locked and have not experienced a major earthquake since a big one (larger than magnitude 8.5) in 1505. But the Gorkha earthquake ruptured only a small fraction of the locked zone, so there is still the potential for the locked portion to produce a large earthquake.
"The Gorkha earthquake didn't do the job of transferring deformation all the way to the front of the Himalaya," says Avouac. "So the Himalaya could certainly generate larger earthquakes in the future, but we have no idea when."
The epicenter of the April 25 event was located in the Gorkha District of Nepal, 75 kilometers to the west-northwest of Kathmandu, and propagated eastward at a rate of about 2.8 kilometers per second, causing slip in the north-south direction—a progression that the researchers describe as "unzipping" a section of the locked fault.
"With the geological context in Nepal, this is a place where we expect big earthquakes. We also knew, based on GPS measurements of the way the plates have moved over the last two decades, how 'stuck' this particular fault was, so this earthquake was not a surprise," says Jean Paul Ampuero, assistant professor of seismology at Caltech and coauthor on the Nature Geoscience paper. "But with every earthquake there are always surprises."
Propagation of April 2015 Mw 7.8 Gorkha Earthquake(caption and credit in video attached in upper right)
In this case, one of the surprises was that the quake did not rupture all the way to the surface. Records of past earthquakes on the same fault—including a powerful one (possibly as strong as magnitude 8.4) that shook Kathmandu in 1934—indicate that ruptures have previously reached the surface. But Avouac, Ampuero, and their colleagues used satellite Synthetic Aperture Radar data and a technique called back projection that takes advantage of the dense arrays of seismic stations in the United States, Europe, and Australia to track the progression of the earthquake, and found that it was quite contained at depth. The high-frequency waves that were largely produced in the lower section of the rupture occurred at a depth of about 15 kilometers.
"That was good news for Kathmandu," says Ampuero. "If the earthquake had broken all the way to the surface, it could have been much, much worse."
The researchers note, however, that the Gorkha earthquake did increase the stress on the adjacent portion of the fault that remains locked, closer to Kathmandu. It is unclear whether this additional stress will eventually trigger another earthquake or if that portion of the fault will "creep," a process that allows the two plates to move slowly past one another, dissipating stress. The researchers are building computer models and monitoring post-earthquake deformation of the crust to try to determine which scenario is more likely.
Another surprise from the earthquake, one that explains why many of the homes and other buildings in Kathmandu were spared, is described in the Science Express paper. Avouac and his colleagues found that for such a large-magnitude earthquake, high-frequency shaking in Kathmandu was actually relatively mild. And it is high-frequency waves, with short periods of vibration of less than one second, that tend to affect low-story buildings. The Nature Geoscience paper showed that the high-frequency waves that the quake produced came from the deeper edge of the rupture, on the northern end away from Kathmandu.
The GPS records described in the ScienceExpress paper show that within the zone that experienced the greatest amount of slip during the earthquake—a region south of the sources of high-frequency waves and closer to Kathmandu—the onset of slip on the fault was actually very smooth. It took nearly two seconds for the slip rate to reach its maximum value of one meter per second. In general, the more abrupt the onset of slip during an earthquake, the more energetic the radiated high-frequency seismic waves. So the relatively gradual onset of slip in the Gorkha event explains why this patch, which experienced a large amount of slip, did not generate many high-frequency waves.
"It would be good news if the smooth onset of slip, and hence the limited induced shaking, were a systematic property of the Himalayan megathrust fault, or of megathrust faults in general." says Avouac. "Based on observations from this and other megathrust earthquakes, this is a possibility."
In contrast to what they saw with high-frequency waves, the researchers found that the earthquake produced an unexpectedly large amount of low-frequency waves with longer periods of about five seconds. This longer-period shaking was responsible for the collapse of taller structures in Kathmandu, such as the Dharahara Tower, a 60-meter-high tower that survived larger earthquakes in 1833 and 1934 but collapsed completely during the Gorkha quake.
To understand this, consider plucking the strings of a guitar. Each string resonates at a certain natural frequency, or pitch, depending on the length, composition, and tension of the string. Likewise, buildings and other structures have a natural pitch or frequency of shaking at which they resonate; in general, the taller the building, the longer the period at which it resonates. If a strong earthquake causes the ground to shake with a frequency that matches a building's pitch, the shaking will be amplified within the building, and the structure will likely collapse.
Turning to the GPS records from two of Avouac's stations in the Kathmandu Valley, the researchers found that the effect of the low-frequency waves was amplified by the geological context of the Kathmandu basin. The basin is an ancient lakebed that is now filled with relatively soft sediment. For about 40 seconds after the earthquake, seismic waves from the quake were trapped within the basin and continued to reverberate, ringing like a bell with a frequency of five seconds.
"That's just the right frequency to damage tall buildings like the Dharahara Tower because it's close to their natural period," Avouac explains.
In follow-up work, Domniki Asimaki, professor of mechanical and civil engineering at Caltech, is examining the details of the shaking experienced throughout the basin. On a recent trip to Kathmandu, she documented very little damage to low-story buildings throughout much of the city but identified a pattern of intense shaking experienced at the edges of the basin, on hilltops or in the foothills where sediment meets the mountains. This was largely due to the resonance of seismic waves within the basin.
Asimaki notes that Los Angeles is also built atop sedimentary deposits and is surrounded by hills and mountain ranges that would also be prone to this type of increased shaking intensity during a major earthquake.
"In fact," she says, "the buildings in downtown Los Angeles are much taller than those in Kathmandu and therefore resonate with a much lower frequency. So if the same shaking had happened in L.A., a lot of the really tall buildings would have been challenged."
That points to one of the reasons it is important to understand how the land responded to the Gorkha earthquake, Avouac says. "Such studies of the site effects in Nepal provide an important opportunity to validate the codes and methods we use to predict the kind of shaking and damage that would be expected as a result of earthquakes elsewhere, such as in the Los Angeles Basin."
The Nepal Geodetic Array was funded by Caltech, the Gordon and Betty Moore Foundation, and the National Science Foundation. Additional funding for the Science study came from the Department of Foreign International Development (UK), the Royal Society (UK), the United Nations Development Programme, and the Nepal Academy for Science and Technology, as well as NASA and the Department of Foreign International Development.
A team of astronomers led by Caltech has discovered a giant swirling disk of gas 10 billion light-years away—a galaxy-in-the-making that is actively being fed cool primordial gas tracing back to the Big Bang. Using the Caltech-designed and -built Cosmic Web Imager (CWI) at Palomar Observatory, the researchers were able to image the protogalaxy and found that it is connected to a filament of the intergalactic medium, the cosmic web made of diffuse gas that crisscrosses between galaxies and extends throughout the universe.
The finding provides the strongest observational support yet for what is known as the cold-flow model of galaxy formation. That model holds that in the early universe, relatively cool gas funneled down from the cosmic web directly into galaxies, fueling rapid star formation.
A paper describing the finding and how CWI made it possible currently appears online and will be published in the August 13 print issue of the journal Nature.
"This is the first smoking-gun evidence for how galaxies form," says Christopher Martin, professor of physics at Caltech, principal investigator on CWI, and lead author of the new paper. "Even as simulations and theoretical work have increasingly stressed the importance of cold flows, observational evidence of their role in galaxy formation has been lacking."
Caltech Astronomers Discuss Findings on Galaxy Formation
The protogalactic disk the team has identified is about 400,000 light-years across—about four times larger in diameter than our Milky Way. It is situated in a system dominated by two quasars, the closest of which, UM287, is positioned so that its emission is beamed like a flashlight, helping to illuminate the cosmic web filament feeding gas into the spiraling protogalaxy.
Last year, Sebastiano Cantalupo, then of UC Santa Cruz (now of ETH Zurich) and his colleagues published a paper, also in Nature, announcing the discovery of what they thought was a large filament next to UM287. The feature they observed was brighter than it should have been if indeed it was only a filament. It seemed that there must be something else there.
In September 2014, Martin and his colleagues, including Cantalupo, decided to follow up with observations of the system with CWI. As an integral field spectrograph, CWI allowed the team to collect images around UM287 at hundreds of different wavelengths simultaneously, revealing details of the system's composition, mass distribution, and velocity.
Martin and his colleagues focused on a range of wavelengths around an emission line in the ultraviolet known as the Lyman-alpha line. That line, a fingerprint of atomic hydrogen gas, is commonly used by astronomers as a tracer of primordial matter.
The researchers collected a series of spectral images that combined to form a multiwavelength map of a patch of sky around the two quasars. This data delineated areas where gas is emitting in the Lyman-alpha line, and indicated the velocities with which this gas is moving with respect to the center of the system.
"The images plainly show that there is a rotating disk—you can see that one side is moving closer to us and the other is moving away. And you can also see that there's a filament that extends beyond the disk," Martin says. Their measurements indicate that the disk is rotating at a rate of about 400 kilometers per second, somewhat faster than the Milky Way's own rate of rotation.
"The filament has a more or less constant velocity. It is basically funneling gas into the disk at a fixed rate," says Matt Matuszewski (PhD '12), an instrument scientist in Martin's group and coauthor on the paper. "Once the gas merges with the disk inside the dark-matter halo, it is pulled around by the rotating gas and dark matter in the halo." Dark matter is a form of matter that we cannot see that is believed to make up about 27 percent of the universe. Galaxies are thought to form within extended halos of dark matter.
The new observations and measurements provide the first direct confirmation of the so-called cold-flow model of galaxy formation.
Hotly debated since 2003, that model stands in contrast to the standard, older view of galaxy formation. The standard model said that when dark-matter halos collapse, they pull a great deal of normal matter in the form of gas along with them, heating it to extremely high temperatures. The gas then cools very slowly, providing a steady but slow supply of cold gas that can form stars in growing galaxies.
That model seemed fine until 1996, when Chuck Steidel, Caltech's Lee A. DuBridge Professor of Astronomy, discovered a distant population of galaxies producing stars at a very high rate only two billion years after the Big Bang. The standard model cannot provide the prodigious fuel supply for these rapidly forming galaxies.
The cold-flow model provided a potential solution. Theorists suggested that relatively cool gas, delivered by filaments of the cosmic web, streams directly into protogalaxies. There, it can quickly condense to form stars. Simulations show that as the gas falls in, it contains tremendous amounts of angular momentum, or spin, and forms extended rotating disks.
"That's a direct prediction of the cold-flow model, and this is exactly what we see—an extended disk with lots of angular momentum that we can measure," says Martin.
Phil Hopkins, assistant professor of theoretical astrophysics at Caltech, who was not involved in the study, finds the new discovery "very compelling."
"As a proof that a protogalaxy connected to the cosmic web exists and that we can detect it, this is really exciting," he says. "Of course, now you want to know a million things about what the gas falling into galaxies is actually doing, so I'm sure there is going to be more follow up."
Martin notes that the team has already identified two additional disks that appear to be receiving gas directly from filaments of the cosmic web in the same way.
Additional Caltech authors on the paper, "A giant protogalactic disk linked to the cosmic web," are principal research scientist Patrick Morrissey, research scientist James D. Neill, and instrument scientist Anna Moore from the Caltech Optical Observatories. J. Xavier Prochaska of UC Santa Cruz and former Caltech graduate student Daphne Chang, who is deceased, are also coauthors. The Cosmic Web Imager was funded by grants from the National Science Foundation and Caltech.
Caltech astronomers say brown dwarfs behave more like planets than stars
Brown dwarfs are relatively cool, dim objects that are difficult to detect and hard to classify. They are too massive to be planets, yet possess some planetlike characteristics; they are too small to sustain hydrogen fusion reactions at their cores, a defining characteristic of stars, yet they have starlike attributes.
By observing a brown dwarf 20 light-years away using both radio and optical telescopes, a team led by Gregg Hallinan, assistant professor of astronomy at Caltech, has found another feature that makes these so-called failed stars more like supersized planets—they host powerful auroras near their magnetic poles.
The findings appear in the July 30 issue of the journal Nature.
"We're finding that brown dwarfs are not like small stars in terms of their magnetic activity; they're like giant planets with hugely powerful auroras," says Hallinan. "If you were able to stand on the surface of the brown dwarf we observed—something you could never do because of its extremely hot temperatures and crushing surface gravity—you would sometimes be treated to a fantastic light show courtesy of auroras hundreds of thousands of times more powerful than any detected in our solar system."
In the early 2000s, astronomers began finding that brown dwarfs emit radio waves. At first, everyone assumed that the brown dwarfs were creating the radio waves in basically the same way that stars do—through the action of an extremely hot atmosphere, or corona, heated by magnetic activity near the object's surface. But brown dwarfs do not generate large flares and charged-particle emissions in the way that our sun and other stars do, so the radio emissions were surprising.
While in graduate school, in 2006, Hallinan discovered that brown dwarfs can actually pulse at radio frequencies. "We see a similar pulsing phenomenon from planets in our solar system," says Hallinan, "and that radio emission is actually due to auroras." Since then he has wondered if the radio emissions seen on brown dwarfs might be caused by auroras.
Auroral displays result when charged particles, carried by the stellar wind for example, manage to enter a planet's magnetosphere, the region where such charged particles are influenced by the planet's magnetic field. Once within the magnetosphere, those particles get accelerated along the planet's magnetic field lines to the planet's poles, where they collide with gas atoms in the atmosphere and produce the bright emissions associated with auroras.
Following his hunch, Hallinan and his colleagues conducted an extensive observation campaign of a brown dwarf called LSRJ 1835+3259, using the National Radio Astronomy Observatory's Very Large Array (VLA), the most powerful radio telescope in the world, as well as optical instruments that included Palomar's Hale Telescope and the W. M. Keck Observatory's telescopes.
This movie shows the brown dwarf, LSRJ 1835+3259, as seen with the National Radio Astronomy Observatory's Very Large Array, pulsing as a result of the process that creates powerful auroras. Credit: Stephen Bourke/Caltech
Using the VLA they detected a bright pulse of radio waves that appeared as the brown dwarf rotated around. The object rotates every 2.84 hours, so the researchers were able to watch nearly three full rotations over the course of a single night.
Next, the astronomers used the Hale Telescope to observe that the brown dwarf varied optically on the same period as the radio pulses. Focusing on one of the spectral lines associated with excited hydrogen—the h-alpha emission line—they found that the object's brightness varied periodically.
Finally, Hallinan and his colleagues used the Keck telescopes to measure precisely the brightness of the brown dwarf over time—no simple feat given that these objects are many thousands of times fainter than our own sun. Hallinan and his team were able to establish that this hydrogen emission is a signature of auroras near the surface of the brown dwarf.
"As the electrons spiral down toward the atmosphere, they produce radio emissions, and then when they hit the atmosphere, they excite hydrogen in a process that occurs at Earth and other planets, albeit tens of thousands of times more intense," explains Hallinan. "We now know that this kind of auroral behavior is extending all the way from planets up to brown dwarfs."
In the case of brown dwarfs, charged particles cannot be driven into their magnetosphere by a stellar wind, as there is no stellar wind to do so. Hallinan says that some other source, such as an orbiting planet moving through the brown dwarf's magnetosphere, may be generating a current and producing the auroras. "But until we map the aurora accurately, we won't be able to say where it's coming from," he says.
He notes that brown dwarfs offer a convenient stepping stone to studying exoplanets, planets orbiting stars other than our own sun. "For the coolest brown dwarfs we've discovered, their atmosphere is pretty similar to what we would expect for many exoplanets, and you can actually look at a brown dwarf and study its atmosphere without having a star nearby that's a factor of a million times brighter obscuring your observations," says Hallinan.
Just as he has used measurements of radio waves to determine the strength of magnetic fields around brown dwarfs, he hopes to use the low-frequency radio observations of the newly built Owens Valley Long Wavelength Array to measure the magnetic fields of exoplanets. "That could be particularly interesting because whether or not a planet has a magnetic field may be an important factor in habitability," he says. "I'm trying to build a picture of magnetic field strength and topology and the role that magnetic fields play as we go from stars to brown dwarfs and eventually right down into the planetary regime."
The work, "Magnetospherically driven optical and radio aurorae at the end of the main sequence," was supported by funding from the National Science Foundation. Additional authors on the paper include Caltech senior postdoctoral scholar Stephen Bourke, Caltech graduate students Sebastian Pineda and Melodie Kao, Leon Harding of JPL, Stuart Littlefair of the University of Sheffield, Garret Cotter of the University of Oxford, Ray Butler of National University of Ireland, Galway, Aaron Golden of Yeshiva University, Gibor Basri of UC Berkeley, Gerry Doyle of Armagh Observatory, Svetlana Berdyugina of the Kiepenheuer Institute for Solar Physics, Alexey Kuznetsov of the Institute of Solar-Terrestrial Physics in Irkutsk, Russia, Michael Rupen of the National Radio Astronomy Observatory, and Antoaneta Antonova of Sofia University.
On summer evenings, we try our best to avoid mosquito bites by dousing our skin with bug repellents and lighting citronella candles. These efforts may keep the mosquitoes at bay for a while, but no solution is perfect because the pests have evolved to use a triple threat of visual, olfactory, and thermal cues to home in on their human targets, a new Caltech study suggests.
The study, published by researchers in the laboratory of Michael Dickinson, the Esther M. and Abe M. Zarem Professor of Bioengineering, appears in the July 17 online version of the journal Current Biology.
When an adult female mosquito needs a blood meal to feed her young, she searches for a host—often a human. Many insects, mosquitoes included, are attracted by the odor of the carbon dioxide (CO2) gas that humans and other animals naturally exhale. However, mosquitoes can also pick up other cues that signal a human is nearby. They use their vision to spot a host and thermal sensory information to detect body heat.
But how do the mosquitoes combine this information to map out the path to their next meal?
To find out how and when the mosquitoes use each type of sensory information, the researchers released hungry, mated female mosquitoes into a wind tunnel in which different sensory cues could be independently controlled. In one set of experiments, a high-concentration CO2 plume was injected into the tunnel, mimicking the signal created by the breath of a human. In control experiments, the researchers introduced a plume consisting of background air with a low concentration of CO2. For each experiment, researchers released 20 mosquitoes into the wind tunnel and used video cameras and 3-D tracking software to follow their paths.
When a concentrated CO2 plume was present, the mosquitos followed it within the tunnel as expected, whereas they showed no interest in a control plume consisting of background air.
"In a previous experiment with fruit flies, we found that exposure to an attractive odor led the animals to be more attracted to visual features," says Floris van Breugel, a postdoctoral scholar in Dickinson's lab and first author of the study. "This was a new finding for flies, and we suspected that mosquitoes would exhibit a similar behavior. That is, we predicted that when the mosquitoes were exposed to CO2, which is an indicator of a nearby host, they would also spend a lot of time hovering near high-contrast objects, such as a black object on a neutral background."
To test this hypothesis, van Breugel and his colleagues did the same CO2 plume experiment, but this time they provided a dark object on the floor of the wind tunnel. They found that in the presence of the carbon dioxide plumes, the mosquitoes were attracted to the dark high-contrast object. In the wind tunnel with no CO2 plume, the insects ignored the dark object entirely.
While it was no surprise to see the mosquitoes tracking a CO2 plume, "the new part that we found is that the CO2 plume increases the likelihood that they'll fly toward an object. This is particularly interesting because there's no CO2 down near that object—it's about 10 centimeters away," van Breugel says. "That means that they smell the CO2, then they leave the plume, and several seconds later they continue flying toward this little object. So you could think of it as a type of memory or lasting effect."
Next, the researchers wanted to see how a mosquito factors thermal information into its flight path. It is difficult to test, van Breugel says. "Obviously, we know that if you have an object in the presence of a CO2 plume—warm or cold—they will fly toward it because they see it," he says. "So we had to find a way to separate the visual attraction from the thermal attraction."
To do this, the researchers constructed two glass objects that were coated with a clear chemical substance that made it possible to heat them to any desired temperature. They heated one object to 37 degrees Celsius (approximately human body temperature) and allowed one to remain at room temperature, and then placed them on the floor of the wind tunnel with and without CO2 plumes, and observed mosquito behavior. They found that mosquitoes showed a preference for the warm object. But contrary to the mosquitoes' visual attraction to objects, the preference for warmth was not dependent on the presence of CO2.
"These experiments show that the attraction to a visual feature and the attraction to a warm object are separate. They are independent, and they don't have to happen in order, but they do often happen in this particular order because of the spatial arrangement of the stimuli: a mosquito can see a visual feature from much further away, so that happens first. Only when the mosquito gets closer does it detect an object's thermal signature," van Breugel says.
Information gathered from all of these experiments enabled the researchers to create a model of how the mosquito finds its host over different distances. They hypothesize that from 10 to 50 meters away, a mosquito smells a host's CO2 plume. As it flies closer—to within 5 to 15 meters—it begins to see the host. Then, guided by visual cues that draw it even closer, the mosquito can sense the host's body heat. This occurs at a distance of less than a meter.
"Understanding how brains combine information from different senses to make appropriate decisions is one of the central challenges in neuroscience," says Dickinson, the principal investigator of the study. "Our experiments suggest that female mosquitoes do this in a rather elegant way when searching for food. They only pay attention to visual features after they detect an odor that indicates the presence of a host nearby. This helps ensure that they don't waste their time investigating false targets like rocks and vegetation. Our next challenge is to uncover the circuits in the brain that allow an odor to so profoundly change the way they respond to a visual image."
The work provides researchers with exciting new information about insect behavior and may even help companies design better mosquito traps in the future. But it also paints a bleak picture for those hoping to avoid mosquito bites.
"Even if it were possible to hold one's breath indefinitely," the authors note toward the end of the paper, "another human breathing nearby, or several meters upwind, would create a CO2 plume that could lead mosquitoes close enough to you that they may lock on to your visual signature. The strongest defense is therefore to become invisible, or at least visually camouflaged. Even in this case, however, mosquitoes could still locate you by tracking the heat signature of your body . . . The independent and iterative nature of the sensory-motor reflexes renders mosquitoes' host seeking strategy annoyingly robust."
July 14 marks 50 years of visual reconnaissance of the solar system by NASA's Jet Propulsion Laboratory (JPL), beginning with Mariner 4's flyby of Mars in 1965.
Among JPL's first planetary efforts, Mariners 3 and 4 (known collectively as "Mariner Mars") were planned and executed by a group of pioneering scientists at Caltech in partnership with JPL. NASA was only 4 years old when the first Mars flyby was approved in 1962, but the core science team had been working together at Caltech for many years. The team included Caltech faculty Robert Sharp (after whom Mount Sharp, the main target of the Mars rover Curiosity, is named) and Gerry Neugebauer, professor of geology and of professor of physics, respectively; Robert Leighton and H. Victor Neher, professors of physics; and Bill Pickering, professor of electrical engineering, who was the director of JPL from 1954–1976. Rounding out the Caltech contingent was a young Bruce Murray, a new addition to the geology faculty, who would follow Pickering as JPL director in 1976.
"The Mariner missions marked the beginning of planetary geology, led by researchers at Caltech including Bruce Murray and Robert Sharp," said John Grotzinger, the Fletcher Jones Professor of Geology and chair of the Division of Geological and Planetary Sciences. "These early flyby missions showed the enormous potential of Mars to provide insight into the evolution of a close cousin to Earth and stimulated the creation of a program dedicated to iterative exploration involving orbiters, landers, and rovers."
By today's standards, Mariner Mars was a virtual leap into the unknown. NASA and JPL had little spaceflight experience to guide them. There had been just one successful planetary mission—Mariner 2's journey past Venus in 1962—to build upon. Sending spacecraft to other planets was still a new endeavor.
The Mariner Mars spacecraft were originally designed without cameras. Neugebauer, Murray, and Leighton felt that a lot of science questions could be answered via images from this close encounter with Mars. As it turned out, sending back photos of the planet that had so long captured the imaginations of millions had the added benefit of making the Mars flyby more accessible to the public.
Mariner 3 launched on November 5, 1964. The Atlas rocket that boosted it clear of the atmosphere functioned perfectly (not always the case in the early years of spaceflight), but the shroud enclosing the payload failed to fully open and the spacecraft, unable to collect sunlight on its solar panels, ceased to function after about nine hours of flight.
Mariner 4 launched three weeks later on November 28 with a redesigned shroud. The probe deployed as planned and began its journey to Mars. But there was still drama in store for the mission. Within the first hour of the flight, the rocket's upper stage had pushed the spacecraft out of Earth orbit, and the solar panels had deployed. Then the guidance system acquired a lock on the sun, but a second object was needed to guide the spacecraft. This depended on a photocell finding the bright star Canopus, which was attempted about 15 hours later. During these first attempts, however, the primitive onboard electronics erroneously identified other stars of similar brightness.
Controllers managed to solve this problem but over the next few weeks realized that a small cloud of dust and paint flecks, ejected when Mariner 4 deployed, was traveling along with the spacecraft and interfering with the tracking of Canopus. A tiny paint chip, if close enough to the star tracker, could mimic the star. After more corrective action, Canopus was reacquired and Mariner's journey continued largely without incident. This star-tracking technology, along with many other design features of the spacecraft, has been used in every interplanetary mission JPL has flown since.
At the time, what was known about Mars had been learned from Earth-based telescopes. The images were fuzzy and indistinct—at its closest, Mars is still about 35 million miles distant. Scientific measurements derived from visual observations of the planet were inexact. While ideas about the true nature of Mars evolved throughout the first half of the 20th century, in 1965 nobody could say with any confidence how dense the martian atmosphere was or determine its exact composition. Telescopic surveys had recorded a visual event called the "wave of darkening," which some scientists theorized could be plant life blooming and perishing as the harsh martian seasons changed. A few of them still thought of Mars as a place capable of supporting advanced life, although most thought it unlikely. However, there was no conclusive evidence for either scenario.
So, as Mariner 4 flew past Mars, much was at stake, both for the scientific community and a curious general public. Were there canals or channels on the surface, as some astronomers had reported? Would we find advanced life forms or vast collections of plant life? Would there be liquid water on the surface?
Just over seven months after launch, the encounter with Mars was imminent. On July 14, 1965, Mariner's science instruments were activated. These included a magnetometer to measure magnetic fields, a Geiger counter to measure radiation, a cosmic ray telescope, a cosmic dust detector, and the television camera.
About seven hours before the encounter, the TV camera began acquiring images. After the probe passed Mars, an onboard data recorder—which used a 330-foot endless loop of magnetic tape to store still pictures—initiated playback of the raw images to Earth, transmitting them twice for certainty. Each image took 10 hours to transmit.
The 22 images sent by Mariner 4 appeared conclusive. Although they were low-resolution and black-and-white, they indicated that Mars was not a place likely to be friendly to life. It was a cold, dry desert, covered with so many craters as to strongly resemble Earth's moon. The atmospheric density was about one-thousandth that of Earth, and no liquid water was apparent on the surface.
When discussing the mission during an interview at Caltech in 1977, Leighton recalled viewing the first images at JPL. "If someone had asked 'What do you expect to see?' we would have said 'craters'…[yet] the fact that craters were there, and a predominant land form, was somehow surprising."
Leighton also recalled a letter he received from, of all people, a dairy farmer. It read, "I'm not very close to your world, but I really appreciate what you are doing. Keep it going." Leighton said of the sentiment, "A letter from a milkman…I thought that was kind of nice."
After its voyage past Mars, Mariner 4 maintained intermittent communication with JPL and returned data about the interplanetary environment for two more years. But by the end of 1967, the spacecraft had suffered tens of thousands of micrometeoroid impacts and was out of the nitrogen gas it used for maneuvering. The mission officially ended on December 21.
"Mariner 4 defined and pioneered the systems and technologies needed for a truly interplanetary spacecraft," says Rob Manning (BS '81), JPL's chief engineer for the Low-Density Supersonic Decelerator and formerly chief engineer for the Mars Science Laboratory. "All U.S. interplanetary missions that have followed were directly derived from the architecture and innovations that engineers behind Mariner invented. We stand on the shoulders of giants."
Fast-moving magnetic waves emanating from a distant supermassive black hole undulate like a whip whose handle is being shaken by a giant hand, according to a new study involving Caltech scientists, which used data from the National Radio Astronomy Observatory's Very Long Baseline Array (VLBA) to explore the galaxy-black hole system known as BL Lacertae (BL Lac) in high resolution.
The team's findings, detailed in the April 10 issue of the Astrophysical Journal, mark the first time so-called Alfvén (pronounced Alf-vain) waves have been identified in a black hole system.
Alfvén waves are generated when magnetic field lines, such as those coming from the sun or the disk around a black hole, interact with charged particles, or ions, and become twisted, and in the case of BL Lac and sometimes for the sun, are coiled into a helix. In the case of BL Lac, the ions are in the form of particle jets that are flung from opposite sides of the black hole at near light speed.
"Imagine running a water hose through a slinky that has been stretched taut," says first author Marshall Cohen, professor emeritus of astronomy at Caltech. "A sideways disturbance at one end of the slinky will create a wave that travels to the other end, and if the slinky sways to and fro, the hose running through its center has no choice but to move with it."
A similar thing is happening in BL Lac, Cohen says. The Alfvén waves are analogous to the propagating transverse motions of the slinky, and as the waves propagate along the magnetic field lines, they can cause the field lines—and the particle jets encompassed by the field lines—to move as well.
It's common for black hole particle jets to bend—and some even swing back and forth. But those movements typically take place on timescales of thousands or millions of years. "What we see is happening on a timescale of weeks," Cohen says. "We're taking pictures once a month, and the position of the waves is different each month."
Interestingly, from the vantage of astronomers on Earth, the Alfvén waves emanating from BL Lac appear to be traveling about five times faster than the speed of light. "The waves only appear to be superluminal, or moving faster than light," Cohen says. "The high speed is an optical illusion resulting from the fact that the waves are traveling very close to, but below, the speed of light, and are passing just to the side of our line of sight."
Co-author David Meier, a visiting associate in astronomy and now-retired astrophysicist from JPL, added, "By analyzing these waves, we are able to determine the internal properties of the jet, and this will help us ultimately understand how jets are produced by black holes."
Other authors on the paper, "Studies of the Jet in BL Lacertae II Superluminal Alfvén Waves," include Talvikki Hovatta, a former Caltech postdoctoral scholar; as well as scientists from the University of Cologne and the Max Planck Institute for Radio Astronomy in Germany; the Isaac Newton Institute of Chile; Aalto University in Finland; the Astro Space Center of Lebedev Physical Institute, the Pulkovo Observatory, and the Crimean Astrophysical Observatory in Russia. Purdue University, Denison University, and the Jet Propulsion Laboratory were also involved in the study.
X-rays light up the surface of our sun in a bouquet of colors in this new image containing data from NASA's Nuclear Spectroscopic Telescope Array, or NuSTAR. The high-energy X-rays seen by NuSTAR are shown in blue, while green represents lower-energy X-rays from the X-ray Telescope instrument on the Hinode spacecraft, named after the Japanese word for sunrise. The yellow and green colors show ultraviolet light from NASA's Solar Dynamics Observatory.
NuSTAR usually spends its time investigating the mysteries of black holes, supernovae, and other high-energy objects in space. But it can also look closer to home to study our sun.
"What's great about NuSTAR is that the telescope is so versatile that we can hunt black holes millions of light-years away and we can also learn something fundamental about the star in our own backyard," said Brian Grefenstette, a Caltech research scientist and an astronomer on the NuSTAR team.
NuSTAR is a Small Explorer mission led by Caltech and managed by NASA's Jet Propulsion Laboratory in Pasadena, California, for NASA's Science Mission Directorate in Washington. JPL is managed by Caltech for NASA.