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Equations on ice

Equations on Ice


October 31, 2025
Above: Nash Ward, an undergraduate student in mathematics, drilling his first sea ice core. Credit: Nash Ward

A trip to the Arctic tests mathematical models.

Understanding the intersection of mathematics, physics, biology and environmental science often requires stepping outside of the classroom and into the natural world. For Jody Reimer, assistant professor in the Department of Mathematics and the School of Biological Sciences, and Ken Golden, distinguished professor in the Department of mathematics and adjunct professor in the Department of Biomedical Engineering, this means venturing out into the Arctic where they can study how the physical environment affects life in and on the ice with the help of mathematical models.

In May of 2024, Golden and Reimer co-led a field research trip to Utqiaġvik, Alaska. Though a fairly regular excursion, especially for Golden who has had 19 excursions to the frozen poles of our world, this one was special. The researchers were accompanied by a varied team of mathematics students ranging from high schoolers to Ph.D. candidates, providing them invaluable hands-on experience in the unique and extreme conditions of the Arctic ecosystem. It was an opportunity to test mathematical models and field techniques. It was also a rare chance for students to develop a deeper understanding of polar research.

On the ice

Reimer focuses on how changes in sea ice impact polar bear and seal populations and how these animals respond to those changes. She is also fascinated by the microbes that inhabit the ice itself and the adaptations that allow them to survive in such a harsh environment. Golden’s research focuses on the complex multiscale physical properties of the ice, from modeling macroscale ice floe dynamics down to calculating the porosity and permeability of its microscale brine inclusions. Together, Reimer and Golden are exploring the complex interplay between physics and biology.

This interplay goes far deeper than one might expect, as Golden is able to make ties from astrobiology to military stealth technology and everything in between. He eagerly explains that “The math doesn’t care! It cross-pollinates all over the place. The same mathematics we use to analyze how algae get nutrients from the brine phase can be used to monitor the onset and progress of osteoporosis in human bone!”

This interdisciplinary work is why mathematics research is so critically important. It discovers patterns and correlations that ripple across the scientific community, providing the best possible tools to make new breakthroughs.

Reimer holding a freshly extracted ice core.

The 2024 outing was the largest field team ever led by Golden and Reimer’s first time leading a field research expedition. Because of this, organizing the trip proved to be both a complex task and a valuable learning experience. There was the logistical planning and coordination with university legal teams since students were being introduced to harsh conditions which necessitated every safety protocol possible. The group also needed to acquire land use permits from the local Iñupiat groups of indigenous peoples. Students played a hands-on role in this process, packing equipment and troubleshooting issues in the field. Working with the Barrow Arctic Research Center (BARC), which provided accommodations and some logistical support, the stars were aligned to allow for a successful expedition.

Moving so much equipment across the ice had to be done carefully, especially with the occasional polar bear stopping by to say hello. Once out in the field, these mathematicians braved the Arctic cold in springtime — wind chill dropped to as low as 20° below 0 F on their first day — to carry out experiments linking their mathematical models to real-world observations.

Watching math students immerse themselves in field research was one of Reimer’s favorite parts of the trip. She has earlier explained that “Mathematics isn’t relegated to the realm of puzzles and isolated problems. There’s fundamental and deep connections that affect all regions of life.” Research like this perfectly demonstrates these connections, reinforcing her belief in the value of interdisciplinary integration as a crucial step in advancing applied mathematics.

Microscopic view of ice algae

This integration is especially relevant in the modern day with the advancement of technology which was a major feature of this trip as new programs and equipment could finally be tested. One such highlight was a tool called a PlanktoScope, an open-source and portable imaging device that allows researchers to analyze microbial life in sea ice samples.

More affordable than traditional flow microscopy equipment, this tool allows for broader access to high-quality image data collection. In Reimer’s lab, she and her students have since been analyzing the living organisms in the frozen samples they brought back from the Arctic. A few of these scientists are taking that technological integration a step further, processing the resulting images using AI-based tools that help sort and analyze thousands of microscopic snapshots of life hidden in the ice.

The trip’s success underscores the importance of hands-on fieldwork in mathematical research. Measurements that were collected align with the existing literature and will serve as pilot data for future projects and funding proposals. By blending mathematical modeling with empirical observation, students and faculty alike gain valuable insights into complex environmental systems.

Golden and Reimer have been analyzing the data they collected in the Arctic for a year now and are well on their way planning the next expedition. “We’re laying the groundwork for a broader suite of physical measurements, and ramping up on the biological side of things,” says Golden. This expands on their findings and further explores the intricate relationships between ice, living beings, and the rapidly changing polar marine environment.

Funding for this trip was provided by the National Science Foundation through the Applied Math Research Training Grant. The agency provided funding for two trips with the second planned for next year. And, thanks to the work that’s been done so far, this follow-up expedition is shaping up to be something truly special.

by Izabella Bourland and Michael Jacobsen

This is the cover story of Aftermath, the official publication of the Department of Mathematics at the University of Utah.

Aftermath 2025

Aftermath 2025


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Seismology meets botany

Seismology meets botany


October 28, 2025
Above:Saguaro at Arizona’s Organ Pipe National Park. Photo credit: Brian Maffly.

Towering structures must be able to bend and sway when subjected to the forces of wind and ground movement, or they will topple, whether it’s a building, a geological formation, tree—or even a cactus.

 

Especially if that cactus is a lofty saguaro, or Carnegiea gigantea, those iconic denizens of the American Southwest.

Jeff Moore

Jeff Moore, a University of Utah geologist specializing in geohazard assessment, grew up in the heart of saguaro country in Arizona. In his most recent research, he repurposed his geophysical toolbox for studying rock formations to analyze the dynamic properties of saguaro and how these giants respond to vibrations in their environment.

This detour into botany applied vibration analysis Moore developed for southern Utah’s natural arches, bridges and towers in completely new ways that could help scientists better understand  the structural properties of large, water-storing plants without harming them.

“Saguaros have always been in my life,” Moore said. “These cacti have really strong cultural value and that helps motivate a scientific study.” Saguaro are keystone species of the Sonoran Desert. They grow up to 70 feet tall and hundreds of years old. “There’s an ingrained culture of respect for these great cacti.”

His study, published last week in the American Journal of Botany introduces a new, noninvasive way to measure how living saguaro respond to transient disturbances, such as wind and ground movements, without defacing these beautiful giants. He put the techniques to work on 11 cacti of varying heights in the Tucson Mountains outside his eponymous hometown.

By analyzing these “ambient vibrations,” Moore was able to determine each cactus’s natural resonance frequencies, or the specific rates at which they sway, and how their flexibility and stiffness change with height, time of day and water content.

Saguaro’s range extends from central Arizona to the Mexican state of Sonora. They grow slowly, with branches appearing after around 60 to 75 years. Their pleated trunks are covered in a thick, pliable skin armored with 2-inch spines.

“Saguaros are unique in that their morphology allows them to expand, to take up great quantities of water when it’s available during monsoons and withstand periods of drought,” Moore said. In a time-lapse video, their stems can be seen swelling as they draw water, which would presumably alter their resonance frequencies.

Moore was visiting family in Arizona when it dawned on him that he should apply his vibration-measuring methods to characterize the mechanical properties of the towering cacti. Tucson Mountain Park gave him permission to conduct research at Pima County’s 20,000-acre preserve adjacent to Saguaro National Park. He spent a day rigging a light-weight seismometer to 10 cacti, selecting a representative sample in terms of height. All were single-column saguaro, known as “spears.”

“It was really important to be able to compare them, these so-called spears, as they’re called when they don’t have arms. The smallest was about two feet tall, and the tallest was nearly 25 feet.” The seismometer was gently hung from each stem using a strap at about chest height.

He recorded just 15 minutes of seismic data on each cactus, which showed their resonance frequencies ranged from 0.55 to 3.7 Hz, with damping ratios between 1 and 2%. (Hertz, or Hz, is a standard unit of frequency, defined as the number of times an object completes an oscillation each second. The damping ratio indicates how quickly oscillations taper off following a disturbance.)

The study found each saguaros’ resonance and stiffness varied widely across the height of its column. Generally, they were stiffer near the bottom and more flexible at the top.

“Saguaros vibrate much like a cantilever, but with some interesting differences,” Moore wrote on Bluesky. “Stiffness varies between cacti (taller stems are stiffer), and for a single stem (taller stems have softer tops).”

Read the full story by Brian Maffly in @ The U.

SRI Streams in Museum Research

SRI Streams in museum Research


October 22, 2025
Above: SRI research streams lower barriers for first- and second-year students to experience science firsthand, fostering a culture of discovery and collaboration earlier in their academic journey.

There’s a special kind of camaraderie among the student body at a university. Bound by similar goals and shared anxieties, students have an unspoken agreement to fumble and succeed together.

This collective drive has the power to push discovery forward—but when paired with the resources and mentorship of institutions like the Natural History Museum of Utah (NHMU), it can truly flourish.

Joining the Current

Zoe Kitson attempting to check results from PCR for the first time.

I recently met two University of Utah students — Isabella Calhoun and Zoe Kitson — who are among the 12 being mentored this semester by Postdoctoral Researcher Fellow Susana Velasquez-Franco. I found them in the Museum’s mycology lab, mid-battle with an extremely intricate process called Polymerase Chain Reaction (PCR). This method is used to amplify DNA segments to generate enough material for thorough study. Using multi-channel pipetting for the first time, Isabella and Zoe were attempting to use PCR to create copies of extracted ancient environmental DNA (sedaDNA) from a genuine set of Museum samples. The samples were collected last year from the Cerro Machín Volcano in Colombia by Velasquez-Franco and NHMU Curator of Botany Mitchell Power, and they contain a more-than-3,600-year-old, organic-rich record called gyttja. A gyttja record is a rare and valuable find! This was the moment I managed to walk into — a time when concentration was critical and stakes felt high.

Calhoun and Kitson are just beginning to gain lab experience in genetics and were understandably nervous about working with original samples — a sentiment shared by many students. However, they expressed their excitement for being immersed in and contributing to veritable experimental research.

Students from a wide range of academic disciplines can engage with Museum research through two main avenues: the University’s College of Science program, Science Research Initiative (SRI), or their home department, committing a minimum of 5 – 10 hours a week to active research. Both Calhoun and Kitson are engaged in Velasquez-Franco’s SRI Lake’s Memory research stream. Each stream is a focused scientific study for first- and second-year students, led by a university mentor and funded by SRI. Velasquez-Franco’s stream, jointly supported by SRI and NHMU, has transformed the Museum’s biology and paleoecology labs into research classrooms, giving students hands-on experience while advancing her work on the Cerro Machín record.

Channeling Curiosity

Zoe Kitson (a former student) with another student and Susana Velasquez-Franco opening and subsampling the Cerro Machín wetland record in the Clean Ancient DNA Lab on campus.

The stream centers on one big question: how has the biodiversity in volcanic landscapes in the Andes recovered after being impacted by volcanic and climatic-driven disturbances? Students are helping to uncover the answer as they learn to gather and analyze data and apply those results to the real world—and they’re tackling big projects as they do so! They are reconstructing wildfire history using records from volcanic wetlands, tracing biodiversity through ancient environmental DNA found in sedimentary cores, and analyzing chemical makeups of ancient volcanic ash deposits. The latter being the more complex and potentially dangerous task, requiring precise chemistry and strict safety protocols. “It’s quite risky work, but you can see their joy,” states Velasquez-Franco.

For students, the benefits extend far beyond technical training. A research stream offers an early glimpse into the realities of science, with all its ups and downs — an opportunity typically reserved for juniors and seniors. It pushes students outside of their comfort zones earlier in their career, helping them build confidence, strengthen problem-solving skills, and fuel their curiosity. Plus, with the program’s emphasis on collaboration, students are not only learning alongside their peers but also finding community among them. Thanks to NHMU’s interdisciplinary nature, they likewise connect and collaborate with several experts across fields; this stream alone involves botanists, mycologists, paleoecologists, and geochemists. These cross-disciplinary connections enrich students’ understanding of science and may help them discover where they belong within it.

Mitchell Power and Susana Velasquez-Franco coring Laguna de San Diego in November 2024.

Along the way, their work is contributing to current-day discoveries. What Calhoun and Kitson are doing with ancient environmental DNA is a growing area of research. There are many who are attempting various methods of extracting sedaDNA, trying to overcome the challenges of DNA contamination and degradation. Susana attempted this twice before with little success. However, when she cored the Cerro Machín wetland, what she found surprised her: “My mind was blown — you can pull complete plants out of the core, even if they are over 1,000 years old!”  Using this new gyttja record, which promised richer data, she refined her approach with the help of NHMU Curator of Mycology Bryn Dentinger, who has experience with the specialized methods and equipment she needed. She then invited students to join in, turning the labs into a buzzing hub. This type of project demands significant resources — equipment, samples, and funding — that are rarely accessible outside of an established institution like NHMU. For students, it’s a once-in-a-lifetime opportunity, and they’re thrilled to be a part of it.

The energy these students bring to the lab is contagious. Velasquez-Franco has been working at the Museum for seven years, and this is the first time she’s seen the labs so alive. These students are working side by side every day — trying, failing, learning, and succeeding together. This is where discovery flourishes.

Read the full story by Cosette Reeves at NHMU.

Joy of simple experiments leads to impact

Joy of Simple Experiments leads to impact


October 29, 2025
Above: Jamie Gagnon

“I hope our research is valuable because some of the specific insights we make might ultimately help us think about treatments for humans,” says newly announced University of Utah Presidential Scholar Jamie Gagnon. “But I think our greatest impact will be sharing the joy of scientific discovery with the world and helping them see the joy of simple experiments.”

One of three scholars announced October 29, 2025 by U President Taylor Randall, Gagnon is Associate Professor in the School of Biological Sciences and a former recipient of the Mario Capecchi Endowed Chair. The other two are biochemist Katsu Funai and Lauren Barth-Cohen, associate professor in educational psychology and adjunct associate professor in the Department of Physics & Astronomy in the College of Science.

“What connects this year’s Presidential Scholar cohort is their commitment to turning research into real-world impact,” says Randall. “Whether uncovering how zebrafish heal, how our metabolism adapts to modern life or how science is learned, each of these scholars is advancing knowledge and discovery with the power to change lives.”

The esteemed cohort of awardees has been given this honor because of their exceptional potential and significant contributions to scholarship, education and outreach at the U.

“Our Presidential Scholars embody the spirit of curiosity and collaboration that defines the U,” says Bob Carter, MD, CEO for U of U Health and executive vice president for health sciences. “Their work not only deepens our understanding of human health and learning but also paves the way for innovations that will improve lives across Utah and beyond.”

This award is accompanied by $10,000 in funding, provided by an anonymous donor, each year for three years. Recipients can use these funds at their own discretion to support their scholarly, teaching and/or outreach activities. The U hopes that this will recognize the achievements of mid-career faculty, support efforts to further their research missions and enhance retention.

Gagnon is interested in learning how animals change as they grow, age and face challenges in their environment. Using the zebrafish as a model organism, he manipulates their genes, cells and environments to better learn how vertebrates function when faced with specific problems, such as injury, aging and infection. He runs the Gagnon Lab, which employs students who get to conduct projects of their own. Recently, one of those students conducted research that led to the lab discovering how zebrafish create their own sunscreen to protect themselves from harmful UV radiation—a skill Gagnon hypothesized has been lost in mammals.

“I am proud of these scholars and the work they do to learn more about issues that impact our community,” Executive Vice President for Academic Affairs Mitzi Montoya said. “Their findings can help us build a brighter, healthier future.”

Adapted from the announcement by Emma Campbell - Communications Specialist, Office of the Executive Vice President for Academic Affairs

SRI Stories: Tiny Subjects, Mitey Impacts

SRI Stories: Tiny Subjects, Mitey Impacts


October 29, 2025
Above: Richard Clark

To those outside the loop, the importance of scientific studies into topics like rocks, insects and other abundant everyday objects may seem small.

But such studies are among the most critical to pursue. Something common enough to have daily effects is, well, having daily effects! In the case of plant-herbivore biologist Richard Clark the subject is spider mites, miniscule creatures that have colossal effects on our agricultural industry.

Clocking in at a measly half a millimeter in length, these unassuming arthropods are everywhere around us. That’s not an exaggeration, as Clark explains that “I could probably go to any neighborhood or agriculture area in Utah and find them in 20 minutes.” You can probably find the effect of their presence in a short time as well. Their mosquito-esque draining of a plant’s nutrients leaves noticeable white splotches on the plants they feed off, a clear sign that a crop plant’s days are numbered. And some mites that are related to spider mites take further inspiration from mosquitos by carrying and spreading plant viruses. As small as they are, spider mites and their relatives can drastically reduce crop yields even if they don’t kill the plants outright.

Clark’s interest in this important research grew from humble roots: an interest in bird watching springing into the academic study of life sciences, where he became attracted to molecular biology. This would eventually lead to the study of herbivorous arthropods, whose adaptations to plants are a challenge to untangle at the molecular and genetic levels. Most plants produce some type of toxin to discourage herbivores from eating them, but with their short reproductive cycles mites can often adapt to the toxins thrown their way. This causes quite a few problems when trying to deter them from eating crops, as the line between what destroys the mites and what damages everything else is very small.

But that’s where Clark’s SRI stream, Genomics of Spider Mite Host Adaptation, has proven so useful. He and his students scour the genomes of several species of mites to try and uncover which of their chemosensory receptor genes recognize the plants they can feed and grow on. Identifying such receptors could lead to the potential of blocking them, deterring them from certain plants altogether as they can no longer recognize them. And as those plants would be allowed to flourish, so too are the students studying them, acquiring skills useful for biology, biotech, science communication and everything in between. 

Like so many areas of science, from DNA to viruses to Clark’s spider mites, it’s imperative to remember that the size of the subject models does not reflect the importance of understanding them. They may be small, but progress in the fields of this research will have mighty impacts on the world around us.

By Michael Jacobsen

SRI Stories is a series by the College of Science, intended to share transformative experiences from students, alums, postdocs and faculty of the Science Research Initiative. To read more stories, visit the SRI Stories page.

 

Gen Z and AI use in STEM

Gen Z and AI use in STEM


October 24 2025
Above: Yao-Yuan Mao

Teaching Fellow Yao-Yuan Mao will develop new approaches to how students use artificial intelligence in class. 

“The increasing capability and availability of generative Artificial Intelligence (AI) tools have brought new challenges in our classrooms, especially for computing courses,” says astrophysicist Yao-Yuan Mao. “New pedagogical approaches are clearly needed, and while general guidance does exist, specific implementation depends on our understanding of how Gen Z students use AI tools in class.”

Mao, an assistant professor in the Department of Physics & Astronomy at the University of Utah, was recently selected as a Martha Bradly Evans Teaching Fellow. The fellowship will allow them to develop these new approaches in two phases, the first involving a "field study" in the Computational Laboratory for Classical Mechanics in the Department of Physics and Astronomy.

In the lab, explains Mao, their team will observe how students utilize AI tools for computational tasks. “An undergraduate researcher will document these interactions as a bystander, without participating in student evaluation at all.”

In the second phase, Mao further explains, their team will develop pedagogical guidelines, recommendations and materials based on the field study results, specifically tailoring them for physics computing instructors. “The final product will be a well-structured document containing the field study findings, the detailed pedagogical guidelines and recommendations and a collection of adaptable example course materials.”

Using AI 'responsibly and productively'

Mao’s colleague Jordan Gerton sees the work Mao is proposing as developing a deeper understanding of how AI is being used by students and instructors, “to help students learn to use AI responsibly and productively."

Another colleague Kyle Dawson agrees: "This award recognizes the foresight that Professor Mao has beyond the material for those classes and into how advances in computation such as AI impact our overall educational mission."

Outside of the classroom, Mao’s research work advances the discovery and understanding of low-mass galaxies, Mao’s use of the powerful Rubin Observatory allows them to search for these faint objects, likely increasing the number of known low-mass galaxies by a hundred-fold over in the coming years.

Ben Bromley, also a professor in the department of Physics and Astronomy, explains how these galaxies are “cosmic gems” as they are composed of considerably more dark matter per star than other galaxies more familiar to us like our own, much larger, Milky Way. “That makes each elusive low-mass galaxy that Yao discovers a great laboratory for exploring dark matter’s properties,” says Bromley.

'No-risk, high-reward effort'

Bromley further explains his colleague’s intriguing finds that they serve as key building blocks of bigger galaxies. “Yao's low-mass galaxies together will help transform our understanding of galaxy formation and the emergence of the cosmic web of structure that extends across the universe.” Despite their small size, he says, “Yao’s galaxies can track where mass is, where it’s going and how it is organizing into larger and larger structures. In this way they are like weather balloons, giving key bits of information that help us paint the big picture.”

That Mao is equally adept as a researcher as they are as an instructor and mentor in the classroom, for which they are being recognized by the Bradley Fellowship, perhaps provides the perfect combination for exceptional undergraduate education and learning. This project also fits in nicely with the ongoing discussion of AI in Education hosted by the College’s Center for Science and Mathematics Education.

Concludes Bromley, “The project envisioned by Yao for the [Martha Bradley Evans Center for] Teaching Excellence award, is an inspired no-risk, high-reward effort that will help guide both students and us faculty through uncertain straits ahead.”

By David Pace

For a full list of this year’s 2024-25 Fellows awarded by the Martha Bradley Evans Center for Teaching Excellence at the University of Utah, click here.

 

 

 

 

 

 

 

 

 

Frontiers of Science: Katherine Freese

Frontiers of Science Lecture Series Presents

The Mystery of Dark Matter in the Universe

with Dr. Katherine Freese

Director, Weinberg Institute for Theoretical Physics, University of Texas at Austin

Event Details

Wednesday, December 3, 2025 | 6:30 p.m.
L. S. Skaggs Applied Science Building, University of Utah
275 S. University Street, Salt Lake City

The ordinary atoms in our bodies, air, planets, and stars make up only 5% of the universe. The remaining 95% is a cosmic recipe of 25% dark matter and 70% dark energy—both invisible and still mysterious. Freese will trace the dark matter puzzle from visionary 1930s scientists who first proposed it, to Vera Rubin's 1970s observations that proved its dominance in galaxies, to today's cutting-edge experiments in underground labs, space satellites, and the Large Hadron Collider.

What is dark matter? Leading candidates include WIMPs (weakly interacting massive particles), axions, and even primordial black holes. Billions of these particles pass through our bodies every second undetected, yet their gravity whirls stars around galaxies at breakneck speeds and bends light from distant objects. In this Frontiers of Science lecture, Freese will share the evidence for dark matter and discuss Dark Stars—early stars powered by dark matter that may have already been spotted by the James Webb Space Telescope. Solving this mystery will mark a defining moment in our quest to understand the universe.

Following the lecture, join us for a dessert reception and stargazing at our weekly star party on the Willard Eccles Astronomy Observatory rooftop.

Parking & RSVP

Frontiers of Science is the longest continuously running lecture series at the University of Utah. This event is free to the public and RSVPs are not required, but encouraged, by November 26. Parking for this event is available in the parking lot east of the S.J. Quinney School of Law. Guests are also welcome to park in Presidents Circle.

Frontiers of Science: Katherine Freese
Will you be bringing a guest (or guests)?

About Our Speaker:

Katherine Freese is the Director of the Weinberg Institute for Theoretical Physics as well as the Jeff & Gail Endowed Chair of Physics at the University of Texas, Austin. She is also Guest Professor of Physics at Stockholm University, where she received a $13M grant over ten years (2014-2024) for research in Cosmoparticle Physics. She served as Director of NORDITA, the Nordic Institute for Theoretical Physics, from 2014-2106.  She works on a wide range of topics in theoretical cosmology and astroparticle physics. She has been working to identify the dark matter and dark energy that permeate the universe as well as to build a successful model for the early universe immediately after the Big Bang. She is the author of a book The Cosmic Cocktail: Three Parts Dark Matter, published in June 2014 by Princeton University Press.

Freese received her B.A. in Physics from Princeton University in 1977 (where as far as she knows she was the second female physics major); her M.A. in Physics in 1981 from Columbia University; and her Ph.D. in Physics in 1984 from the University of Chicago, where she was the recipient of the William Rainey Harper Award Fellowship. She held postdoctoral positions at the Harvard/ Smithsonian Center for Astrophysics, the Institute for Theoretical Physics in Santa Barbara, and a Presidential Fellowship at the University of California, Berkeley. She was an Assistant Professor at MIT from 1987-1991, where she was the recipient of a SLOAN Foundation Fellowship. Then she moved to the University of Michigan (as the first woman to be hired onto the faculty ) from 1991-2019 where she was awarded the NSF Presidential Young Investigator Award from 1990-1995 and was named George E. Uhlenbeck Professor of Physics.

For more information about Dr. Freese, visit katherinefreese.com.

David Goldenberg: Bridging Physics and Biology

David Goldenberg: Bridging Physics and Biology


October 23, 2025
Above: David Goldenberg in front of Ludwig Boltzmann’s grave, Vienna, with his bust and the famous equation.

When David Goldenberg arrived at the University of Utah's School of Biological Sciences in 1985, he brought with him a passion for understanding one of biology's most fundamental mysteries: how proteins fold.

Over his remarkable 40-year career, Goldenberg would become not only a distinguished researcher at the forefront of biophysical chemistry but also a devoted educator who helped shape the undergraduate experience for countless students.

His colleague David Blair, who first met Goldenberg in 1990 during his own faculty interview, remembers being picked up at the airport by his future colleague. "We went for a beer," Blair recalls. "We talked about the thermodynamics of water. It's not a typical over-the-beer conversation, but it was fun."

That conversation was quintessentially Goldenberg—a scientist inspired by the fundamental forces that govern life itself.

At the Physical Edge of Biology

The School of Biological Sciences is one of the largest academic units at the U with interests and programs spanning from molecular biophysics to global ecology and Goldenberg occupied a unique position as "the extreme biophysical end of the department" which in 2018 became a school. To illustrate this point during his retirement tribute in May 2025, Blair shared a quote from one of Goldenberg's papers: "In the context of pure populations, the product operators are shown to represent quantum correlations between the nuclei and individual molecules, and a new variation on the classical vector diagram is introduced to represent these correlations."

"Very biophysical. It has to do with NMR," Blair explains. "The joke was, who understands this, right? And I knew literally no one in the audience would truly understand that."

Yet this technical sophistication never isolated Goldenberg from his colleagues. "He's always been a natural fit," Blair notes, "in spite of his very physical character, in the sense that he also has an appreciation for genetics and evolution."

Master of Mutations and Disulfide Bonds

Goldenberg's research focus on protein folding—understanding how linear chains of amino acids fold into specific three-dimensional structures that determine function — was groundbreaking in its approach. He became "well known for" using "genetic approaches to studying protein folding," as Blair puts it, citing another paper: "Mutational analysis of a protein folding pathway ... destabilizing amino acid replacements at different sites in the protein can have distinct effects on the kinetics and equilibria of different steps in a protein folding reaction."

"That's almost plain English," Blair observes with a smile. "It's accessible to everyone."

Goldenberg's work often centered on bovine pancreatic trypsin inhibitor (BPTI), a small but well-folded protein stabilized by multiple disulfide bonds. These chemical linkages provided what Blair describes as "tools" and "access to the folding pathway," because they form at different rates during folding and contribute differently to protein stability. This work made Goldenberg "very expert in the chemistry of thiol disulfide equilibrium reactions."

A Career Spanning Revolutionary Change

Goldenberg's career coincided with an explosion in structural biology. As Blair notes, "When he was three years old, the first protein structure was solved" — myoglobin, determined by X-ray crystallography and worthy of a Nobel Prize. "When he came here, there were 150 protein structures known. And now, after his 40-year career, there are more than 200,000 protein structures known experimentally."

Even more remarkably, Goldenberg witnessed the emergence of artificial intelligence solutions to the very problem that had driven his research. While structural biology originated with the discovery of X-ray diffraction in the early 20th century, which led to the determination of the first protein structure (myoglobin) in 1958 and the DNA double-helix in 1953, today, programs like AlphaFold can now predict protein structures from amino acid sequences alone — "the definition of the protein folding problem," as Blair explains.

AlphaFold has predicted the structures of more than a billion proteins, sometimes discovering entirely new folding patterns. Clearly, the field both men have been enmeshed in as researchers, has been transformed by technology. "AlphaFold knows more than we do," says Blair.

Conscience of the Department

Beyond research, Goldenberg dedicated himself to undergraduate education, serving for years as Associate Director of Undergraduate Programs. Blair describes him as someone who helped "organize the curriculum" and "keep the undergraduates calm to the extent possible" in a large, diverse school serving students with interests ranging from pre-med to research.

“David was … an incredible mentor to me during our work on managing the undergraduate curriculum,” says Naina Phadnis, assistant director of undergraduate programs. “I learned so much from him — he is the most thoughtful and thorough person I have worked with, giving even the smallest tasks careful consideration.” Significantly, Goldenberg navigated undergrad education in biology through the Covid pandemic beginning in 2020.

Earlier, in 2009, Goldenberg received the College of Science Professorship—the award's inaugural year — for developing an integrated curriculum that bridged traditional separations between chemistry, physics and biology. His course, "Physical Principles of Biology," reflected both "his intellectual foundations and his taste" and "his belief that we should unify these different parts of the College of Science."

Blair also remembers Goldenberg as "the conscience of the department" in faculty meetings, "the person who will voice the semi-obvious, uncomfortable issue." In 2020, Goldenberg joined many prominent scientists in signing a letter to the academic journal Science entitled "Uphold the Nuclear Weapons Test Moratorium," underscoring his scientific rigor with his signature social conscience.

“I was fortunate to work with David when I began my role as Director of the School of Biological Sciences,” says Fred Adler. "He brought a deep understanding of the working of the University of Utah on par with his understanding of the only slightly less complex topic of nuclear magnetic resonance. With his fierce intelligence and uncompromising moral compass, David had the initially annoying habit of always being right, which I came to appreciate more and more as I learned.”

Stimulating Conversations

The relationship between Blair and Goldenberg, whose labs were located near each other for years, was built on regular lunch conversations that Blair describes as "stimulating." These discussions often broached fundamental questions about what stabilizes proteins — “memorable” conversations because they concerned "aspects of what stabilizes proteins that are not obvious, not well known."

Blair recalls Goldenberg sharing insights about the hydrophobic effect, which stabilizes proteins by driving water-avoiding molecules to the protein interior. At higher temperatures relevant to extremophile organisms, this fundamental process actually reverses its physical basis—a discovery that fascinated Goldenberg because "life probably originated and initially evolved at very high temperature."

"It's an example of his taste," explains Blair. "Something that's really very fundamental, and that is mathematical technical, but its essence is very simple and easy to communicate, and very important."

Lasting Legacy

As Goldenberg enters retirement, he continues to contribute to the university community. He's organizing his teaching notes from courses including "Physical Principles of Biology" to make them available online for other instructors, and his richly illustrated book, "Principles of NMR Spectroscopy" published in 2016 continues to have a following among graduate students and advanced undergraduates in the field of chemistry, biochemistry or biology.

For his retirement, Blair had suggested Goldenberg start a microbrewery with a beer named "S = k ln W" — Boltzmann's fundamental equation for entropy that's "engraved on Boltzmann's tomb."

It's a fitting tribute to a scientist who found beauty in the mathematical foundations of life itself.

 

by David Pace

Preserving atmospheric oxygen in sulfate

Preserving atmospheric oxygen in sulfate


October 22, 2025

New research led by U geoscientist shows O₂ in sulfate deposits, coupled with geochemical clues, could help identify microbial activity in Earth’s rock record and even in Martian sediments

Issaku Kohl

Because oxygen-bearing sulfate minerals trap and preserve signals from Earth’s atmosphere, scientists closely study how they form. Sulfates are stable over billions of years, so their oxygen isotopes are seen as a time capsule, reflecting atmospheric conditions while they were evolving on early Earth—and possibly on its planetary neighbor Mars.

A new NASA-funded study led by a University of Utah geochemist examines how sulfate forms when pyrite, commonly known as “fool’s gold,” is oxidized in environments teeming with microbes versus those without them. The researchers focused on Spain’s Rio Tinto, a contaminated river passing through a region where iron and copper were mined for thousands of years. What’s left in the hills of Andalusia may be an environmental calamity, but scientists now regard it as an analog for what the Martian surface may have once been like.

This acidic mine drainage is rich in sulfates and bacteria known to oxidize both sulfur and iron. The research team measured the “triple oxygen isotopes” (ratios of 17O/16O and 18O/16O) in sulfate to figure out how much of the oxygen comes directly from air compared to water.

“This is the first time where we’ve seen outdoors, not in the lab, that we can perpetuate this direct reaction between O2 and pyrite sulfur if the environmental conditions are just right,” said lead author Issaku Kohl, associate research professor in the Department of Geology & Geophysics. “Because we’ve been able to identify that niche, we now have geochemical markers or criteria that would allow you to find a similar environment or remnants of a similar environment in the rock record, either on Earth or in an extraterrestrial setting.”

The study homed in on a bacterium called Acidithiobacillus ferrooxidans, believed to be among the earliest clades of microbes, potentially producing energy prior to the evolution of photosynthesis. The research team discovered that in microbe-rich, acidic environments, A. ferrooxidans drives pyrite oxidation in a way that preserves a remarkably high amount, exceeding 80% and up to 90%, of atmospheric oxygen (O₂) in sulfate.

Unlike lab experiments, where this signal fades quickly as sulfate incorporates O₂ from water, the Rio Tinto microbial-active ecosystem maintains this strong atmospheric imprint.

Researcher Issaku Kohl recorded the video below at a historic mining district in Spain, which scientists now an analog for the surface of Mars. It shows the mixing zone on the Rio Tinto, where green water, rich in the Fe2+ ion of iron, containing very high O₂ content sulfate, is discharging from a mine tailings pile. This water is mixing into the river’s main branch red waters, where most of the iron occurs as Fe3+ and sulfate oxygen is mostly sourced from water.

Accordingly, sulfate deposits don’t just preserve atmospheric and environmental conditions—they may also carry a microbial “biosignature.” Such signatures could help scientists interpret sulfate minerals on Mars or in ancient Earth rocks as a potential record of both atmospheric conditions and microbial activity.

Martian sediments hosted evaporites containing abundant sulfate minerals, but scientists don’t yet know how those sulfates formed.

“The current favored hypothesis is that it’s through atmospheric oxidation of volcanic sulfur dioxide (SO₂). But environments like that have telltale geochemical signatures that indicate whether this was likely aerosolized and oxidized in the atmosphere at relatively high temperature and therefore, unlikely to have had life involved,” Kohl said.

by Brian Maffly

You can read the full story in At the U.