Science & Technology

Dr. Sritha Rajupet. Photo from Stony Brook Medicine/Jeanne Neville

By Daniel Dunaief

While many people are fortunate enough to ignore Covid or try to put as much distance between themselves and the life altering pandemic, others, including people throughout Long Island, are battling long Covid symptoms that affect the quality of their lives.

Dr. Sritha Rajupet
 Photo from Stony Brook Medicine/Jeanne Neville

Sritha Rajupet, Director of the Post-Covid clinic at Stony Brook Medicine and Chair of Family, Population & Preventive Medicine, puts her triple-board certified experience to work in her efforts to provide relief and a greater understanding of various levels of symptoms from Covid including pain, brain fog, and discomfort.

Rajupet serves as co-Principal Investigator, along with Dr. Hal Skopicki, chief of cardiology and co-director of the Stony Brook Heart Institute, on a study called Recover-Autonomic.

This research, which uses two different types of repurposed treatments that have already received Food and Drug Administration approval in other contexts, is designed to help people who have an autonomic nervous system disorder called Postural Orthostatic Tachycardia Syndrome. People with this syndrome typically have a fast heart rate, dizziness or fatigue when they stand up from sitting down.

Stony Brook is contributing to a clinical trial for two different types of treatments, each of which has a control or placebo group. In one of the trials, patients receive Gamunex-C intravenous immunoglobulin. In the other, patients take Ivabradine by mouth.

Stony Brook has been enrolling patients in this study since the summer. The intravenous study is a nine-month trial.

Some improvements

Dawn Vogt, a 54-year-old Wading River resident, is enrolled in the intravenous trial.

While Vogt, who has been a patient of post Covid clinic since November of 2022, doesn’t know whether she’s getting the placebo or the intravenous treatment, she has been feeling better since entering the study.

Dawn Vogt in 2018.

The owner of a business called Office Solutions of Long Island, Vogt has been struggling for years with body aches, headaches, fever, stomach pain, fatigue and coughing.

“I’m definitely feeling better,” said Vogt, whose Covid fog can become so arduous on any given day that she struggles with her memory and her ability to put words together, as well as to engage in work that required multitasking.

“I’m a big puzzle person,” said Vogt. “[After Covid] I just couldn’t do it. It was and still is like torture.”

Still, Vogt, who was earning her undergraduate degree in women and gender studies at Stony Brook before she left to deal with the ongoing symptoms of Covid, feels as if several parts of her treatment, including the clinical trial, has improved her life.

Since her treatment that started during the summer, she has “definitely seen improvement,” Vogt said.

Dawn Vogt in 2023.

In addition to the clinical trial, Vogt, who had previously run a half marathon, received a pace maker, which also could be improving her health. “I’m starting to have more energy, instead of feeling exhausted all the time,” she said, and has seen a difference in her ability to sleep.

Vogt feels fortunate not only for the medical help she receives from Rajupet and the Stony Brook clinic, but also for the support of her partner Tessa Gibbons, an artist with whom Vogt developed a relationship and created a blended family in the years after Vogt’s husband died in 2018.

“My hope is that I can find a new normal and that I can become functional so that I can get back to doing some of what I love,” she said.

Vogt urges others not to give up. “If your doctors don’t believe you, find one who does,” she said. “My doctors at Stony Brook, including Dr. Rajupet and the whole team, are amazing. They listened, they are compassionate and they don’t ever say, ‘That’s crazy.’”

Indeed, in working with some of the over 1,500 unique patients who have come to Stony Brook Medicine’s post-Covid clinic, Rajupet said she “explores things together.” When her patients learn about something new that they find through their own research, she couples that knowledge with her own findings to develop a treatment plan that she hopes offers some comfort and relief.

Ongoing medical questions

Doctors engaged in the treatment of long Covid are eager to help people whose quality of life can and often is greatly diminished. 

People “haven’t been able to work, haven’t been able to do activities they enjoy whether that’s sports as a result of their fatigue or myalgia [a type of muscle pain]. Concentration may be affected, as people can’t read or perform their work-related activities,” said Rajupet.

At this point, long Covid disproportionately affects women.

During her family medicine residency, Rajupet learned about preventive medicine in public health. She worked with specific populations and completed an interdisciplinary women’s health research fellowship.

Her research background allowed her to couple her primary care experience with her women’s health background with a population approach to care.

The Stony Brook doctor would like to understand how many infections it takes to develop long Covid.

“For some, it’s that one infection, and for others, [long Covid] comes in on the third or fourth” time someone is battling the disease, Rajupet said.

She also hopes to explore the specific strains that might have triggered long Covid, and/ or whether something in a person’s health history affected the course of the disease.

Rajupet recognizes that the need for ongoing solutions and care for people who are managing with challenges that affect their quality of life remains high.

“There are still 17 million people affected by this,” she said. “We have to make sure we can care for them.”

As for Vogt, she is grateful for the support she receives at Stony Brook and for the chance to make improvements in a life she and Gibbons have been building.

Her hope is that “every day, week, month and even hour, I take one more breath towards being able to function as best as possible,” Vogt said. “My goal is to live the best life I can every day.”

Andrew Singer with students in a newly created makers space in the Engineering Building at SBU. Photo by Debra Scala Giokas/Stony Brook University

By Daniel Dunaief

Andrew Singer. Photo courtesy of SBU

Andrew Singer, the Dean of the College of Engineering and Applied Sciences (CEAS) at Stony Brook University, has bigger numbers in mind. For starters, he’d like to see CEAS increase in size, from 5,000 total students, including 3,500 undergraduates, to as many as 10,000 students.

“We are small as an institution compared to other institutions of our reputation in research,” said Singer, referring both to the overall population of the university and to the college he leads.

He believes growth at the CEAS could occur because there is “that much demand for a Stony Brook College of Engineering and Applied Sciences education right now.”

Singer, who joined Stony Brook in July of 2023, believes that state schools like Stony Brook provide an education that create life changing opportunities for people and their families. The lack of available housing on campus at this point is a rate limiting step in increasing the number of students who can attend.

Getting the word out

Singer, who came to Stony Brook after 25 years in the Electrical and Computer Engineering department at the University of Illinois, believes public universities have historically seen themselves as being local and serving the mission of the state, without needing to advertise.

“As public funding diminished, many public institutions realized they needed to tell the world that they were serving this tremendous mission and adding tremendous value to society,” Singer said.

Indeed, the late Chemistry Professor Paul Lauterbur helped invent the MRI machine, which has become such an important diagnostic tool in medicine. Lauterbur, who was a tenured professor at Stony Brook from 1963 to 1985, shared the Nobel Prize in Physiology or Medicine along with British Physicist Sir Peter Mansfield in 2003.

Singer also wants prospective students to know that John L. Hennessy, the former president of Stanford University and current chairman of Google’s parent company Alphabet, earned his Master’s and PhD degrees from Stony Brook.

“Telling our story not only can help to bring some of the world’s greatest educators and researchers to campus, but can also ensure that the resources needed to continue to build on our successes are available,” said Singer.

Finding funds

Additionally, the CEAS Dean believes professors in the college can diversify their sources of funding.

“One of the things I noticed at Stony Brook is that most of the research is funded through grants from the National Science Foundation, the National Institutes of Health and the Department of Energy,” he said. “That concentration of funding makes you vulnerable to changes in the funding cycle.”

Additionally, competition for funding from those agencies is extremely high.  Singer has been urging faculty at CEAS to seek funding from industrial sponsors.

“At the end of the day, what’s important is the scholarship you create,” he said.

Singer appreciates how his colleagues at Stony Brook are pursuing funds for larger interdepartmental funds.

Vice President for Research Kevin Gardner has “strong experience in building these larger portfolios of funding for faculty research,” Singer said. Gardner and Singer talk “often about ways we can continue to develop opportunities for faculty to go after new funding and present ideas to industry.”

Gardner described Singer as a “rock star” who has “great ideas” and is “super brilliant with tons of positive energy. He can move things and already has been moving things in a positive direction for CEAS.” 

Gardner believes engineering could and should be twice the size it is and suggested that Singer is “the guy who will get us there.”

Opportunities for growth

Singer appreciates the depth and breadth of faculty interests at the CEAS. “Our faculty are brilliant researchers, working at the forefront of many areas of importance to society, from information and energy systems, to human health and disease prevention, to clean water and security,” he said.  “With nine departments in the College of Engineering and Applied Sciences, it is difficult to find an area of science and engineering where our faculty are not having impact.”

Singer sees opportunities for growth in areas including artificial intelligence.

The university launched the AI Innovation Institute (AI3) in September of last year, which will expand the Institute for AI-driven Discovery and Innovation, which was established in 2018 from a department-level institute within the CEAS to the university-wide AI3, reporting to Provost Carl Lejuez. Steve Skiena, distinguished professor in the department of Computer Science, is serving as the interim director of AI3 while the university has been searching for an inaugural director.

The provost appreciates the efforts Singer has been making on behalf of the CEAS and the university. Singer is “good at thinking about the big things we need to focus on,” Lejuez said in an interview. Singer has “brought a leadership style that is consistent with the culture we’ve been trying to create over the past few years. We are partners with faculty, staff and students. We are including them not just at the end of decisions.”

Singer is also continuing to pursue his own scientific studies. His research interests include signal processing and communication systems. He has worked on underwater acoustics, where he studied underwater communication for the subsea industry. He has also worked in wireless communications for cellular and radio applications and in fiber optic communication systems.

Singer has two graduate students at Stony Brook and several students who are completing their work at Illinois. His students are working in areas related to audio signal processing, such as improving the performance of hearing aids and devices like noise-cancelling headphones, as well as in underwater acoustics.

Singer has had two companies emerge from research in his lab. He would like to continue to engage in innovation and entrepreneurship and help grow the entrepreneurial ecosystem at Stony Brook.

Quantum work

CEAS has invested in areas related to quantum communication.

In August 2024, Stony Brook was chosen to lead a project in the National Quantum Virtual Laboratory program. Funded by the National Science Foundation and led by Principal Investigator Eden Figueroa, Stony Brook Presidential Innovation Endowed Professor, the team is designing and implementing a 10-node quantum network connecting labs at Stony Brook, Brookhaven National Laboratory, Columbia University and Yale University.

Stony Brook held a workshop on Quantum Information Science and Communication systems in Manhattan that Figueroa led, in which some of the foremost experts in the field presented their work and discussed collaboration opportunities with Stony Brook, Singer explained.

Stony Brook has its “local and global strengths.” Singer wants to focus on building on those areas and to have SBU becoming well known to students and faculty as a destination of choice.

Research associate Dr. Ejiro Umaka is pictured with BNL’s sPHENIX detectorEjiro Umaka at the sPHENIX. Photo by Kevin Coughlin/BNL

By Daniel Dunaief

Despite their importance in making a turkey sandwich, a clarinet, and an adorable puppy wagging its tail possible, quarks and gluons don’t figure into the realm of subjects discussed at water coolers, which, incidentally, also depend on the interaction between these subatomic particles.

Ejiro Umaka has the opportunity to change that, at least for a general audience including national legislators, in under three minutes while using only one slide.

A Research Associate at Brookhaven National Laboratory, Umaka won $2,000 at BNL’s second SLAM competition, in which she and nine other junior scientists presented their research in front of a live audience. Umaka planned to present her work this past Wednesday, March 5th to an audience of politicians, judges and people generally interested in science.

Rep. Nick LaLota (R-NY1) attended the previous event and extended his congratulations to Umaka.

“Dr. Umaka’s unwavering commitment to advancing scientific knowledge and her exceptional curiosity exemplify the pioneering spirit that positions Long Island at the forefront of research and technological development,” LaLota wrote in an email. “I am confident that [she] will represent Suffolk Count with distinction, and I eagerly anticipate her continued achievements.”

While the winner of the national competition will receive $4,000, the opportunity to compete and to describe her work for a general audience has already provided important experience for Umaka.

“I am honored to represent BNL,” Umaka explained in an email. “I am thrilled to discuss my work to a large audience without the usual scientific jargon, which has led to a deeper understanding of my work.”

During the SLAM competition, these scientists, whose competition will be live-streamed, use three minutes to inspire, captivate, and enlighten audiences whose decisions could affect future support and funding for important research projects.

In 2023, when Daniel Marx, Deputy Group Leader of the EIC Accelerator Design Group at BNL, traveled to Washington to represent BNL, he met several politicians from around the country, including Reps LaLota and Andrew Garbarino (R-NY2).

The politicians, many of whose districts, like LaLota’s included a national lab, were “certainly interested,” said Marx. He recalls speaking with Chuck Fleischmann (R-TN3), who served as Chairman of Energy and Water Appropriations.

Fleischmann, whose committee sets the budget for the Department of Energy and the national labs, was “very interested in having a conversation with us about the interplay between science and politics and how we can work together on that.”

Marx also enjoyed meeting with Bill Foster (D-IL14), who has a PhD in physics and has signs like “I love physics” in his office. “He has a really good grasp of what’s going on,” Marx recalled.

Foster asked penetrating and important questions about Marx’s work on developing the Electron Ion Collider.

Quarks, gluons and slowing down

Umaka is looking forward to representing BNL at the national competition and to sharing the science she does with a national audience.

Umaka works at the sPHENIX experiment, which is a radical makeover of the original PHENIX experiment. The experiment collects data at the Relativistic Heavy Ion Collider, or RHIC.

The size of a two-story house with a weight of about 1,000 tons (or about five adult blue whales), the sPHENIX detector will capture snapshots of 15,000 particle collisions per second.

After the superconducting magnet at the core of the sPHENIX traveled across the country from the SLAC National Accelerator Laboratory in California to Brookhaven, it was installed in 2021. Umaka arrived at the lab before the sPHENIX was assembled.

“It’s not every time as a physicist or junior researcher that you start off with an experiment that is new,” said Umaka. 

The sPHENIX had to work out some early challenges. Initially, the experiment planned to use a mixture of gases in the time projection chamber that included neon. The war in Ukraine, however, created a shortage of neon, so the lab switched to a different gas and added isobutane. The group celebrated with an isobutane cake. Fortunately, the supermarket hadn’t run out of them.

Umaka explained in her winning talk that her experiments allow the team to explore the universe as it was millionths of a second after the Big Bang, when the primordial soup that contained quarks and gluons came together to create the world we know.

She compares the process at sPHENIX to having chicken soup in the form of the quark gluon plasma. The researchers then shoot small objects within a jet that are similar in scale to the other ingredients in the soup so they scatter off each other. From there, they can deduce the microscopic nature or point like structure of the plasma.

The role of sPHENIX is to record jets that come from the collision of nuclei that release quarks. 

“The jet shoots through the soup, and this is why we can use jets as a probe,” Umaka explained.

In the experiments, the soup exhibits collective behavior, which is similar to the response of a school of fish that turn in unison when disturbed. When the researchers look at the soup on the level of individual quarks and gluons, the particles should behave like molecules in a gas. 

By recording lots of collisions, sPHENIX increases the likelihood of finding and recording desirable jets useful for probing the soup at the level of individual quarks and gluons.

“We want to discover how the fluid-like (collective) nature of the soup emerges from fundamental interactions of quarks and gluons,” Umaka explained. 

Nigerian roots

Born in Nigeria, Umaka moved to Houston in her teens when her parents transferred to the United States. When she was younger, she wasn’t confident in her science aptitude. She took difficult courses in which the social structure worked against her advancement as a woman.

In Houston, she took a particle physics course. The professor suggested she’d do well in his group and that she’d get to go to Geneva to do research.

“Sign me up,” she recalled saying, and she did.

A resident of Brookhaven, Umaka enjoys visiting the mall, reading books, attending yoga classes, listening to music and talking with family.

As for the SLAM event, Umaka appreciates the way the competition has increased her visibility.

“If people like the talk, they will invite you to do other stuff, which is great,” she said.

——————————————

To watch Ejiro Ukama give her presentation at the National SLAM competition, click here and go to 1:48.

 

Christopher Gobler. Photo courtesy of SBU

Dr. Christopher Gobler, a professor in the School of Marine and Atmosphere Sciences (SoMAS) at the State University of New York at Stony Brook’s Southampton campus, will be honored by the Sierra Club’s Long Island group for his outstanding environmental contributions at a buffet luncheon at Seatuck (in the Scully estate), 550 South  Bay Ave.,  Islip on March 15 at 1 pm.

Gobler has been a professor at SoMAS since 2005. He has been Director of Academic Programs, Associate Dean of Research, and is now co-Director of the Center for Clean Water Technology (CCWT). 

He has been recognized by the Sierra Club’s Long Island group as a recipient of their 2024 Outstanding Environmentalist award for educating not only the students at the University, but the public as well about the state of our waters, the need for them to be cleaned up, and how to go about it. He’s also being recognized for his work and research toward a better understand our surrounding waters. 

Stony Brook University’s website says “The major research focus within his group is investigating how anthropogenic activities such as climate change, eutrophication, and the over-harvesting of fisheries alters the natural biogeochemical and/or ecological functioning of coastal ecosystems.   Within this realm, major research efforts include the study of harmful algal blooms (HABs) caused by multiple classes of phytoplankton in diverse ecosystems as well as the effects of coastal ocean acidification on marine life.”

The luncheon is open to the public. Contact Ann Aurelio, [email protected] by March 10th for more information or to register to attend. There is a suggested donation of $25. 

About The Sierra Club

The Sierra Club is America’s oldest volunteer directed environmental organization. It was created in 1892 in California. It now has over 700,000 members nationwide. It is nation’s largest and most influential grassroots environmental organization with three million members and supporters. 

A pod of Humpback whales swim together on their annual migration to northern waters. Photo by Corey Ford

Do whales “speak” in a similar way that human beings do? Stony Brook University Postdoctoral Fellow Mason Youngblood from the university’s Institute for Advanced Computational Science has published a new study in Science Advances that reveals that whale communication is not just complex—it’s remarkably efficient, following the same linguistic principles that shape human speech.

By analyzing vocal sequences from 16 whale species and comparing them with 51 human languages, Dr. Youngblood found that many whales “compress” their calls to maximize efficiency, similarly to how humans do when speaking. Eleven species exhibit Menzerath’s law, meaning longer vocal sequences are made up of shorter elements, and some—like humpback and blue whales—also follow Zipf’s law of abbreviation, where frequently used sounds are shorter. This suggests that much like humans, whales have evolved ways to streamline their communication, potentially saving energy and avoiding predators.

But not all whales play by the same rules, according to Dr. Youngblood. Some dolphin species, like those in the Cephalorhynchus genus, show no evidence of these efficiency patterns—possibly because they rely on stealthy, ultrasonic sounds to evade predators rather than optimize timing. Even within species, efficiency varies: killer whales compress their call sequences but not the smaller elements inside them. These findings suggest that the push for efficient communication is not universal, but shaped by a mix of biology, behavior, and environment. More broadly, they highlight just how much there still is to learn about the complex communication systems of whales.

“I find it fascinating that communication evolves in similar ways across species, even when the purpose is wildly different“, said Dr. Youngblood. “Humpback and bowhead whales are thought to sing to attract mates, dolphins and killer whales use calls to coordinate with one another, and sperm whales produce clicks to communicate clan identity. Yet, despite these differences, many of their vocal sequences show the same efficiency patterns found in human language—suggesting that the drive to communicate with less effort is widespread in animals.”

Allison Wong with her project. Photo by Kelly Gwydir

By Daniel Dunaief

Over 150 students around Long Island recently caught the science bug.

Allison Wong with Marivia Fernández-Serra. Photo courtesy of Kelly Gwydir

Students from kindergarten through 12th grade made one-minute videos to celebrate historic women in science as a part of the Institute for Advanced Computational Science’s (IACS) second annual competition.

Contestants in the Stony Brook University challenge described their connection with women who sometimes operated in the scientific shadows, while they also described an experiment they did that highlighted an important concept or achievement from the work of historical role models.

“We want to recognize the importance of women in the history of science and engineering,” said Mónica Buggalo, a co-chair of the event and professor in the Department of Electrical and Computer Engineering  and at the IACS. Despite the young age of some of the participants, Buggalo was “blown away by how confident they are. It’s unbelievable.”

On Feb. 13, in honor of International Day of Women and Girls in Science, the finalists provided a two-minute summary of their work and then the IACS named the winners, who will receive cash prizes.

Baylee Stanton from Saxton Middle School and Allison Wong from Lynbrook South Middle School were tied for first place. Each of them will receive $875.

“I’m really proud of myself because this is a pretty advanced topic,” said Wong.

The students presented their one minute videos on any of 10 women.

Wong selected Katherine Johnson, whom she had studied in fourth grade during Black History Month.

“She inspired me to keep learning,” said Wong.

Allison Wong describing her project. Photo by Kelly Gwydir

After describing Johnson, who was one of the scientists featured in the movie “Hidden Figures” and for whom two NASA facilities are named, as an “African American mathematician who fundamentally transformed the field of aerospace engineering,” Wong went on to describe her project.

She set up an experiment using a catapult and four projectiles, in which she recorded the flight time and distance for a ping pong ball, cotton ball, bottle cap and marble. She recorded these measurements five times each at three different angles.

In an interview, Wong suggested that Johnson’s legacy is important as she calculated trajectories for the first US manned space flight and for Apollo 11.

Wong, who wants to be a doctor when she grows up, explained that the experience of competing made her feel “really inspired.”

She plans to put the money into a bank account and hopes to use it later in life.

Allison’s father David Wong was thrilled with the program and hopes it grows exponentially over the years, as the experience about researching women role models is inspirational.

David Wong said he himself knew about three of the scientists the contestants profiled, including Rosalind Franklin, who helped determine the double helical structure of the genetic material DNA and Marie Curie, who conducted ground breaking research on radiation and was the first woman to earn a degree from the University of Paris.

The opportunity to learn about the other scientists on the list was “eye opening,” David Wong said.

Designing a paper bag

Lucy Jane Sammarco. Photo courtesy of Samarco family

While many grocery shoppers might take the paper bag for granted, that is not the case for Hampton Street second grader Lucy Samarco.

Samarco learned about Margaret E. Knight, who had 27 patents and 100 inventions and was called “Lady Edison.” Knight developed the machine that created the flat bottomed paper bag, which is still in use today.

Samarco, who won an honorable mention for her entry and will collect $300 from the IACS, said the morning announcements in school included her result in the competition.

Her classmates clapped for her, which made her smile.

Samarco, who made a volcano that included baking soda, white crystals and water the weekend after the competition, wants to be a scientist when she grows up. Her favorite animal is the pink parrot.

Lucy’s mother Tricia Samarco was overwhelmed with emotion.

Lucy Jane Sammarco. Photo courtesy of Samarco family

All the competitors, who were mostly but not exclusively girls, were “absolutely amazing,” said Tricia Samarco. She said she was impressed with their confidence and their ability to speak in public.

Mike Samarco, Lucy’s father, was concerned that the project might be too challenging for Lucy and that he and his wife might not be able to offer much help.

“She kept coming back and saying, ‘This project looks exciting,” Mike Samarco said. Eventually, Lucy’s enthusiasm won the day.

Ultimately, Lucy has no shortage of ambition or ideas, suggesting she wanted to discover things, change the world and, perhaps, become president.

Strawberry DNA

Julia and Valerie D’Amico. Photo courtesy of D’Amico family

Mineola sisters Julia and Valerie D’Amico, who took home an honorable mention in last year’s competition, received a third place prize for their description and experiment on Franklin.

“She played a great part in discovering DNAs double helical structure,” said Julia, who is in 7th grade at Mineola Middle School. “We were inspired by her.”

The tandem, who received $500 for coming in third, conducted an experiment to extract DNA from a strawberry.

“It was cool seeing how you could do it,” said Valerie, who is in third grade at Jackson Avenue School. Valerie has longer term ambitions to study archeology.

Julia suggested that some of the women scientists from earlier times might have confronted biases against them if they were interested in science or math.

The combination plans to enter the contest again next year as well.

Enriching and enjoyable

Marivia Fernández-Serra, who also co-chaired the event and is a professor in Physics & Astronomy and at the IACS, appreciated how much fun the participants have.

She enjoys watching them take pictures with their scientists.

Fernández-Serra described the event as a “celebration of students.

The goal was of what she described as an “outreach activity” was to “get students excited about doing science and doing research and aspiring to come and start degrees at universities.”

Fernández-Serra suggested that the IACS may break the competition down into different age groups, with entries from elementary, middle school and high school.

Buggalo is thrilled that student competitors are demonstrating interest that extend beyond the challenge.

“There is a lot of excitement about science,” said Buggalo. “Some of them ask about opportunities that the university offers. We do have summer camps and academic activities in research.”

Rob Martienssen with Nobel Prize winning scientist Barbara McClintock in 1990. Photo by Tim Mulligan, CSHL

By Daniel Dunaief

Cells, like the organisms they are a part of, are trying to balance between staying the same and making the kind of changes that might save a life or increase fitness.

At the cellular level, pieces of important genetic information, called small RNA, have the ability to introduce important so-called epigenetic changes. These alterations allow an individual to survive a potential threat, such as a disease or a toxin in the environment, without altering their DNA.

In a recent publication in the journal Nature Structural & Molecular Biology, scientists at Cold Spring Harbor Laboratory and the University of Cambridge demonstrated that a slightly altered form of uridine, which is a combination of the base uracil and ribosome, can act as something of a master key throughout nature.

“When you see something like that conserved in plants and animals, it has to be basic in terms of inheritance or mechanisms,” said Rob Martienssen, a Howard Hughes Medical Institute Investigator who has been at CSHL since 1989.

Indeed, pseudouridine guides epigenetic inheritance, which, unlike a mutation, can represent a temporary change in gene function.

Pseudouridine helps transport small RNAs into reproductive cells in both plants and mammals.

Without pseudouridine, these small RNAs that lead to epigenetic changes can become the target of the body’s immune system, which reacts to anything that introduces changes into the genetic machinery as a potential threat, such as a virus.

The body’s Rig-1 pathway, which monitors the extracellular space for foreign genetic material, triggers a cascade of reactions that lead to the release of interferon by white blood cells.

“We think a conserved protein called RTL1 might provide this function in plants (and animals),” explained Martienssen.

Pseudouridine can signal to the body that these genetic codes that are heading towards the nucleus are “self,” keeping the immune system’s reaction at bay.

“It is known that pseudouridine (and other RNA modification) prevent recognition of long RNA as a virus by human cells and we think the same is true in plants,” Martienssen said.

Some viruses have effectively slipped behind the immune defenses by incorporating pseudouridine into their codes. The most famous example of this, Martienssen suggested, is the Human Immunodeficiency Virus, or HIV.

Parasitic nematodes and plants also transfer small RNA into the plants they are parasitizing.

Martienssen speculates that those RNA depend on pseudouridine. In his current experiments, he is testing that hypothesis.

Vaccinations

The immune system initially treated the developing mRNA vaccines that were so instrumental in providing an immune defense against COVID-19 as a viral threat, rather than a potential life-saving shot.

A strong immune response prevented the vaccine from providing any benefit.

By adding pseudouridine, among other chemical modifications, to the mix, the pharmaceutical companies created vaccines that functioned effectively without triggering an immune reaction that would otherwise block their effectiveness.

By contributing to a filter that evades immune detection, pseudouridine can also enable the kinds of epigenetic changes — apart and aside from human intervention — that contribute to survival during challenging conditions.

Small RNA that contains pseudouridine can induce epigenetic changes that might be caused by the environment or some disease, enabling an important alteration in the genetic code that could protect an individual against harm.

Martienssen and his team believe pseudourilyation is required to get into the germ line, the cells that are a part of contributing to the next generation. He believes pseudourilyation might also make the germ line more stable.

Martienssen’s collaborator from Cambridge, Tony Kouzarides, independently found pseudouridine in mouse small RNA.

Shorter term changes

As for the long term impact of these changes, epigenetic inheritance typically only lasts a half a dozen generations in animals like worms.

Well known enzymes, such as demethylases, can remove epigenetic marks over time, as several mechanisms are trying to “clean up” the genome before these changes become permanent.

Lower organisms, such as fungi, can become epigenetically resistant to drugs. Epigenetics gives them a lot more variation than they would otherwise have had under natural selection.

An example includes cryptococcus, an infection that can be deadly for immunocompromised people, Martienssen explained.

About five percent of the bases in ribosomal RNA are pseudouridine and 100 percent of ribosomal RNA molecules have these bases rather than uridine at these locations.

Martienssen interfered with the process in his experiments by knocking out an exportin, which is a protein required to export small RNAs. He was able to knock it out without killing the plant.

English origins

Martienssen grew up in Essex, England by the Blackwater estuary near Maldon, which is famous for its sea salt.

Martienssen lived his childhood close to London. Long Island and New York City remind him of home.

When he was eight years old, his father Anthony Kenneth Martienssen gave him the book “The Double Helix’ by former CSHL chair and Nobel Prize winner James Watson.

Martienssen’s father was an author and an aviation consultant who pioneered computer guided air traffic control, his son said. The family recently reprinted some of his father’s books from 50 to 75 years ago.

When he arrived at CSHL, Martienssen worked with Nobel Prize winner Barbara McClintock, who studied transposable genetic elements.

“She showed me how to isolate male germline cells (pollen precursors) from maize plants,” Martienssen recalled. “She told me not to make models, but to stick to the observations.”

McClintock’s earlier models had been more accurate than she realized at the time, he said.

As for his study of epigenetics, Martienssen explained that such alterations are “amazingly useful” in theory, as they can “be induced in many individuals at the same time (random mutations would only occur in one individual at a time), inherited, but then reversed when conditions change.”

METRO photo

By Daniel Dunaief

Smartphones are an attractive nuisance not just during family time, when parents might otherwise struggle to see anything other than the top of the heads of their children, but also during school.

Lauren Hale. Photo courtesy of Stony Brook Medicine

In a recent research letter published in JAMA Pediatrics, scientists led by Lauren Hale, Professor in the Department of Family, Population and Preventive Medicine at Stony Brook University, found in a study of 117 students from the ages of 13 to 18 that smartphone use during school hours typically consumed an average of about 1.5 hours. That’s about 23 percent of a typical school day.

“School time should be a time for being present,” said Hale. It should involve interacting with peers and learning from teachers. “When a quarter of your day is spent with your finger on the phone” students are missing opportunities for academic and social growth.

The study, which was funded by the Della Pietra Family Foundation, comes as Governor Kathy Hochul (D) has unveiled a plan to restrict cell phone use during the day for students from kindergarten through 12th grade. 

The governor’s plan allocates $13.5 million for pouches, cubbies and other storage devices and comes as other states and countries seek to limit the kinds of distractions that diminish learning and that prevent face-to-face social interactions.

The JAMA study “really does underscore the need to help children reduce their screen time, both at school and at home,” said Kris Perry, Executive Director of Children and Screens: Institute of Digital Media and Child Development.

At this moment, “we are seeing a crisis in childhood that is highly correlated with the introduction of the smartphone and social media platforms,” Perry added.

In the JAMA Pediatrics study, the researchers found that a quarter of the participants spent more than two hours on their phone during school.

The top five most used apps or categories, other than internet browsing, were messaging, Instagram, video streaming, audio and email.

The study may underestimate the amount of time typical students spend on their phones, in part because the participants in the research knew that their phone use was being tracked.

Study design

The students in the study, who were divided almost equally between boys and girls and who came from a representative sampling of different backgrounds, completed a 15-minute smartphone-based survey and installed RealityMeter to measure their smartphone use.

The researchers examined data from these students, whose phones sent signals throughout the day about the time they are using the phone.

The average number of hours these students were on their phones during the day was 5.59, which excludes other electronic devices such as video games, desktop computers or laptops.

To be sure, the survey didn’t analyze the times during the day that these students were on their phones. Some of these participants, for example, could have used their smartphones during their lunch or free periods rather than during calculus classes or lectures about American History, French or any other subject.

“We didn’t have the granularity of each student’s schedule to know” when the phone usage was the highest, Hale said.

Still, using the phone instead of interacting directly with students in the room, at a lunch table, or in a hallway is a “missed opportunity for eye-to-eye contact in real life,” said Hale.

In the study, about 22 percent of the participants indicated that their parents restricted their phone use when they are at home.

The data for this group during school tracks, however, closely with the students who said they didn’t have any such similar phone restrictions at home. The study also compared phone usage for students whose parents attended college with those who didn’t attend or finish college.

The children of college graduates used the phone about 30 minutes less per school day.

Combination of factors

Several factors may have contributed to any potential increase in the use of smartphones in school.

During the Covid-19 pandemic, the lockdown and remote learning, students relied on technology to log in to their classrooms. Adolescents who couldn’t interact with each other in person also spent considerable time texting and interacting with each other on social media.

Additionally, various apps have enhanced their platforms to encourage users to stay on them for longer periods of time.

“The algorithms know that I like Shih Tzus, so I keep getting reels for tiny white dogs doing tricks,” said Hale. “If they put up cats, I wouldn’t watch.”

The same is true for adolescents, who see sports clips or other content regularly that compels them to stay online and that may interfere with their ability to learn in class or to socialize with people around them. 

These apps and the devices adolescents use could provide information about usage patterns.

“I would love to see social media platforms share more information,” said Hale.

Perry added that parents act as important role models for their children when it comes to screen time. “What you’re modeling is going to be replicated,” she said. “Things that adults do without thinking, their children are copying.”

Next steps

Hale indicated that the research team has just finished collecting a second wave of data on the same participants. The scientists will be following up to see screen use patterns as well as any observed changes in mental health and physical well being.

The recent work published in JAMA Pediatrics is a “descriptive baseline” of smartphone usage in school, said Hale. She suggested that researchers need to conduct further research to understand the impact of phone usage patterns on education. “We need replication in science” to uncover more details over a larger population for smartphone use.

Like Gov. Hochul and others who have focused on this issue, Hale believes these personal electronics may hinder the learning process.

“I’m concerned about kids losing precious school hours to distracting devices,” Hale said. When students go to school, they should “be ready for learning and social time. That’s what’s going to make a difference in their education.”

The historical structure at Tesla Science Center at Wardenclyffe underwent significant structural damage after a fire on Tuesday, Nov. 21, 2023. Photo courtesy Tesla Science Center

The Tesla Science Center at Wardenclyffe in Shoreham was recently awarded $500,000 from New York State Parks to support the restoration of Nikola Tesla’s only known surviving laboratory in the world. This crucial funding provides a much-needed boost to recovery and rebuilding efforts following a devastating fire in November 2023.

The grant comes at a pivotal moment as Tesla Science Center launches a renewed push for its Capital Campaign to restore the laboratory and complete its transformation into a world-class educational and innovation hub. The total cost of the project, originally estimated at $20 million, has risen to $24 million due to additional fire damage and adjustments for inflation. To date, $14 million has been raised toward this goal.

“This grant is a tremendous step forward in our recovery journey,” said Marc Alessi, Executive Director of Tesla Science Center. “We are deeply grateful to New York State Parks for their support in preserving this iconic site and advancing our vision for its future.”

Update on the Fire Investigation and Insurance Dispute

The 2023 fire caused extensive damage to the historic 10,000-square-foot laboratory, destroying critical features of the 1901 building, including its roof, chimney, and iconic cupola, with damages exceeding $3 million. Nearly a year after the blaze, its official cause remains undetermined, though evidence points to contractor error. Sparks from contractors using blowtorches likely ignited the fire, according to Alessi.

While the nonprofit organization’s insurance company has issued a payout, it falls short of covering the damage. Tesla Science Center has removed the contractor responsible for the work and is actively appealing the contractor’s insurance denial of liability.

Steps Toward Recovery and Restoration

Despite these challenges, Tesla Science Center is making steady progress in restoring the site and advancing its mission. Immediate priorities include clearing debris, assessing the building’s structural integrity, and protecting it from further weather-related damage. The $500,000 grant from New York State Parks provides critical support for these efforts, allowing the organization to stabilize the site and preserve its historic significance for the local community.

Tesla Science Center is also working closely with the Town of Brookhaven to secure permits for the new welcome center, which will include exhibit space and a classroom. Construction is expected to begin in 2025, offering new educational opportunities for students across Long Island.

Join Them in Securing Tesla’s Legacy

Once fully restored, the 16-acre Tesla Science Center campus will become a global hub for innovation, education, and imaginative thinking, featuring a museum, science labs, and a business incubator. The restoration is expected to bring significant economic benefits to Long Island’s North Shore, creating new opportunities for local businesses and revitalizing the region’s tourism sector.

The site’s transformation will benefit nearby restaurants, hotels, shops, and service providers, while also generating jobs, attracting new investment, and enhancing the region’s visibility as a premier destination for cultural and educational tourism. By preserving this iconic landmark and sharing Tesla’s legacy with the world, the project will foster a stronger, more vibrant local community while inspiring future generations to pursue advancements in science and technology.

“Preserving Tesla’s legacy right here in Shoreham is not only an opportunity to inspire future generations, but also a way to drive economic growth and strengthen our community,” said Alessi. “We invite Long Islanders to join us in this effort to restore a global treasure.”

Individuals, organizations, and communities can support Tesla Science Center by donating to the Capital Campaign, attending upcoming fundraising events, and spreading awareness of this important initiative.

To join the Capital Campaign or learn more about Tesla Science Center’s recovery efforts, visit www.teslasciencecenter.org.

Florence Aghomo in Madagascar. Photo courtesy Florence Aghomo

By Daniel Dunaief

Don’t say “no” to Florence Aghomo.

A graduate student at Stony Brook University who was born and raised in Cameroon, Aghomo’s ability to get past no, don’t, and shouldn’t led to a continent-hoping life complete with a recent compelling discovery in the rainforest of Madagascar.

Working on her PhD research in the laboratory of Distinguished Professor Patricia Wright, Aghomo went north in Ranomafana National Park when almost every other researcher has gone south in the national park. She was searching for a type of lemur called the Milne-Edwards’s Sifaka when she came upon a large hole on a steep surface.

The fossilized hippo bones, including a tusk and a mandible. Photo courtesy Patricia Wright

She suggested to her guide that it was a cave. Her guide insisted she was wrong. When she spoke with Wright, her advisor also was unconvinced.

Aghomo, however, was sure that what she saw was similar to the caves she studied in the class of Adjunct Lecturer Dominic Stratford, who has a dual position at Wits University in South Africa.

In November, several months after Aghomo’s initial discovery, a team of scientists trekked into the remote part of the rainforest in the north.

“It’s very, very difficult terrain,” Wright said.

The group found 13 caves, one of which, to their amazement, contained fossilized bones.

“This is impossible,” Wright recalled thinking. “Bones don’t fossilize in the rainforest. Everyone knows that.”

But, as the evidence suggested, they can and they do.

The researchers initially thought the unexpected bones were a pig.

“I’m saying, ‘No, it’s not a wild pig,’” said Wright. “That is a hippopotamus. They couldn’t believe it.”

Indeed, while three species of pygmy hippopotami have been discovered in parts of the island nation off the southeast coast of the African continent, none have been discovered in the rainforest.

Once the group at Centre ValBio, the research station in Ranomofana National Park run by Wright, confirmed the discovery, Wright immediately took two actions.

First, she wrote to Stratford.

“This is what we found and it is your fault for teaching Florence how to look for a cave,” Wright said. “It’s your responsibility to come over and help us. I’m not a paleontologist and you are.”

Stratford described the first few weeks after the discovery as frantic, as he had to grade papers, apply for a visa and make complicated travel plans – all before any possible rain washed away this remarkable discovery.

Stratford was thrilled with the finding.

“It was great to know that something you teach at Stony Brook University in the middle of the Northeast has helped somebody make a discovery on the other side of the planet in a rainforest,” said Stratford. The discovery “couldn’t be further away from where we are right now, sitting here in the snow.”

She Wright also wrote to the Leakey Foundation to secure emergency funds to bring experts to the area quickly before the rainy season threatened to wash away this remarkable find.

“This was a really great opportunity to use these emergency funds and is exactly the kinds of things we want to do,” said Carol Ward, co-chair of the Scientific Executive Committee for Paleoanthropology at the Leakey Foundation. “To find a cave system in this rainforest that’s preserving these fossils is really special.”

Acidic rainforest soils make the discovery of fossils in these areas rare.

Seeing the bones

Once Aghomo was able to see the fossilized bones, Wright appreciated the variety of information they these fossils might contain.

The bones had a mandible with molars that “look like flowers,” Wright said. “They had a really nice wear pattern.”

Based on the amount of wear on the teeth, Wright estimates that the individual hippo might have been a young adult when it died.

The collection of bones also included a tusk and several leg bones.

Stratford, who helped carefully excavate the bones with researchers from the University of Antananrivo (Tana), believes this pygmy hippo likely died in the cave. He is hopeful that they might find other parts of the same hippo’s skeleton that got washed into different parts of the cave.

Relatively speaking, this hippo has a smaller cranium and longer legs than similar species on the island nation. Wright suspects that the hippo is a different species from the three that have been categorized in Madagascar.

The bones are sitting in a refrigerator at CVB and Wright hopes to bring them to Stony Brook by some time around May, when Stratford and others might be able to examine them.

Researchers are hoping to answer several questions about the animal, including the age of the fossil as well as the food in its diet based on whatever they can extract from the teeth.

Searching other caves

Researchers, meanwhile, have discovered a tusk from another hippo in another nearby cave.

Wright is excited about the possibility of finding other fossilized bones in caves created by granite boulders that tumbled down a steep slope. Some of the caves have water running at the bottom of them, which can be meters down from their entrance. Scientists used ropes to descend into the caves.

Wright, who has won a range of awards from her research on these quirky lemurs and was the subject of the Morgan Freeman-narrated film “Island of Lemurs: Madagascar,”  believes some of these caves may reveal a whole new set of fossil lemurs.

Wright hopes to return to Madagascar next summer to do the rest of the excavation with paleontologists.

As for Aghomo, the eagerness to blaze her own trail that led her to find these caves in an isolated area is part of a lifelong pattern in which persistence and a willingness to follow difficult paths has paid off.

When she was younger, Aghomo wanted to work in the forest. Her father, Jean-Marie Fodjou, however, suggested such difficult physical work might not be especially challenging for a woman.

Her father didn’t think she would be comfortable walking distances in difficult terrain, crossing rivers, and carrying heavy loads.

Aghomo, however, recognized that it’s “something I want to do.”

The path to Stony Brook wasn’t immediate either. The first year she applied to the graduate program, she sent her application to the wrong department.

In her second year, she was accepted in the Interdepartmental Doctoral Program in Anthropological Sciences but found it difficult to get a visa. Finally, in her third year, she was accepted and received her visa.

This past December, Aghomo won the Young Women in Conservation Biology Award from the Society for Conservation Biology, which recognizes the work of young women in Africa who advance conservation biology.

Recently, Aghomo was back home with her father, who is “so proud of me.”

While she didn’t listen to his advice about staying out of the rainforest, he is pleased that he urged her to pursue her interests to the best of her ability.

“He told me, ‘Do it as well as you can,’” said Aghomo.

Despite the challenge of trekking to parts of a Madagascar rainforest that others don’t generally visit, of following her own path into the forest and of persisting in her efforts to start a PhD program at Stony Brook, Aghomo remains committed to following her own path.

She is hopeful that the discovery of fossils in a few caves in Madagascar leads to additional searches in other rainforests.

After this finding, perhaps paleoanthropologists will “think of searching in Central African countries for fossils.”

As for Ward, she believes the fossilized bones from an extinct species might provide information about human interactions with the world and climate and environmental change that “we might learn from today. There might be lessons about what’s happening now that [we can get] buy looking at what happened in the past.”