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Power of 3

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Benjamin Cowley. Photo courtesy of CSHL Communications

By Daniel Dunaief

Most behaviors involve a combination of cues and reactions. That’s as true for humans awaiting a response to a gesture like buying flowers as it is for a male fruit fly watching for visual cues from a female during courtship. 

The process is often a combination of behaviors and signals, which the visual system often processes as a way of determining the next move in a courtship ritual.

At Cold Spring Harbor Laboratory, Assistant Professor Benjamin Cowley recently published research in the prestigious journal Nature in which he used a so-called deep neural network to mirror the neurons involved in a male fly’s vision as it interacts with a potential female mate.

Working with a deep neural network that reflects the fly’s nerve cells, Cowley created a knockout training process, in which he altered one set of neurons in the model at a time and determined their effect on the model and, with partners who conduct experiments with flies, on the flies themselves.

Cowley’s lab group, which includes from left to right, Rabia Gondur, computational research assistant, Filip Vercuysse, postdoctoral researcher, Benjamin Cowley, and Yaman Thapa, graduate student. Photo by Sue Weil-Kazzaz, CSHl Commnications.

Cowley worked closely with his former colleagues at the Princeton Neuroscience Institute, including Professor Jonathan Pillow and Professor Mala Murthy. His collaborators genetically silenced a fruit fly’s neuron type, observing the changes in behavior. Cowley, meanwhile, trained his deep neural network on this silenced behavior while also “knocking out” model neurons, teaching the model by perturbing it in a similar way to the changes in the fruit fly circuitry.

This approach proved effective, enhancing the ability of these models not only to understand the wiring involved in processing visual information and translating that into behavior, but also to provide potential clues in future experiments about similar cellular dysfunction that could be involved in visual problems for humans.

What researchers can infer about the human visual system is limited because it has hundreds of millions of neurons. The field has taken decades to build artificial visual systems that recognize objects in images. The systems are complex, containing millions of parameters that make them as difficult to explain as the brain itself.

The fly visual system, which is the dominant focus of the fly’s brain, occupying about 70 percent of its 130,000 neurons, provides a model system that could reveal details about how these systems work. By comparison, the human retina has 100 million neurons.

“To build a better artificial visual system, we need to know the underlying mechanisms,” which could start with the fly, Cowley said. “That’s why the fruit fly is so amenable.”

Researchers need to know the step-by-step computations going from an image to neural response and, eventually, behavior. They can use these same computations in the artificial visual system.

‘A suite of tools’

The fly’s visual system is still robust and capable, contributing to a range of behaviors from courtship to aggression to foraging for food and navigating on a surface or through the air as it flies.

The fly “gives us a whole suite of tools we can use to dissect these circuits,” Cowley said.

The fly visual system looks similar to what the human eye has, albeit through fewer neurons and circuits. The fruit fly visual system has strong similarities to the early processing of the human visual system, from the human eye to the thalamus, before it reaches the visual cortex in the occipital lobe.

Interpreting the visual system for the fly will “help us in understanding disorders and diseases in human visual systems,” Cowley said. “Blindness, for the most part, occurs in the retina.”

Blindness may have many causes; a large part of them affect the retina and optic nerve. This could include macular degeneration, cataracts, diabetic retinopathy and glaucoma.

In its own right, understanding the way the visual processing system works in the fly could also prove beneficial in reacting to the threat of invasive species like mosquitoes, which pass along diseases such as malaria to humans.

Visual channels

Anatomists had mapped the fly’s 50 visual channels, called optical glomeruli. In the past decade, researchers have started to record from them. Except in limited cases, such as for escape reflex behaviors, it was unknown what each channel encoded.

Cowley started the research while a postdoctoral researcher at Princeton Neuroscience Institute in Jonathan Pillow’s lab and finished the work while he was starting his own lab at CSHL. Mala Murthy’s lab, who is also at Princeton, performed the silencing experiments on fruit flies, while Cowley modeled the data.

Through hundreds of interactions between the flies in which some part of the fly’s visual system was silenced, Cowley created a model that predicted neuronal response and the behavior of the fly.

The deep neural network model he used deploys a new, flexible algorithm that can learn its rules based on data. This approach can be particularly helpful in situations when researchers have the tools to perturb the system, but they can’t recover or observe every working part.

In some of the experiments, the males became super courters, continuing to engage in courtship activities for 30 minutes, which, given that the fly lives only three weeks, is akin to a date that lasts 25 days.

It is unclear why these flies become super courters. The scientists speculate that silencing a neuron type may keep the male from being distracted by other visual features.

In the experimental part of the experiments, the researchers, including Dr. Adam Calhoun and Nivedita Rangarajan, who both work in Murthy’s lab, tried to control for as many variables as possible, keeping the temperature at 72 degrees throughout the experiment.

“These flies live in nature, they are encountering so much more” than another fly for potential courtship, said Cowley, including the search for food and water.

This research addressed one small part of a behavioral repertoire that reveals details about the way the fly’s visual system works.

A resident of Huntington, Cowley grew up in West Virginia and completed his undergraduate work and PhD at Carnegie Mellon in Pittsburgh.

An avid chess player, which is a field that has included artificial intelligence, Cowley, who spent much of his life in a city, appreciates having a backyard. He has learned to do some landscaping and gardening.

Cowley had been interested in robotics in college, until he listened to some lectures about neuroscience.

As for the next steps in his work, Cowley hopes to add more complex information to his computational system, suppressing combinations of cells to gather a more complete understanding of a complex system in action.

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From left, Nilanjan Chakraborty, Associate Professor in Mechanical Engineering at SBU and IV Ramakrishnan, Professor of Computer Science, demonstrate how CART could hold a cup and move its arm. Photo by John Griffin/SBU

By Daniel Dunaief

Caretakers of those with Amyotrophic Lateral Sclerosis (or “Lou Gehrig’s disease”) have an enormous responsibility, particularly as the disease progresses. People in the latter stages of the disease can require around-the-clock care with everything from moving their limbs to providing sustenance.

IV Ramakrishnan, Professor of Computer Science and an Associate Dean in the College of Engineering and Applied Sciences at Stony Brook University, recently received a $1.5 million grant from the U.S. Army to lead a team that is building a Caregiving Robot Assistant, or CART, for ALS patients and their caregivers. 

The grant, which is for three years, will cover the cost of building, testing and refining a robot that a caregiver can help train and that can provide a helping hand in challenging circumstances.

Using off the shelf robot parts, Ramakrishnan envisions CART as a robotic arm on a mobile base, which can move around and, ultimately, help feed someone, get them some water and help them drink or open and close a door. They are also developing a special gripper that would allow the robotic arm to switch a channel on a TV or move a phone closer.

In working through the grant process, Ramakrishnan emphasized the ability of the robot, which can learn and respond through artificial intelligence programs he will create, to take care of a patient and offer help to meet the needs of people and their caregivers who are battling a progressive disease.

“As the needs evolve, the caregiver can show the robot” how to perform new tasks, Ramakrishnan said.

The project includes collaborators in Computer Science, Mechanical Engineering, Nursing, the Renaissance School of Medicine, and clinical and support staff from the Christopher Pendergast ALS Center of Excellence in the Neuroscience Institute at Stony Brook Medicine.

At this point, Ramakrishnan and his team have sent out fliers to recruit patients and caregivers to understand the physical challenges of daily living. 

Ramakrishnan would like to know “what are the kinds of tasks we should be doing,” he said, which will be different in the stages of the disease. They know what kinds of tasks the robot can do within limits. It can’t lift and move a heavy load.

Once the team chooses the tasks the robot can perform, they can try to program and test them in the lab, with the help of therapists and students from the nursing school.

After they develop the hardware and software to accomplish a set of actions, the team will recruit about a dozen patients who will test the robot for one to two weeks. Members of the ALS community interested in the project can reach out to Ramakrishnan by email.

A biostatistician will be a part of that group, monitoring and calculating the success rate.

At this point, the development and testing of the robot represents a pilot study. After the group has proven it can work, they plan to submit a follow up proposal and, eventually, to apply for approval from the Food and Drug Administration.

Ramakrishnan estimates the robot will cost around $30,000, which is about the same cost as a motorized wheelchair. He is unsure whether Medicare will cover this expense.

As a part of the development, Ramakrishnan recognizes that the first goal, similar to the Hippocratic Oath doctors take, is to do no harm. He and his team are incorporating safety features that make the robot withdraw automatically if it gets too close to someone.

A key part of the team

Members of the CART team: Vibha Mullick, and her husband, ALS patient Anuraag Mullick, are in the center. Back row, from left: Clare Whitney, Nilanjan Chakraborty, Theresa Imperato, C.R. Ramakrishnan, and Wei Zhu. Front row, from left, are Maria Milazzo and I.V. Ramakrishnan. Photo by John Griffin

Vibha Mullick, a Senior Web and Database Analyst in Computer Science and resident of South Setauket, will be a key team member on the project.

Mullick has been caring for her husband Anuraag Mullick, who is 64 and was diagnosed with ALS in 2016. Anuraag Mullick is confined to a wheelchair where he can’t swallow or breathe on his own.

“My husband also wants to participate” in the development, said Mullick, who spends considerable time reading his lips.

Caring for her husband is a full-time job. She said she can’t leave him alone for more than five or 10 minutes, as she has to suction out saliva he can’t swallow and that would cause him to choke. When she’s at work, a nurse takes care of him. At night, if she can’t get a nurse, she remains on call.

If her husband, who is in the last stage of ALS, needs to turn at night, use the bathroom or needs anything he makes a clicking sound, which wakes her up so she can tend to his needs.

 “It tires me out,” Mullick said. In addition, she struggles to take care of typical household chores, which means she can’t always do the dishes or wash the laundry. She suggested a robot could help caregivers as well as ALS patients.

In the earlier stages of ALS, people can have issues with falling. Mullick suggests a robot could steady the person so they can walk. She has shared the news about the project with other members of the ALS community.

“They are excited about it and encouraged,” she said. 

Origin of the project

The idea for this effort started with a meeting between Ramakrishnan and the late Brooke Ellison, a well-known and much beloved Associate Professor at Stony Brook University who didn’t allow a paralyzing car accident to keep her from inspiring, educating and advocating for people with disabilities.

Encouraged by SBU Distinguished Professor Miriam Rafailovich, who was a friend of Ellison’s, Ramakrishnan met with Ellison, whose mother Jean spent years working tirelessly by her side when she earned a degree at Harvard and worked at Stony Brook.

Ramakrishnan, who developed assistive computer interactions technologies for people with vision impairments, asked Ellison what a robot arm could do for her and mean for her. 

He recalled Ellison telling him that a robot arm would “transform my life,” by helping feed her, set her hair, or even scratch an itch.

“That moved me a lot,” said Ramakrishnan.

While CART will work with one population of patients, it could become a useful tool for patients and their caregivers in other circumstances, possibly as a nursing assistant or for aging in place.

Road to Stony Brook

Ramakrishnan, who is a resident of East Setauket, was born in Southern Tamil Nadu in India and attended high school in what was then called Bombay and is now Mumbai.

He earned his undergraduate degree from the Indian Institute of Technology and his PhD from the University of Texas at Austin.

Ramakrishnan is married to Pramila Venkateswaran, an award-winning poet and is retiring this summer after 33 years as a Professor of English at Nassau Community College. The couple has two grown children, Aditi Ramakrishnan, who is a physician scientist at the Washington University in St. Louis and Amrita Mitchell-Krishnan, who is a clinical pediatric psychologist.

As for the work on CART, Ramakrishnan is eager to help patients and caregivers. The ultimate goal is to “reduce the caregiving burden,” he said.

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Camila dos Santos Photo courtesy of CSHL

By Daniel Dunaief

People often think of and study systems or organs in the body as discrete units. 

In a healthy human body, however, these organs and systems work together, sometimes producing signals that affect other areas.

Recently, Cold Spring Harbor Laboratory Associate Professor Camila dos Santos and graduate students Samantha Henry and Steven Lewis, along with former postdoctoral researcher Samantha Cyrill, published a study in the journal Nature Communications that showed a link in a mouse model between persistent bacterial urinary tract infections and changes in breast tissue.

The study provides information about how a response in one area of the body could affect another far from an infection and could provide women with the kind of information that could inform the way they monitor their health.

To be sure, dos Santos and her graduate students didn’t study the processes in humans, which could be different than they are in mice.

Indeed, they are in the process of establishing clinical studies to check if UTIs in women drive breast alterations.

The body’s response

In this research, the scientists demonstrated that an unresolved urinary tract infection itself wasn’t causing changes in breast tissue, but that the body’s reaction to the presence of the bacteria triggered these changes.

By treating the urinary tract infections, Henry and Lewis showed that breast cells returned to their normal state.

Further, when they didn’t treat the UTI but blocked the molecule TIMP1, which causes collagen deposits and milk duct enlargements, the breast cells returned to their normal state.

The TIMP1 role is “probably the main eureka moment,” said Lewis, who is an MD/ PhD student at Stony Brook University. “It explains how an infection in the bladder can change a faraway tissue.”

Lewis suggested that collagen, among other factors, changes the density of breast tissue. When women get a mammography, doctors are looking for changes in the density of their breasts.

Taking a step back from the link, these graduate students and dos Santos considered whether changes in the breast tissue during an infection could provide an evolutionary benefit.

“From an evolutionary standpoint, there should be some adaptive advantage,” suggested Henry, who is earning her PhD in genetics at Stony Brook University and will defend her thesis in July. Speculating on what this might be, she suggested the mammary gland might change in response to an infection to protect milk production during lactation, enabling a mother to feed her young.

Epidemiological studies

A link between persistent UTIs and breast cancer could show up in epidemiological studies.

Dos Santos and collaborators are exploring such questions in the context of European data and are working with US collaborators to collect this information.

In addition, dos Santos believes women should consider how other ongoing threats to their overall health impact their bodies. Women with clinical depression, for example, have worse prognoses in terms of disease. Humans have health threats beyond UTIs that could predispose them to developing cancer, dos Santos said.

Division of labor

Henry and Lewis took over a study that Samantha Cyrill, the third co-first author on the paper started. When Cyrill finished her postdoctoral work, Henry and Lewis “put on their capes and said, ‘We are going to take this to the end line.’ They are incredible people,” said dos Santos.

They each contributed to the considerable work involved.

Henry primarily analyzed the single cell RNA sequencing data, specifically identifying changes in the epithelial compartment. Gina Jones, a visiting CSHL undergraduate research program student, and Lewis also contributed to this.

Henry also participated in TIMP1 neutralizing antibody treatment in post-lactation involution mice, contributing to tissue collection and staining.

Working with Cyrill and Henry, Lewis contributed to the mouse work, including experiments like neutralizing TIMP1 and CSF3. Lewis also worked with Cyrill on the UTI infections in the animals and with Henry in processing tissues for single cell RNA sequencing and assisted Henry on the sequencing analysis.

While this result is compelling and offers an opportunity to study how an infection in an area of the body can trigger changes in another, dos Santos recognized the inherent risk in a new project and direction that could have either been disconnected or a been a dead end.

“It was an incredible risk,” said dos Santos. She was rejected from at least four different funding opportunities because the research is “so out there,” she said. She tapped into foundations and to CSHL for support.

Back stories

A resident of Brooklyn, Lewis was born in Queens and raised in Scarsdale. He joined the dos Santos lab in March of 2021. One of the appeals of the dos Santos lab was that he wanted to understand how life history events drive disease, especially breast cancer.

A big Mets fan, Lewis, whose current favorite payer is Pete Alonso, is planning to run his third marathon this fall.

Lewis is dating Sofia Manfredi, who writes for Last Week Tonight with John Oliver and accepted an Emmy award on behalf of the staff.

Lewis considers himself Manfredi’s “biggest cheerleader,” while he appreciates how well she listens to him and asks important questions about his work.

As for Henry, she grew up in Greenport. She joined the lab in May of 2020 and is planning to defend her thesis in July.

Her father Joseph Henry owns JR Home Improvements and her mother Christine Thompson worked as a waitress and a bartender in various restaurants.

Henry is married to Owen Roberts, who is a civil engineer and works in the Empire State Building for HNTB as a civil engineer, where he focuses on traffic.

Henry hopes to live in Boston after she graduates. She’s adopted the rooting interests of her husband, who is a fan of Beantown teams, and will support the Bruins and the Celtics. A lifelong Yankees fan, however, Henry, who watched the Bronx Bombers with her father growing up, draws the line at supporting the “Sawx.”

As for the work, Henry and Lewis are excited to see what the lab discovers in the next steps.

“I do think this work is extremely informative, defining a relationship between an infection, UTI, and the mammary gland that has not previously been appreciated,” Henry explained.

“This provides information to the public,” said Henry. “I always think it is worth knowing how different events may impact your body.”

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Gabrielle Pouchelon with technician Sam Liebman. Photo by Constance Brukin/CSHL

By Daniel Dunaief

Gabrielle Pouchelon doesn’t need to answer the age-old debate about heredity vs. environment. When it comes to the development of the brain, she’s studying the response both to sensory cues and genetics.

Gabrielle Pouchelon.
Photo courtesy of CSHL

An Assistant Professor who joined Cold Spring Harbor Laboratory in March of 2022, Pouchelon studies the interplay between sensory and neuromodulatory inputs and genetic programs in circuit maturation. She also studies other neuromodulatory inputs, usually associated with states of adulthood, which could control development.

A combination of genetics and environment shapes the way neurons connect in a healthy brain. In people who develop non-neurotypical behaviors, through autism, schizophrenia or other conditions, the development of neurological connections and architecture is likely different.

Researchers have associated genes of susceptibility with schizophrenia and autism spectrum disorders. Scientists believe environmental cues provide the brain with activity that interact with these genetic components.

“We are trying to understand whether we can [intervene] earlier that can have different outcomes at later times,” said Pouchelon. “We are studying ways to intervene with these transient processes and examine whether dysfunctions associated with the disorders are improved.”

During critical periods of development, the brain has a high level of plasticity, where various inputs can alter neurons and their connections. This not only involves building connections, but sometimes breaking them down and rebuilding other ones. As people age, that plasticity decreases, which is why children learn faster than adults in areas such as the acquisition and development of language skills.

While the timing of critical periods is less well-defined in humans and language is a complex function, the ability to learn new languages at a young age reflects the high plasticity of the brain.

Scientists are studying language processes, which are specific to humans, with functional magnetic resonance imaging.

Pouchelon, who isn’t studying language skills, hopes that understanding the architecture of developing brains and how they respond to sensory and neuromodulatory cues could shed light on the studies performed in humans. Since behavioral therapy and pharmaceutical treatments can help children with autism, she believes understanding how external cues affect genetic elements could uncover drug targets to alleviate symptoms of neurodevelopmental disorders at an early age.

Neurons & the environment

From left, technician Sam Liebman, Gabrielle Pouchelon and postdoctoral researcher Dimitri Dumontier. Photo courtesy of Gabrielle Pouchelon

In her lab, which currently includes three researchers but she expects to double within a month, Pouchelon uses sophisticated tools to target not only the effect of the environment, but also to look at the specific neurons that transmit information.

She is trying to “understand at a very precise level what a sensory input means and what are the neurons that integrate that sensory input.”

Sam Liebman, who became a technician in Pouchelon’s lab two years ago after graduating from the University of Vermont, appreciates the work they’re doing and her mentorship.

The lab is “unique and special” because he has that “close relationship” in what is now a smaller lab with Pouchelon, Liebman said.

Growing up in Huntington, Liebman, who hopes to go to graduate school in the fall of 2025, came to Cold Spring Harbor Laboratory for field trips in middle school and high school.

“I idolized this place and this campus,” said Liebman.

Pouchelon has asked for Liebman’s opinion on potential candidates to join the lab, even summer interns.

Fragile X Syndrome

Most of the work Pouchelon conducts is done on animal models. She is mainly studying animals with a mutation linked to Fragile X Syndrome. 

In Fragile X Syndrome, which can affect boys and girls, children can have developmental delays, learning disabilities and social and behavioral problems. Boys, according to the Centers for Disease Control and Prevention, typically have some degree of intellectual disability, while girls can have normal intelligence or some degree of intellectual disability.

Other models for autism exist, such as genetic mutations in the gene Shank3. “We are trying to utilize these models to apply what we understand of development in brains that are healthy and compare them” to the mutated models, Pouchelon explained.

While clinical trials are exploring receptors as drug targets for Fragile X Syndrome, she hopes to find new ones that are selective in early stages of the disease to modify their use depending on the stages of development.

An annoying nerd

Born and raised in Paris, France to a family that showed considerably more artistic talent than she, Pouchelon struggled with games she and her sisters played when they listened to music on the radio and they had to guess the composer.

“I was the one always losing,” said Pouchelon. Her family, including her two older sisters who currently live in France, knew “way more about art and history than I did. I was the nerd scientist.”

When she was young, she was curious and asked a lot of “annoying questions” because she was interested in the “mystery of everything.” In high school, she became interested in the brain.

Pouchelon, who isn’t actively searching for French food but finds the baguettes at the Duck Island Bakery exceptional, lives on the Cold Spring Harbor Laboratory campus with her husband Djeckby “DJ” Joseph, a naturalized American citizen originally from Haiti who works in law enforcement at the VA Hospital in Manhattan, and their two-year old son Theo.

Eager to ensure her son benefits from a multicultural identity, Pouchelon speaks to Theo in French. He also attends on campus day care, where he learns English.

As for the decision to come to Cold Spring Harbor Laboratory, Pouchelon, who conducted her PhD research at the University of Geneva in Switzerland and completed her postdoctoral research at New York University and at Harvard Medical School, is thrilled to discuss her work with the talented and collegial staff at the lab.

Cold Spring Harbor Laboratory, which is known internationally for meetings and courses, is an “exciting place” where scientists conduct cutting edge research.

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Ellen Pikitch. Photo by Tyler Mooney

By Daniel Dunaief

Five decades after graduating from John Dewey High School in Coney Island, Ellen Pikitch recently received an award from a group founded by one of her high school teachers.

Lou Siegel, one of the founders and Nassau County Director of the New York State Marine Education Association (NYSMEA), helped present the Hugo and Anita Freudenthal Award for contributions to furthering scientists’ understanding of the marine environment to his former student by zoom on April 20th.

“It’s wonderful when you have students that follow the same interests that you’ve had,” said Siegel. “Not only has she done excellent work in the field, but she worked to popularize it and to get it out to the general public.”

Endowed Professor of Ocean Conservation Science in the School of Marine and Atmospheric Sciences at Stony Brook University, Pikitch, who grew up in Bensonhurst, Brooklyn, a short train ride from the New York Aquarium, and who said she knew she wanted to be a marine biologist “from the time I was born,” has tackled marine conservation issues from several perspectives.

Anita Freudenthal and the late Hugo Freudenthal, who died in 2021. Photo courtesy of NYSMEA

Pikitch, Distinguished Professor Christopher Gobler and Associate Professor Bradley Peterson worked to restore Shinnecock Bay by planting filter feeders such as hard clams and oysters and reseeding seagrass beds, which have cleaned the waters and prevented the appearance of brown tides. For at least five years, Shinnecock Bay hasn’t had any brown tides, breaking a decades-long cycle.

Indeed, Mission Blue named Shinnecock Bay, which is home to a range of biodiversity including dolphins, a wide variety of fish and birds and, occasionally, sharks, as the first Hope Spot in the state of New York. Other Hope Spots include global attractions such as The Galapagos Islands, the Sargasso Sea and the Ross Sea in Antarctica.

At the same time, Pikitch has been involved in numerous efforts on a global scale to conserve ocean regions through Marine Protected Areas. Working with a group of 42 scientists, she helped develop a framework to understand, plan, establish, evaluate and monitor marine protected areas.

Pikitch is following in the footsteps of the Freudenthals for whom the award and recognition is named, as the married couple were involved in a range of local, national and global projects.

Hugo Freudenthal was “the first person to recognize the symbiotic relationship between algae and corals,” said Pikitch. He was also involved in the creation of the first space toilet, designed in the 1970’s for the Skylab, which was America’s first space station and the first crewed research lab in space.

In an amusing presentation called “Turds in Space” at the Experimental Aircraft Association three years ago that is available online at Turds In Space by Hugo D Freudenthal, PhD, Freudenthal explained how he helped design a toilet that would work in zero gravity, which, he said, “was one of the few things on Skylab that worked perfectly.”

The toilet had a soft seat, which was like a saddle, that was lined with holes on the outside and had vectored air coming in from the sides, which brought the feces down into a collection device, the late Hugo Freudenthal described in the video.

Anita Freudenthal, meanwhile, was the first female marine biologist in Nassau County. She also taught and did research at C.W. Post.

“Both of them were accomplished,” said Pikitch. “I’m excited and honored to have received [the award].”

Humble origins

The granddaughter of immigrants who didn’t speak English, Pikitch came from humble origins, as her parents had high school educations.

Pikitch volunteered at the New York Aquarium during high school, where her job was to stand in front of the shark tank and talk about sand tiger sharks.

Living near the aquarium, which is on the beach in Coney Island, strengthened her interest in marine biology. During summer in her childhood, Pikitch and her family took day trips near and in the water, which cultivated her love of the ocean.

Despite her passion for marine biology, Pikitch came from limited means. She credits her high school teachers, including Siegel and math teacher David Hankin for directing her to pursue degrees in higher education.

Ongoing work

For five years, Pikitch has been using eDNA to study biodiversity in various aquatic habitats.

With eDNA, scientists take environmental DNA from water samples that contain the genetic material shed from scales, fins, tissues, secretions and oils of the organisms living in the water. The genetic material generally lasts about 12 to 24 hours in shallow, warm water.

Environmental DNA has numerous benefits, including that it doesn’t disrupt the ecosystem by removing or harming individuals and it collects DNA from fish and other aquatic organisms that might otherwise be too small, too large or too quick for a trawling net to capture them.

Hugo & Anita Freudenthal Research Award. Photo courtesy of NYSMEA

Through an eDNA sample, Pikitch was surprised to find DNA from a basking shark, which is the second largest living shark after the whale shark.

She and other scientists saw a picture in a local newspaper of a basking shark soon after the eDNA sample revealed its presence.

To be sure, an eDNA sample, could, theoretically, include DNA from species outside the range of a sampled environment. Pikitch uses multiple survey methods besides eDNA.

Indeed, she plans to submit a few manuscripts that are in the works later this year that will compare the range of biodiversity from eDNA samples with the species collected from trawling.

This fall, she’s planning to use high tech equipment that has never been used together before, deploying an uncrewed surface vehicle (or USV) to collect and analyze samples.

Powered by solar energy, the USV doesn’t emit any greenhouse gases and is self-righting, which means that a hurricane could knock it over and, like a Weebles Wobble, it would adjust back to a vertical position in the water.

Pikitch hopes to collect samples off the waters of the Shinnecock Nation. She is involved in consultations with the Shinnecock Nation and is optimistic about a fall collaboration.

Pikitch hopes the eDNA sensor expedition will provide a proof of concept that will encourage other scientists to bring this technology out to remote areas of the ocean, which could help address questions of where to create and monitor the biodiversity of other marine protected areas.

As for the award, Siegel, who helped found the NYSMEA in the same year Pikitch graduated from high school 50 years ago, understands the excitement of the student-teacher connection from the student side as well. Anita and Hugo Freudenthal were his professors at C.W. Post when he earned a master’s in Marine Science.

“It’s like a family tree,” Siegel explained.

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Above, the Condor telescope in New Mexico which is a model for a similar telescope Lanzetta will be building this year in Chile as a Fulbright Scholar. Photo courtesy of Condor Team

By Daniel Dunaief

Five years later, Kenneth Lanzetta is bringing a telescope to Chile.

Professor Kenneth Lanzetta, PhD
Photo courtesy SBU

In 2019, Lanzetta, who is a Professor in the Department of Physics and Astronomy at Stony Brook University, was planning to install a sophisticated state-of-the-art telescope in Chile that could look deep into the dark night sky for low-surface brightness and point sources. The onset of Covid in early 2020, however, disrupted that plan, as Chile closed its borders, leaving him scrambling to find a new site.

“I looked for an alternative I could drive to,” said Lanzetta, as flying was strongly discouraged.

He settled on the Dark Sky New Mexico observatory near Animas to set up a Condor Array Telescope.

Lanzetta had various manufacturers ship components to the site. At the end of 2020, he, his wife Robin Root, and his daughter Ciara drove across the country.

He had originally intended to spend about two weeks in the state. After many problems and delays, he and his wife stayed for more than four months, until early 2021. Ciara returned to college in London in the middle of January.

Lanzetta and Root moved every two weeks, expecting that they would be able to return to Long Island. Each time, delays in the project extended their stay. They figured they visited almost every airbnb in the area.

“I spent Covid in a very isolated part of New Mexico and I didn’t have to be back in Stony Brook,” Lanzetta said. “I had the ability to teach online.”

A view created by Condor and computer technologies of extremely faint shells of ionized gas surrounding the dwarf nova Z Camelopardalis.
Photo from Kenneth M. Lanzetta

While the New Mexico site worked out better than he could have imagined, producing enough information to leave him “awash in data” as he works to publish his findings, Lanzetta is planning to spend the next academic year in Chile. He will split his time between Concepción, Santiago, San Pedro and Cerro Taco, which is where he will install the new Condor telescope at an altitude of 5,200 meters, or 17,060 feet at Atacama National Park.

Lanzetta will serve as a Fulbright Scholar for the 2024-2025 academic year.

The Fulbright scholarship “recognizes the potential of the ‘Condor Array Telescope’ that is based on a possibly paradigm shifting astronomical telescope technology,” Chang Kee Jung, Distinguished Professor and Chair of the Department of Physics and Astronomy, said in a statement. “Deploying Condor in Atacama, a premier site for telescopes, opens up a greater opportunity for discoveries.”

That altitude and the expected clear skies in the South American nation will give Lanzetta and his colleagues an opportunity to study extremely faint images that would otherwise be more challenging or even impossible to see from other locations. The good weather and dark conditions also help.

Kenneth Lanzetta in the Atacama Desert. Photo by Robin Root.

The park has a road for access and an optical fiber connection, which makes it possible for him to do what they want to do at the site.

The site is at a high enough altitude that Lanzetta will need to breathe bottled oxygen.

The Stony Brook scientist will build as much of the telescope as he can at a lower elevation, ship it to the site and bolt it in place.

The Condor telescope will use refracting optics from several smaller telescopes into the equivalent of one larger telescope that uses newer and faster complementary metal oxide semiconductor sensors.

Most, but not all, of the components of the telescope are off the shelf. The recent development of extremely capable CMOS sensors, which are used in cell phones, back up cameras for cars and in industry, were not available in an inexpensive commercial format as recently as five years ago.

What Lanzetta plans to do in Chile is replicate the successful effort in New Mexico to capture more light signals in space that are beyond the limits of what conventional telescopes can distinguish.

He plans to create a telescope that, when it functions as it should, can operate autonomously, allowing him to control it from anywhere in the world as it transmits data back to his computers at Stony Brook.

New Mexico results

Lanzetta recently returned from an international conference in Aspen, Colorado, where he presented several results.

Condor revealed intergalactic filaments, which might provide glimpses of the cosmic web. He is actively working on this.

Computer simulations of structure formation in the universe has shown how structure came to be from a universe that was initially smooth.

The simulations suggest dark matter is distributed in a hierarchical fashion, with superclusters, clusters and groups of galaxies connected by filamentary structures that resemble a cosmic web.

Lanzetta has been working to see glowing gas of the cosmic web and he and his colleagues believe it is within reach of the current and the new Condor Atacama.

Higher than Chile?

With the increased visibility at the higher altitude site in Chile, researchers recognize that gathering information even further up in the atmosphere increases the likelihood of finding images from faint objects.

At the Aspen conference, scientists discussed the possibility of launching telescopes designed to study the extremely faint universe on balloons, which might be faster and cheaper than attempting to do this from space.

A resident of Smithtown, Lanzetta lives with his wife Root, who is planning to spend the year in Chile with him. Lanzetta’s son Ryan is finishing his PhD in theoretical condensed matter physics at the University of Washington, while his daughter Ciara is finishing her master’s degree in costume design at the University of Glasgow in Scotland.

Growing up in Warminster, Pennsylvania, Lanzetta and his father Anthony used to build things together. When he was 13, Lanzetta had an advanced class radio license. His father helped put together a radio transmitter and receiver and they installed various antennas on the roof.

His father had an undergraduate degree in physics and worked as an engineer. With Ryan’s educational experience, the family has three generations of Lanzettas with degrees in physics.

Lanzetta’s father had a telescope that they used to look at the moon and Saturn. In 1969, when astronauts Neil Armstrong and Buzz Aldrin were walking on the moon, he recalls his father telling him the astronauts were too small to see.

“This is what I was going to do from the time I was conscious,” he said. “It was always the way it was going to be.” 

Indeed, Lanzetta realizes how “lucky I’ve been to be able to spend my entire life” doing this work.

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Joshua Homer. Photo by Constance Burkin

By Daniel Dunaief

Even as some antibiotics and anti cancer treatments help beat back infections and diseases such as cancer, pathogens and diseases can develop resistance that render these treatments less effective.

Researchers at pharmaceutical companies and universities spend considerable time trying to ensure therapies continue to work. Companies make derivatives of existing drugs or they combine drugs to reduce resistance. They also develop new agents to combat drug-resistant tumors.

Using a chemical process that won his mentor K. Barry Sharpless a Nobel Prize, John Moses, a Professor at Cold Spring Harbor Laboratory, has deployed a new version of click chemistry to assemble biologically active compounds quickly and effectively, which could be used for further development into potential therapies.

Akin to fastening a seatbelt or assembling LEGO blocks, click chemistry benefits from an efficient system to create reliable end products, with the additional advantage of minimizing waste products or impurities.

Recently, Research Investigator Joshua Homer, who has been in Moses’s lab for over three years, published a paper in Chemical Science in which he created several libraries of over 150 compounds. He screened these for activity in anticancer or antibiotic assays.

The newer click process, called Accelerated SuFEx Click Chemistry, or ASCC, involves “less synthetic steps,” said Homer. ASCC can use functional groups like alcohols, that are naturally found in numerous commercially available compounds, directly. Homer can and has used commercially available alkyl and aryl alcohols as fragments in this application of ASCC.

This approach “allows us to explore chemical space so much faster,” Homer said.

In an email, Moses suggested that the paper “demonstrates that SuFEx chemistry can be a feasible and speedy approach compared to traditional methods.”

To be sure, the products could still be a long way from concept to bedside benefit.

“It’s important to note that while the chemistry itself shows promise, the actual application in drug development is complex and can take many years,” Moses added.

The research contributed to finding compounds that may be promising in treating various conditions and represent initial findings and potential starting points for further development, Homer added.

Specifically, Homer took inspiration from the structure of combrestastatin A4 when developing microtubule targeting agents.

The chemicals he produced had good activity against drug-resistant cancer cell lines that resist other treatment options.

Homer also modified the structure of dapsone, generating a derivative with greater activity against a strain of M. tuberculosis that is otherwise resistant to dapsone. 

“Strains of bacteria develop resistance to antibiotics,” said Homer. Derivatization of antibiotic structures can generate compounds that maintain activity.

Breast cancer

In creating these compounds, Homer bolted on different commercially available fragments and developed potential nano-molar treatments that could be effective against triple-negative breast cancer.

At this point, he has evaluated two lead agents in two dimensional cell culture and against patient-derived organoids. Homer did this work in collaboration with the lab of CSHL Cancer Center director David Tuveson.

Organoids can help gauge the potential response of a patient’s tumor to various treatments.

Homer found that eight of the microtubule targeting agents were more potent than colchicine against HCT-15. This cancer cell line, he explained, is known to have upregulated efflux, which is a major cause of drug resistance in cancer cells.

His compounds maintained a similar potency between two dimensional cell lines and organoids. Often, compounds are less potent in organoids, which makes this a promising discovery.

Making molecules and screening them for function to discover lead candidates is one of the first steps in the drug discovery process, with considerable optimization and regulatory steps necessary to generate a drug for the clinic.

Promising treatments sometimes also cause cellular damage in healthy tissue, which reduces the potential benefit of any new treatment. Effective cancer drugs are selective for cancer cells over normal cells.

At this point, the molecules Homer creates involve a search for function, he said. “Once we identify the reaction, we can remake our molecule to confirm it is our compound that is causing a reaction.”

Click chemistry doesn’t necessarily lead to solutions, but it enables scientists and drug companies to create and test molecules more rapidly and with considerably less financial investment.

Click solutions

Click chemistry has affected the way Homer thinks about problems outside the lab.

“I think more about doing things quickly and how to tackle the issues we face, rather than using brute force in one direction,” he said. “We can go in lots of directions and probe. We should be looking at all sorts of baskets at once to solve the issues we have.”

Originally from Tauranga, New Zealand, Homer enjoys traveling around the country, visiting new cities and interacting with different people. A resident of Huntington, Homer is looking forward to an upcoming visit from his parents Dave and Debbie and his aunt Carol, who are making their first trip to the continental United States.

“One of my favorite things about being a scientist is that I can bring my parents out of their comfort zone,” he said. His parents live on a small lifestyle block with several sheep and chickens.

Moses lauded the contributions Homer has made to the lab, including providing mentorship to other students.

As for click chemistry, Homer appreciates how the reactions create opportunities even for those without advanced backgrounds in chemistry.

Click chemistry creates the opportunity to help non-scientists understand scientific concepts more easily.

“I can give a high school student the reagents and substrates and they can reliably make biologically active anticancer agents or antibiotics,” he said. “That helps connect science and drug discovery with the community.”

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Brookhaven Lab biologist Meng Xie and postdoctoral fellow Dimiru Tadesse with sorghum plants like those used in this study. Note that these plants are flowering, unlike those the scientists engineered to delay flowering indefinitely to maximize their accumulation of biomass. Photo by Kevin Coughlin/ BNL

By Daniel Dunaief

A traffic light turns green and a driver can make a left turn. Similarly, plants on one path can change direction when they receive a particular signal. In the case of the sorghum plant, the original direction involves growth. A series of signals, however, sends it on a different trajectory, enabling the plant to flower and reproduce, halting the growth cycle.

Brookhaven Lab biologist Meng Xie and postdoctoral fellow Dimiru Tadesse in the lab. Photo by Kevin Coughlin/ BNL

Understanding and altering this process could allow the plant to grow for a longer period of time. Additional growth increases the biomass of this important energy crop, making each of these hearty plants, which can survive in semiarid regions and can tolerate relatively high temperatures, more productive when they are converted into biomass in the form of ethanol, which is added to gasoline.

Recently, Brookhaven National Laboratory biologist Meng Xie teamed up with Million Tadege, Professor in the Department of Plant and Soil Science at Oklahoma State University, among others, to find genes and the mechanism that controls flowering in sorghum.

Plants that produce more biomass have a more developed root system, which can sequester more carbon and store it in the soil.

The researchers worked with a gene identified in other studies called SbGhd7 that extends the growth period when it is overexpressed.

Validating the importance of that gene, Xie and his colleagues were able to produce about three times the biomass of a sorghum plant compared to a control that flowered earlier and produced grain.

The plants they grew didn’t reach the upper limit of size and, so far, the risk of extensive growth  that might threaten the survival of the plant is unknown.

Researchers at Oklahoma State University conducted the genetic work, while Xie led the molecular mechanistic studies at BNL.

At OSU, the researchers used a transgenic sorghum plant to over express the flowering-control gene, which increased the protein it produced. These plants didn’t flower at all.

“This was a dramatic difference from what happens in rice plants when they overexpress their version of this same gene,” Xie explained in a statement. “In rice, overexpression of this gene delays flowering for eight to 20 days — not forever!”

In addition to examining the effect of changing the concentration of the protein produced, Xie also explored the way this protein recognized and bound to promoters of its targets to repress target expression.

Xie did “a lot of molecular studies to understand the underlying mechanism, which was pretty hard to perform in sorghum previously,” he said.

Xie worked with protoplasts, which are plant cells whose outer wall has been removed. He inserted a so-called plasmid, which is a small piece of DNA, into their growth medium, which the plants added to their DNA.

The cells can survive in a special incubation/ growth medium, enabling the protoplasts to incorporate the plasmid.

Sorghum plant. Photo by Kevin Coughlin/ BNL

Xie attached a small protein to the gene so they could monitor the way it interacted in the plant. They also added antibodies that bound to this protein, which allowed them to cut out and observe the entire antibody-protein DNA complex to determine which genes were involved in this critical growth versus flowering signaling pathway.

The flowering repressor gene bound to numerous targets. 

Xie and his BNL colleagues found the regulator protein’s binding site, which is a short DNA sequence within the promoter for each target gene.

Conventional wisdom in the scientific community suggested this regulator protein would affect one activator gene. Through his molecular mechanistic studies, Xie uncovered the interaction with several genes.

“In our model, we found that [the signaling] is much more complicated,” he said. The plant looks like it can “bypass each [gene] to affect flowering.”

Regulation appears to have crosstalk and feedback loops, he explained.

The process of coaxing these plants to continue to grow provides a one-way genetic street, which prevents the plant from developing flowers and reproducing.

These altered plants would prevent any cross contamination with flowering plants, which would help scientists and, potentially down the road, farmers meet regulatory requirements to farm this source of biomass.

Ongoing efforts

The targets he found, which recognize the short sequence of DNA, also appears in many other flowering genes.

Xie said the group’s hypothesis is that this regulator in the form of this short sequence of DNA also may affect flowering genes in other plants, such as maize and rice.

Xie is continuing to work with researchers at OSU to study the function of the numerous targets in the flowering and growth processes. 

He hopes to develop easy ways to control flowering which might include spraying a chemical that blocks flowering and removing it to reactive reproduction. This system would be helpful in controlling cross contamination. He also would like to understand how environmental conditions affect sorghum, which is work he’s doing in the lab. Down the road, he might also use the gene editing tool CRISPR to induce expression at certain times.

Honing the technique to pursue this research took about four years to develop, while Xie and his students spent about a year searching for the molecular mechanisms involved.

Rough beginning

Xie departed from his post doctoral position at Oak Ridge National Laboratory in March of 2020, when he started working at BNL. That was when Covid altered people’s best-laid plans, as he couldn’t come to the lab to start conducting his research for about six months. 

Born in Shanxi province in China, Xie and his wife Jingdan Niu live in Yaphank and have a two-year old son, Felix Xie.

When he was growing up, Xie was interested in math, physics, chemistry and biology. As an undergraduate in Beijing, Xie started to learn more about biology and technology, which inspired him to enter this field.

Biotechnology “can change the world,” Xie said.

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Tobias Janowitz and Hassal Lee. Photo by Caryn Koza

By Daniel Dunaief

Before treatments for any kind of health problem or disease receive approval, they go through a lengthy, multi-step process. This system should keep any drugs that might cause damage, have side effects or be less effective than hoped from reaching consumers.

In the world of cancer care, where patients and their families eagerly await solutions that extend the quality and quantity of life, these clinical trials don’t always include the range of patients who might receive treatments.

Hassal Lee. Photo by Caryn Koza

That’s according to a recent big-picture analysis in the lab of Cold Spring Harbor Laboratory Professor Tobias Janowitz. Led by clinical fellow Hassal Lee, these researchers compared where clinical trials occurred with the population near those centers.

Indeed, 94 percent of United States cancer trials involve 78 major trial centers, which were, on average, in socioeconomically more affluent areas with higher proportions of self-identified white populations compared with the national average.

“We should test drugs on a similar population on which we will be using the drugs,” said Lee. In addition to benefiting under represented groups of patients who might react differently to treatments, broadening the population engaged in clinical trials could offer key insights into cancer. Patient groups that respond more or less favorably to treatment could offer clues about the molecular biological pathways that facilitate or inhibit cancer.

Janowitz suggested that including a wider range of patients in trials could also help establish trust and a rapport among people who might otherwise feel had been excluded.

The research, which Lee, Janowitz and collaborators published recently as a brief in the journal JAMA Oncology, involved using census data to determine the socioeconomic and ethnic backgrounds of patient populations within one, two and three hour driving distances to clinical trials.

The scientists suggested researchers and drug companies could broaden the patient population in clinical trials by working with cancer centers to enlist trial participants in potential life-extending treatments through satellite hospitals.

Project origins

This analysis grew out of a study Janowitz conducted during the pandemic to test the effectiveness of the gerd-reducing over-the-counter drug famotidine on symptoms of Covid-19.

Janowitz generally studies the whole body’s reaction to disease, with a focus on cancer associated cachexia, where patients lose considerable weight and muscle mass. During the pandemic, however, Janowitz, who has an MD and PhD, used his scientific skills to understand a life-threatening disease. He designed a remote clinical trial study in which participants took famotidine and monitored their symptoms.

While the results suggested that the antacid shortened the severity and duration of symptoms for some people, it also offered a window into the way a remote study increased the diversity of participants. About 1/3 of the patients in that population were African American, while about 1/4 were Hispanic.

Lee joined Janowitz’s lab in early 2022, towards the end of the famotidine study. 

“The diverse patient population in the remote trial made us wonder if commuting and access by travel were important factors that could be quantified and investigated more closely,” Janowitz explained.

Lee and Janowitz zoomed out to check the general picture for cancer clinical trials.

To be sure, the analysis has limitations. For starters, the threshold values for travel time and diversity are proof of concept examples, the scientists explained in their paper. Satellite sites and weighted enrollment also were not included in their analysis. The cost other than time investment for potential clinical trial participants could present a barrier that the researchers didn’t quantify or simulate.

Nonetheless, the analysis suggests clinical trials for cancer care currently occur in locations that aren’t representative of the broader population.

The work “leveraged freely available data and it was [Lee’s] effort and dedication, supported by excellent collaborators that we had, that made the study possible,” Janowitz explained.

Since the paper was published, Cancer Center directors and epidemiologists have reached out to the CSHL scientists.

Searching for clinical research

After Lee, who was born in Seoul, South Korea and moved to London when she was five, completed her MD and PhD at the University of Cambridge, she wanted to apply the skills she’d learned to a real-world research questions.

She found what she was looking for in Janowitz’s lab, where she not only considered the bigger picture question of clinical trial participation, but also learned about coding, which is particularly helpful when analyzing large amounts of data.

Lee was particularly grateful for the help she received from Alexander Bates, who, while conducting his own research in a neighboring lab in the department of Neurobiology at the MRC Laboratory of Molecular Biology in Cambridge, offered coding coaching.

Lee described Bates as a “program whiz kid.”

A musician who enjoys playing classical and jazz on the piano, Lee regularly listened to music while she was in the lab. Those hours added up, with Spotify sending her an email indicating she was one of the top listeners in the United Kingdom. The music service invited her to an interview at their office to answer questions about the app, which she declined because she had moved to the United States by then.

The top medical student at Cambridge for three years, Lee said she enhanced her study habits when she felt unsure of herself as a college student.

She credits having great mentors and supportive friends for her dedication to work.

Lee found pharmacology one of the more challenging subjects in medical school, in part because of the need to remember a large number of drugs and how they work.

She organized her study habits, dividing the total number of drugs she needed to learn by the number of days, which helped her focus on studying a more manageable number each day.

Lee will be a resident at Mt. Sinai Hospital later this year and is eager to continue her American and New York journey.

As for the work she did with Janowitz, she hopes it “really helps people think about maintaining diversity in clinical trials using data that’s already available.”

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From left, Juan Jimenez and Sanjaya Senanayake in front of CO2 and Methane Conversion Reactor Units in the Chemistry Division at Brookhaven National Laboratory. Photo by Kevin Coughlin/BNL

By Daniel Dunaief

If we had carbon dioxide glasses, we would see the gas everywhere, from the air we, our pets, and our farm animals exhale to the plumes propelled through the smokestacks of factories and the tail pipes of gas-powered cars.

Juan Jimenez. Photo by Kevin Coughlin/BNL

A waste product that scientists are trying to reduce and remove, carbon dioxide is not only a part of the photosynthesis that allows plants to convert light to energy, but it also can be a raw material to create usable and useful products.

Juan Jimenez, a postdoctoral researcher and Goldhaber Fellow at Brookhaven National Laboratory, has been working with carbon dioxide for the last 10 years, in his undergraduate work at CUNY City College of New York, for his PhD at the University of South Carolina and since he arrived at BNL in 2020. 

Jimenez contributed to a team led by engineers at the University of Cincinnati to create a way to improve the electrochemical conversion of this greenhouse gas into ethylene, which is an important ingredient in making plastics as well as in manufacturing textiles and other products.

University of Cincinnati Associate Professor Jingjie Wu recently published work in the journal Nature Chemical Engineering in which they used a modified copper catalyst to improve the electrochemical conversion of carbon dioxide into ethylene.

“I’m always looking out to collaborate with groups doing cutting edge research,” explained Jimenez, who spearheaded the research at the National Synchrotron Lightsource II. “Since the work on CO2 is a global concern we require a global team” to approach solutions.

Jimenez is fascinated with carbon dioxide in part because it is such a stable molecule, which makes reacting it with other elements to transform it into something useful energy intensive.

A modified copper catalyst helped convert more carbon dioxide, which breaks down into two primary carbon-based products through electrocatalysis, into ethylene, which has been called the “world’s most important chemical.”

“Our research offers essential insights into the divergence between ethylene and ethanol during electrochemical CO2 reduction and proposes a viable approach to directing selectivity toward ethylene,” UC graduate student Zhengyuan Li and lead author on the paper, said in a statement.

A previous graduate student of Wu, Li helped conduct some of the experiments at BNL.

This modified process increases the selective production of ethylene by 50 percent, Wu added.

The process of producing ethylene not only increases the production of ethylene, but it also provides a way to recycle carbon dioxide.

In a statement, Wu suggested this process could one day produce ethylene through green energy instead of fossil fuels.

Jimenez’s role

Scientists who want to use the high-tech equipment at the NSLS-II need to apply for time through a highly competitive process before experimental runs.

Jimenez led the proposal to conduct the research on site at the QAS and ISS beamlines.

Several of the elements involved in this reaction are expensive, including platinum, iridium, silver and gold, which makes them prohibitively expensive if they are used inefficiently. By using single atoms of the metal as the sites, these scientists achieved record high rates of reaction using the least possible amount of material.

The scientists at BNL were able to see the chemistry happening in real time, which validated the prediction for the state of the copper.

Jimenez’s first reaction to this discovery was excitement and the second was that “you can actually take a nap. Once you get the data you’re looking for, you can relax and you could shut your eyes.”

Working at NSLS-II, which is one of only three or four similar such facilities in the United States and one of only about a dozen in the world, inspires Jimenez, where he appreciates the opportunity to do “cutting edge” research.

“These experiments are only done a few times in the career of the average scientist,” Jimenez explained. “Having continuous access to cutting edge techniques inspires us to tackle bigger, more complicated problems.”

In the carbon dioxide research, the scientists drilled down on the subject, combining the scope of what could have been two or three publications into a single paper.

Indeed, Nature Chemical Engineering, which is an online only publication in the Nature family of scientific journals, just started providing scientific papers in the beginning of this year.

“Being part of the inaugural editions is exciting, specifically coming from a Chemical Engineering background” as this work was published along with some of the “leading scientists in the field,” said Jimenez.

New York state of mind

Born in Manhattan, Jimenez lived in Queens near Jamaica until he was 11. His family moved into Nassau County near the current site of the UBS Arena.

During his PhD at the University of South Carolina, Jimenez spent almost a year in Japan as a visiting doctoral student, where he learned x-ray absorption spectroscopy from one of the leading scientists in the field, Professor Kiyotaka Asakura. Based in Hokkaido University in Sapporo, Japan, Jimenez enjoyed touring much of the country.

A resident of Middle Island, Jimenez likes to run and swim. He enjoys cooking food from all over the world, including Spanish, Indian and Japanese cuisines.

As a scientist, he has the “unique luxury” of working with an international audience, he said. “If you are having lunch and you see someone eating amazing Indian food, you can talk to them, learn a bit about their culture, how they make their food, and then you can make it.”

As for his work, Jimenez explains that he is drawn to study carbon dioxide not just for the sake of science, but also because it creates a “pressing environmental need.”

He has also been looking more at methane, which is another potent greenhouse gas that is challenging to activate.

Ideally, at some point, he’d like to contribute to work that leads to processes that produce negative carbon dioxide use.

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