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Daniel Dunaief

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Pixabay photo

By Daniel Dunaief

Daniel Dunaief

I’ve been on a long journey that’s taken me around the world for more than two and a half years. Many hosts have provided for me, enabling me to grow and, in some cases, make changes.

I don’t recall the beginning. The first host I remember was an incredibly kind doctor. She spent countless hours caring for others, looking into their eyes, assuring them she would do everything she could for them.

She was so focused on helping others that she didn’t even know she was hosting me. I stayed quiet just long enough to make the jump to a famous American actor who was working in Australia.

He and his wife didn’t enjoy their time with me. They warned the world about me and my extended family.

My next host was a businessman. He had been in a hospital with his son, who had a broken leg. The businessman stayed in the waiting room for hours, trying to do his work but unable to focus because he was so concerned about his boy.

Finally, after hours of surgery, the doctor came out to talk to him and that’s when I found a new host.

This businessman worked hard. Once he discovered his son was safe, he ignored me and my needs.

I developed without anyone noticing me. At one point, I heard someone come looking for me, but I hid just far enough away. I traveled a great distance on a plane with him. Once we were in a new country, I had so many choices.

Realizing it was time to go, I jumped to an elderly bus driver. He was a gentle man. The lighter laugh lines near his eyes looked like waves approaching the shore on his dark chocolate skin.

Before he collapsed into bed the second evening we were together, he seemed to be staring directly at me. In his house, I had a choice of other possible hosts, but decided to hitch a ride with his son.

That one almost cost me my life. His son soon realized I was there, and he stayed away from everyone. I was curled up alone with him. He barely moved for long periods of time, except when he coughed or sat up and sent text messages and emails. One night, when he was finally sleeping, a man came into his room to clean it. That’s when I escaped.

This man didn’t even know he hosted me. He wasn’t stuck in bed, and he didn’t cough. I traveled with him to several events. After other trips, I found an important politician. We took a ride in a helicopter and went to a hospital where doctors provided all kinds of new medicines.

I became like a game of telephone, passing along from one person to the next. And, like a game of telephone, the message changed, as I demanded different things from my host.

I found myself at a concert with a young woman who sang and danced for hours. She looked so vibrant and full of life.

She was a friendly enough host, until I set up camp with her mother. Then, she shouted at me, praying to keep me away. She took me to a hotel, where she seemed to stare at me while she prayed.

When someone delivered food and walked in the room to wait for payment, I made the jump to him. During the day, he was a student with a full and busy life. I didn’t stay long, moving on to his girlfriend, her roommate, and, eventually, to a professor.

I stayed with the professor for over a week. She spent considerable time grading papers, writing at her computer, talking to family members, and taking medicine.

I have made some changes along the way. I don’t travel with as much baggage as I used to. I know people think I’m not as much of a burden as I was in the early days. My most recent host would disagree. He couldn’t talk, had trouble sleeping and was exhausted all the time. I’m getting ready to travel the world again this fall and winter. You can ignore me all you want, but I’m still here, making changes and preparing to find more hosts.

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Mercy Baez. Photo by Joseph Rubino/ BNL

By Daniel Dunaief

She is a greeter, a corporate concierge, a facilitator, a point of contact for people traveling thousands of miles, a Spanish translator, an important contact in case of emergencies, and whatever else visitors need.

While Mercy Baez, who was promoted to User Program Coordinator for the National Synchrotron Lightsource II and the Laboratory for BioMolecular Structure at Brookhaven National Laboratory early in October, wears many hats, one of the only ones she doesn’t wear is scientist, although that doesn’t keep her from appreciating and taking pride in the research conducted at the Department of Energy facility.

“We’re helping them and they are helping the world,” Baez said.

BNL has a steady stream of users who apply for time at the various research facilities at the national laboratories. 

Baez is specifically responsible for providing a wide range of support and services to the NSLS II and the LBMS. Users, which is how BNL describes potential visiting scientists who conduct research at the lab’s facilities, submit proposals to her office, which then distributes them to a proposal review panel.

When visiting scientists learn that their work, which includes monitoring batteries as they function and searching for fine structural sites in the molecular battle against pathogens, has earned a high enough score to receive coveted time on the lab’s instruments, they prepare for their visit by interacting with Baez and her current team of four by getting registered and approved for access.

Baez offers soup to nuts guidance that often also includes helping users literally find soup, nuts and numerous other items. Baez ensures that users take any necessary training courses, provides guidance regarding registering for on site access to BNL, provides information on the steps or items necessary when they arrive, helps find nearby hotels, coordinate travel to and from the lab and, if necessary, secures places to stay if they miss their planes, get snowed in or have other unforeseen changes in their schedules.

As of October 1st, visitors also have to have some type of active shooter training to access the lab’s facilities. Currently, users are required to take five training courses. Last week, the lab decided to incorporate active shooter training into one of these other training courses.

The lab has always had routine emergency training courses and drills for lab employees. With the changing times and current events, the lab is looking to equip users for such emergencies. The lab hopes never to have to use this training, but if such an event occurs, staff and users will know how to handle such a situation.

In addition to training to help users prepare to visit the facility, Baez provides visitors with a host of on site facilities, including adaptors in case they are using European electronics that don’t connect with the outlets, laptops in case the computer a scientist brought isn’t working, conference rooms for impromptu meetings, and dorm rooms for a respite while running time-intensive experiments.

BNL hosts employee resource groups including the African American Advancement Group, the Asian Pacific American Association, the Brookhaven Veterans Association, Brookhaven Women in Science, the Early Career Resource Group, the Pride Alliance and the Hispanic Heritage Group. Baez said the lab tries to involve users and visitors in as many cultural and social events as possible, which include outings to dinners, plays and cultural virtual cooking classes.

In September, Baez participated in the Port Jefferson Dragon Boat Race Festival which the Asian Pacific  American Association sponsored. 

Baez, whose mother is from Puerto Rico and whose father is from Ecuador, is a member of the Hispanic Heritage Group.

A people person

A member of the user offices since 2003, Baez had recently been responsible for coordinating conferences, workshops, and training courses, including financial and logistical aspects of the events for NSLS-II and the LBMS. She had been functioning as the user program coordinator since January, when Gretchen Cisco retired. Baez feels fortunate to have worked with Cisco since she joined NSLS in 2005.

A self-described “people person,” Baez said she loves the opportunity to interact with scientists from all over the world. She particularly appreciates the chance to get to know about other cultures and has added destinations to her travel itinerary from speaking with visitors. She is hoping to travel to Morocco and Peru next year and is hoping to travel to Japan and a few other countries in the near future.

Coming from a Latina family that tends to be loud and outspoken and whose family gatherings often includes more than 30 people, she has learned to speak in a softer voice, particularly with people from other cultures or backgrounds.

She also has a tendency to speak quickly and has learned to slow the pace down so visitors who haven’t interacted with her can understand what she’s saying.

A resident of Medford, which is a ten-minute drive from the lab, Baez has a son Xzavier and a granddaughter Francesca. She is excited for the upcoming arrival of her second granddaughter in November.

When she’s not at the lab, she uses her leisure time to go hiking, fishing and camping.

With her then teenage son in tow, she went to the jungle of Belize for a survival course, where they learned how to catch their own food, build shelters, and harpoon fish. She also learned which plants are safe to eat and which are poisonous.

While her work responsibilities can be hair-raising, particularly in emergencies, she “loves the feeling that I was able to help a scientist, whether to get him or her on site or in an emergency,” she said. Knowing that she’s a part of making all this science happen makes her day and job rewarding, she said.

Baez has had some requests from scientists who have wanted cultural foods, such as Turkish or vegan dishes, that might be harder to find, particularly during off hours.

Around Thanksgiving each year, some visitors have asked if they can hunt wild turkeys at BNL, which is located within the Pine Barrens and has turkeys and deer wandering on site. She has told those users that the lab does not allow hunting.

Hunting aside, Baez said she is “here to help [users] do what they need to do.”

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METRO photo

By Daniel Dunaief

Daniel Dunaief

In tougher days before our son had a driver’s license and I had to pick him up from school, I brought the dog in the car. I’d see my son walking from school, head down, shoulders slumped, with the equivalent of a teenage angst enveloping him.

He’d get to the car, ready to throw himself into the seat next to me, to tell me his day was “fine” or that he “didn’t want to talk about anything,” and then he’d see the dog, wagging and prancing in the back seat and he was helpless against such charm and unbridled joy.

Our dog would throw his head into his hands, letting our son know that anything and everything our son did, particularly when he pet our dog’s ears, was welcome and appreciated.

While I know many people love puppies, with their fluffy fur and their playful demeanor, I have become increasingly attached and fond of our dog as he has aged.

And, as my wife has said, the feeling appears to be mutual.

When he was younger, our dog rarely came when I called him. He seemed fine with my petting him, but he didn’t go out of his way to get up from a comfortable nap.

But, then, something happened in the last year. Maybe it’s because we’ve traveled to visit family and friends for weddings and we haven’t taken him on each of our trips, or because he suddenly figured out that I feed him, provide water and take him for his necessary walks.

Whatever the case, he’s as happy to see me as I am to see him. At the same time, he’s become increasingly sensitive to the stress I’m feeling. When I get off the phone after an exasperating call with a customer service representative, he comes wagging over as if to say, “Yeah, that was annoying, but you’ll be fine and I’m still incredibly soft. Don’t you want to check?”

Recently, I contracted COVID-19. My wife, who hasn’t been feeling too well herself, took incredible care of me, picking up food and medicine while I shivered in bed and struggled to swallow through the razor blades dangling in the back of my throat.

In addition to the necessary and helpful support from my wife and brothers, I received encouragement from our dog, who seemed to recognize something was amiss. He came to the side of the bed and leaned his head into my hand. He put his paw up near my arm as well, wagging cautiously and looking into my eyes.

He reminded me of our dog from my childhood. Also, a golden retriever, our earlier dog raced to the kitchen door to be let out (yes, that was a different time). He used to return when he was ready and after he’d visited the neighbors and tended to his physical needs.

In my junior year of high school, I developed a migraine that limited my ability to see and gave me a horrific headache. At the same time, all physical contact was uncomfortable, from my friend touching my hand to guide me to the nurse to my mother escorting me to the car.

When I returned home, I lay in a dark room, miserable under the searing pain. The dog, who wasn’t used to having me home during the day, stayed in my room all day. He didn’t move or make a sound and, more amazingly, he never tried to touch my hand.

He finally went outside after I got up and felt better. He stood guard all those years ago, just as our pets do now, protecting us against strangers and offering support in our lowest and most emotionally vulnerable moments.

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Pixabay photo

By Daniel Dunaief

Daniel Dunaief

My grandmother was a worrier. 

Even she, however, would have had a hard time worrying about other major challenges, problems and threats during the worst of the COVID-19 pandemic.

That, it turns out, was also true for the world during COVID when it came to discussions about the threat from climate change.

In a recent study published in the prestigious journal Proceedings of the National Academy of Sciences, Oleg Smirnov, associate professor in the Department of Political Science at Stony Brook University, examined the level of concern on Twitter about climate change during 2020 and 2021 and compared those numbers to 2019, the last year before COVID.

According to the pool of finite worry, which Princeton professor of Psychology Elke Weber developed, environmental and climate concerns decline amid worries about other major threats.

Smirnov found that the total number of tweets that mention climate change dropped to 5.6 million in 2020 and 5.3 million in 2021, from 8 million in 2019. This, Smirnov points out, occurred despite an increase in Twitter users, more climate disasters and more climate news in 2021.

“The psychological foundation tell us that people may only really respond to one threat at a time,” Smirnov said in an interview. The anxiety and the reaction to that threat may be limited because it requires major energy.

“Maybe, for biological reasons, [people] put all their energy into responding to the most immediate threat,” Smirnov added.

By tracking daily tweets and various measures of COVID cases, Smirnov found on a finer scale as well that discussions of climate change diminished amid higher infections and mortality.

For every thousand new COVID-19 cases in the United States, climate change tweets decreased by about 40.5 tweets per day. Every thousand new deaths resulted in 3,308 fewer climate tweets.

While Smirnov understood the need to focus on the pandemic, he suggested a lack of concern about climate change could disrupt efforts to protect the planet

“This has profound implications,” Smirnov said. “Without a focus on climate change, without an emphasis on its importance, there is less urgency and less pressure on politicians to do something about it.”

Even in better times, climate change efforts are “fragile,” he said, which adds to the uncertainty about the ability to address the challenge adequately.

Indeed, even the sentiment analysis, in which Smirnov reviewed the emotional content of words used to describe climate change and the threat to the planet and humanity, became less negative during the worst of the pandemic.

When asked about the possibility that climate change concerns might have declined during COVID in part because the carbon footprint declined amid travel restrictions and slowdowns in industrial production, Smirnov likened such an approach to short-term fasting or extreme dieting.

While spending a few days on these extreme diets can reduce a person’s weight over the course of days, such an approach provides “no substantial improvement in your health” longer term, he said.

So, what about now, as concerns about the pandemic abate, people have stopped wearing masks and schools and stadiums are full?

Smirnov plans to continue to collect Twitter data for the remainder of this year, to see whether a return to normalcy brings the focus back to the threat from climate change.

As for his own experience, Smirnov recognized that climate change took a back burner amid the worst of the pandemic.

“My attention certainly was hijacked by COVID-19, despite the fact that climate change is part of my work,” Smirnov said. In April of 2020, Smirnov recalled worrying about where his family would find food instead of thinking about greenhouse gases and rising sea levels.

In the present, Smirnov remains concerned about the kind of tipping points and climate inertia that threatens the future.

Ever the worrier, my grandmother might be relieved enough by the less virulent form of the virus and the availability of vaccines and treatment to return to worrying about the threat climate change poses.

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From left, K. Barry Sharpless and John Moses. Photo from CSHL

By Daniel Dunaief

K. Barry Sharpless changed John Moses’s life. And that’s before Moses even started working as a postdoctoral researcher in Sharpless’s lab.

When Moses, who is the first chemist to work at Cold Spring Harbor Laboratory in its 132-year history, was earning his PhD in chemistry at Oxford, he read an article that Sharpless co-authored that rocked his world.

Nicknamed the “click manifesto” for introducing a new kind of chemistry, the article, which was published in Angewandte Chemie in 2001, was “one of the greatest I’ve ever read,” Moses said, and led him to alter the direction of his research.

Moses walked into the office of the late chemist Sir Jack Baldwin at Oxford, who was Moses’s PhD advisor, and announced that Sharpless, a colleague of Baldwin’s at the Massachusetts Institute of Technology, was the only chemist he wanted to work with in the next phase of his career.

Baldwin looked at Moses and said, in a “very old-fashioned gangster English, ‘That shows you’ve got some brains,’” recalled Moses.

Sharpless was important not only to Moses’s career, but also to the world.

Recently, Sharpless, who is the W.M. Kepp Professor of Chemistry at Scripps Research, became only the fifth two-time recipient of the Nobel Prize.

Sharpless will share the most recent award, which includes a $900,000 prize, with Carolyn R. Bertozzi, the Anne T. and Robert M. Bass Professor in the School of Humanities and Sciences at Stanford University, and Morten P. Meldal, professor at the University of Copenhagen, for the invention of a type of chemistry that has implications and applications from drug discovery and delivery, to making polymers, to developing anti cancer treatments.

The way click chemistry works is that chemists bring together catalysts and reagents, often attached to sulfur or carbon, that have a high level of specific attraction for each other. The click is like the sound a seat belt makes when secured, or the click a bike helmet lock makes when the two units are connected.

Scientists have often described the click reaction as being akin to LEGO blocks coming together, with an exact and durable chemical fit.

Natural product synthesis is generally challenging and often requires complex chemistries that are not always selective. This type of chemistry can produce side reactions that create unwanted byproducts and require purification.

Click reactions, by contrast, are selective and reliable and the products are generally easy to purify. Sometimes, purification is as simple as a water wash.

“It’s a democratization of synthetic chemistry,” Moses said.

Moses said biologists have performed click reactions. Chemists have developed click tablets that can be added to a reaction to create a plug and play system.

Moses described the reactions in click chemistry as “unstoppable” and suggested that they are part of a “domino rally” in which a latent build up of reactivity can create desired products with beneficial properties.

Moses, who arrived at CSHL in 2020, has collaborated with several researchers at the famed lab. He is submitting his first collaborative paper soon with Dr. Michael Lukey, who also started in 2020 and performed his PhD at Oxford, and Dr. Scott Lyons. He is also working on a New York State Biodefense funded project to create shape shifting antibiotics that can keep up with drug resistance pathogens. 

He has collaborated with Cancer Center Director David Tuveson to develop a new ligand to target a protein important in pancreatic cancer. Moses said they have a “very exciting” lead compound.

Early resistance

While the Nobel Prize committee recognized the important contribution of this approach, the concept met with some resistance when Sharpless introduced it.

“When [Sharpless] submitted this, the editor called colleagues and asked, ‘Has Barry gone crazy?’” Moses said.

Some others in the field urged the editor to publish the paper by Sharpless, who had already won a Nobel Prize for his work with chirally catalyzed oxidation reactions.

Still, despite his bona fides and a distinguished career, Sharpless encountered “significant resistance” from some researchers. “People were almost offended by it” with some calling it “old wine in new bottles,” Moses said.

In 2007, Moses attended a faculty interview at a “reasonably good” university in England,. where one of his hosts told him that click chemistry is “just bulls$#t!”

Moses recognized that he was taking a risk when he joined Sharpless’s lab. Some senior faculty advised him to continue to work with natural product synthesis.

In the ensuing years, as click chemistry produced more products, “everyone was using it and the risks diminished quickly,” Moses added.

Unique thought process

So, what is it about Sharpless that distinguishes him?

Moses said Sharpless’s wife Janet Dueser described her husband as someone who “thinks like a molecule,” Moses said.

For Moses, Sharpless developed his understanding of chemistry in a “way that I’ve never seen anyone else” do.

Moses credits Dueser, who he described as “super smart,” with coining the term “click chemistry” and suggested that their partnership has brought together his depth of knowledge with her ability to provide context.

Moses believes Sharpless “would admit that without [Dueser], his career would have been very different! In my opinion, [Dueser] contributed immeasurably to click chemistry in so many ways.”

Indeed, click chemistry won a team prize from the Royal Society of Chemistry last year in which Dueser was a co-recipient.

As for what he learned from working with a now two-time Nobel Prize winner, Moses said “relinquishing control is very powerful.”

Moses tells his research team that he will never say “no” to an innovative idea because, as with click chemistry, “you never know what’s around the corner.”

Moses said Sharpless is a fan of the book “Out of Control” by Kevin Kelly, the co-founder of Wired Magazine. The book is about the new biology of machines, social systems and the economic world. Sharpless calls Kelly “Saint Kevin.”

On a personal level, Sharpless is “humble and a nice person to talk to” and is someone he would “want to go to a pub with.”

Moses believes Sharpless isn’t done contributing to chemistry and the world and anticipates that Sharpless, who is currently 81 years old, could win another Nobel Prize in another 20 years.

An inspirational scientist, Sharpless ” is “that kind of person,” Moses said.

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Peter Westcott, on right, in the lab with technicians Zakeria Aminzada, on left and Colin McLaughlin, center. Photo by Steven Lewis

By Daniel Dunaief

When Peter Westcott was growing up in Lewiston/Auburn, Maine, his father Johnathan Harris put the book “Human Genome” on his bed. That is where Westcott, who has a self-described “obsessive attention to detail,” first developed his interest in biology.

Westcott recently brought that attention to detail to Cold Spring Harbor Laboratory, where he is an assistant professor and Cancer Center member. He, his wife Kathleen Tai and their young children Myles and Raeya moved from Somerville, Massachusetts, where Westcott had been a postdoctoral fellow at the Koch Institute of Integrative Cancer Research at the Massachusetts Institute of Technology.

Westcott will take the passion and scientific hunger he developed and honed to the famed lab, where he plans to continue studies on colon cancer and the immune system.

“A lot of things attracted me to Cold Spring Harbor Laboratory,” said Westcott who had been to the lab during conferences, joining three Mechanisms and Models of Cancer meetings, and appreciated that the small size of the lab encourages collaboration and the sharing of ideas across disparate fields.

At this point, Westcott, who purchased a home in Dix Hills and started on campus on September 1st, has two technicians, Zakeria Aminzada and Colin McLaughlin working with him. He will be taking on a graduate rotation student from Stony Brook University soon and would also like to add a postdoctoral researcher within about six months. He plans to post ads for that position soon. 

Research directions

Westcott said his research has two major research directions.

The first, which is more translatable, involves looking at how T cells, which he described as the “major soldiers” of the immune system, become dysfunctional in cancer. These T cells balance between attacking unwanted and unwelcome cells relentlessly, disabling and destroying them, and ignoring cells that the body considers part of its own healthy system. When the T cells are too active, people develop autoimmunity. When they aren’t active enough, people can get cancer.

“Most cancers, particularly the aggressive and metastatic ones, have disabled the immune response in one way or another, and it is our focus to understand how so we can intervene and reawaken or reinvigorate it,” he explained.

During cancer development, T cells may recognize that something on a tumor is not healthy or normal, but they sometimes don’t attack. Depending on the type of genetic program within the T cells that makes them tolerant and dysfunctional, Westcott thinks he can reverse that.

A big push in the field right now is to understand what the genetic programs are that underlie different flavors of dysfunction and what cell surface receptors researchers can use as markers to define T cells that would allow them to identify them in patients to guide treatment.

Westcott is taking approaches to ablate or remove genes called nrf4a 1, 2 and 3. He is attacking these genes individually and collectively to determine what role they play in reducing the effectiveness of the body’s immune response to cancer.

“If we knock [some of these genes] out in T cells, we get a better response and tumors grow more poorly,” he said.

Westcott is exploring whether he can remove these genes in an existing T cell response to cause a regression of tumor development. He may also couple this effort with other immunotherapies, such as vaccines and agonistic anti-CD40 antibody treatment.

As a second research direction, Westcott is also looking more broadly at how tumors evolve through critical transitions. Taking an evolutionary biology perspective, he hopes to understand how the tumors start out as more benign adenoma, then become malignant adenocarcinoma and then develop into metastatic cancer. He is focusing in particular on the patterns of mutations and potential neoantigens they give rise to across the genome, while concentrating on the immune response against these neoantigens.

Each tumor cell is competing with tumor cells with other mutations, as well as with normal cells. “When they acquire new mutations that convey a selective advantage” those cells dominate and drive the growth of a tumor that can spread to the rest of the body, Westcott said.

Using a mouse model, he can study tumors with various mutations and track their T cell response.

T cells tend to be more effective in combating tumors with a high degree of mutations. These more mutated tumors are also more responsive to immunotherapy. Westcott plans to study events that select for specific clones and that might shift the prevalence, or architecture, of a tumor.

Some of the work Westcott has done has shown that it is not enough to have numerous mutations. It is also important to know what fraction of the cancer cells contain these mutations. For neoantigens that occur in only a small fraction of the total cells in the tumor, the T cell responses aren’t as effective and checkpoint blockade therapy doesn’t work.

He wants to understand how the T cell responses against these neoantigens change when they go from being subclonal “to being present in most or all of the tumor cells,” he explained. That can occur when a single or few tumor cells acquire a selective advantage. His hypothesis is that these selective events in tumor progression is inherently immunogenic. \

By exploring the fundamental architecture of a tumor, Westcott hopes to learn the mechanisms the tumor uses to evade the immune system.

Ocean breeze

As Westcott settles in at CSHL, he is excited by the overlap between what he sees around the lab and the Maine environment in which he was raised.

“Looking out the window to the harbor feels like New England and Maine,” he said. “It’s really nostalgic for me. Being near the ocean breeze is where I feel my heart is.”

Before his father shared the “Human Genome” book with him, Westcott was interested in rocks and frogs. In high school, his AP biology teacher helped drive his interest in the subject by encouraging discussions and participation without requiring her students to repeat memorized facts. The discussions “brought to life” the subject, he said.

As for his work, Westcott chose to study colon cancer because of its prevalence in the population. He also believes colon cancer could be a model disease to study all cancers. By understanding what differentiates the 12 percent of cases that are responses to immunotherapy from the remainder that don’t respond as well to such approaches, he hopes to apply these lessons to all cancer.

“There is a huge, unmet need,” he said.

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Metro photo

By Daniel Dunaief

Daniel Dunaief

I have never been as happy to hear a Madonna song as I was this weekend.

Let me back up. My family and I attended our second familial wedding of the last three months. This one was a destination wedding in Ithaca, New York.

Stepping out of the rental car at the hotel on campus, I realized I wasn’t in Kansas anymore, as shorts, a T-shirt and a sweatshirt weren’t sufficient for the cooler upstate air.

In the hours before the ceremony on Saturday, my son, brother-in-law, his grown sons and I threw a tiny gift shop Nerf ball around on the baseball field, while surrounded by a visual collage of multi-colored foliage. That tiny football was probably the best $7.50 I’ve ever spent at a wedding.

With the wedding in the hotel, we only had to push an elevator button to get to the correct floor.

The bride and groom exchanged vows that they hadn’t previously shared with each other. Not too surprisingly after dating for close to a decade, the vows included many of the same references to things they each enjoyed about their time together, including dancing in the kitchen while making dinners, watching TV shows together during college, and running to the clock tower and back.

During the cocktail hour, I excused myself from my social circle to go to the bathroom, where I overheard the first of two unusual restroom conversations. The groom and his young cousin were chatting.

“You know the secret to a successful marriage?” the young man asked, eager to share the accelerated wisdom he’d accrued during his short life.

“What’s that?” the groom asked gamely.

“Separate vacations,” the sage young man suggested.

“Hmm, well,” the groom continued, “thanks so much for coming. I appreciate it.”

“My mom said my grandparents would have wanted us to come, so we came,” the unfiltered young man added.

Fortunately, neither of them could hear me inhale sharply.

Listening to the toasts and comments from the parents of the bride and groom, each side seemed to think the new member of the family would help soothe their partner. Perhaps, that says something about the way the bride and groom interact with their parents?

After dinner and before the music started, I returned to the restroom. This time, a man was standing at the sink, washing his hands.

“Out of respect for the gentleman who just walked in, I’m going to end our conversation about poop,” he said to a friend in the stall.

“Oh, uh, I’ll be leaving soon,” I offered, not wanting to interrupt.

“It’s okay,” he added. “We were done.”

Returning to the ballroom, I raced to the dance floor once the music started. My wife, children and I love to dance, with each of us smiling and shimmying as we jump, sway and sing the lyrics of the music. Somehow, our daughter knows the words to just about every song at most of these events, singing and shouting them to her cousin’s girlfriend, who has the same encyclopedic knowledge of modern music. I chime in with the chorus, while our son glides around, often with his arms in the air.

And here’s where Madonna came in. After bending my knees and swaying to numerous rap songs I had never heard before, I was thrilled to hear the familiar intro to a Madonna hit.

Buoyed by throwback sounds from an earlier decade, I threw myself around the floor, crooning for all I was worth.

When the rap songs returned, I scanned the floor and saw the bride, groom and their friends sharing their euphoria for the moment and for their familiar music. While Frank Sinatra never made an appearance, the happy couple were clearly doing it their way.

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Caroline Mota Fernandes Photo by Jonas Nascimento Conde

By Daniel Dunaief

Fungal infections represent a significant health risk for some patients, killing about 1.5 million people globally each year. Doctors struggle to provide medical help for some of these patients, especially those whose weakened immune systems offer insufficient protection against developing pathogens.

Invasive fungal infections, which people typically contract by inhaling them as spores, account for about half of all AIDS-related deaths.

Maurizio del Poeta, Distinguished Professor at the Renaissance School of Medicine at Stony Brook University, has been studying ways to boost the body’s defenses against these potentially deadly infections, even among people with weakened immunities.

Recently, Caroline Mota Fernandes, a postdoctoral researcher in del Poeta’s lab, published research in the journal mBIO, a publication of the American Society for Microbiology, that demonstrated that a heat-killed, mutated version of the fungus Aspergillus conveyed protection in an animal model of an immunocompromised individual.

“The biggest news is that we can simply use the ‘autoclaved’ mutated version,” explained del Poeta in an email. “This version cannot be more dead!”

An autoclave is like a scientific oven: it raises the temperature or pressure. In this case, it can kill the mutated fungus, leaving only the mutated signal that primes the immune system.

The mutated and heat-killed version of the fungus, however, still provided full protection in a condition in a model of a weakened immune system.

“That means this formulation is highly stable and resistant to heat degradation,” del Poeta added.

Del Poeta’s lab had conducted similar research with another fungus called Cryptococcus.

By demonstrating that this approach also works with Aspergillus, del Poeta said the result “validates the cryptococcal vaccine (after all, it uses a mutant of the homolog gene, Sg11 in Crypto and SglA in Aspergillus.”

It also shows that protection exists under an additional type of immunodepression that is different from the one used in the cryptococcal vaccine.

The encouraging results, while in the preliminary stages, are relevant not only for immunocompromised people in general, but also for those who have been battling Covid, as Aspergillus was the cause of death for many patients during the worst of the pandemic.

Homologous genes

Del Poeta’s lab has focused on genes that catalyze the breakdown of steryl glucosides, which scientists have also studied in the context of plants. Crops attacked by various fungi become less productive, which increases the need to understand and disrupt these pathways.

“Folks working with plants started observing that these molecules had some kind of immunomodulatory property,” said Fernandes. “That’s where the idea of this steryl glucosides, which also is medicating fungal virulence, came from.”

The mutation Fernandes studied removed the sterylglucosidase gene sglA. Without the enzyme that breaks up the steryl glucose, the fungus had less hypha, which are necessary for the growth of the fungus. The mutation also changed the cell wall polysaccharides. Mice vaccinated with this heat-killed mutation had a one hundred percent survival rate in response to exposure to the live fungus.

“What was a very great achievement of our work was getting 100 percent protection,” said Fernandes. For immunocompromised people for whom a live attenuated fungus might threaten their health, the effectiveness of the heat-killed mutation proved especially promising.

In the experiment, she administered the vaccine 30 days before exposure, while providing boosters as often as every 10 days.

Fernandes, who started her post doctoral research in del Poeta’s lab in 2018, said several questions remain. “After this study, we are going to try to characterize exactly how this strain induces the immunity and protection to a secondary challenge of Aspergillus,” she said. Dr. Veronica Brauer, another post doctoral researcher in del Poeta’s lab, is conducting this research.

At this point, it’s unclear how long protection against a fungal infection might last.

“For us to estimate the duration of the protection, we have to have a more specific understanding of which immune components are involved in the response,” said Fernandes.

As of now, the mice vaccinated with the mutated and heat-killed fungus had no off target effects for up to 75 days after vaccination.

Fernandes is also working to characterize the mechanism of action of a new class of antifungal drugs previously identified by the lab, called acylhydrazones. She hopes to identify a new virulence protein in Cryptococcus as well.

Collaboration origins

Fernandes, who was born and raised in Rio de Janeiro, Brazil, first worked in del Poeta’s lab in 2013, while she was conducting her PhD research at Federal University of Rio de Janeiro. She was studying antifungal peptides and explained to the Brazilian government why coming to Stony Brook would contribute to her research.

Fernandes started studying fungi when she was in her second year of college at Federal University of Rio de Janeiro.

The daughter of two chemists, Fernandes said she grew up in a house in which she had pH strips, which she used to test the acidity of shampoo, water and anything else she could test. She also entered numerous science fairs.

Fernandes met her husband Jonas Conde, who is a virologist at Stony Brook University and who has studied Covid-19, when they were in nearby labs during their PhD research.

Residents of Port Jefferson, Fernandes and Conde have a four-month-old son named Lucas.

Having a child “motivates me to be better in my work and to set an example for him to be committed in doing some good for other people,” Fernandes said.

Del Poeta described Fernandes as being “extremely effective” in managing her time and has “extraordinary motivation.” He appreciates her commitment to her work, which is evident in the extra papers she reads.

Fernandes appreciates being a part of del Poeta’s lab. She described him as an “amazing” researcher and supervisor and said being a part of his group is “an honor.”

Del Poeta said Fernandes will continue to make mutants for additional fungi, including Mucorales and Rhizopous, for which antifungal therapy is not particularly effective.

Del Poeta added that the urgency of this work remains high. With several other Stony Brook faculty, he has submitted grants to study Sgl1 as a vaccine and antifungal target.

“Imagine [making] a drug that not only can treat the primary infection, but, by doing so, can potentially prevent the recurrence of a secondary infection?” he asked rhetorically. “Exciting!”

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Cell phone etiquette. METRO photo

By Daniel Dunaief

Daniel Dunaief

You’re meeting with your boss, and you can feel your phone vibrating in your pocket with a new text message, an incoming email or a good old-fashioned phone call.

What do you do?

You’d be on pins and needles if someone you knew, your spouse or partner, perhaps, were expecting a baby. Or, perhaps, someone was traveling a great distance through a storm and you were eager to hear that your friend or family member had arrived safely.

But most of the time, the stakes aren’t quite as high with incoming information. In fact, some of the time, we’re getting spam that seeks our attention.

So, when we are talking to our boss, we generally realize that responding to our demanding electronics probably isn’t a great idea.

But what about when we are talking to a parent, a friend, a child or a neighbor?

Given the frequency with which I have seen the tops of people’s heads as they look down at their phones instead of in their eyes, it seems people have concluded that eye contact is so 20th century.

Since when did people outside the room become so much more important and demanding than the ones with whom we are interacting? If we can’t find people who are as interesting in person as the ones far away, perhaps it is time to move to interact with some of those fascinating folks.

I understand that people online don’t have bad breath and messy hair and aren’t wearing the same clashing outfit that they wore last week, and that continues to threaten to give us a migraine.

Maybe we ought to consider classes in electronic etiquette that teachers can share with students or with people who are receiving their first phone.

We can address not only how to handle an incoming text while in the middle of a conversation, but also how to unplug ourselves and our lives from endless messages, games, movies and TV shows.

If I could go back to the time when we handed phones to our children, ensuring that the phone would eventually replace bedtime stories, dinnertime conversation and eye contact, I would consider establishing our own “Ten Commandments” of phone ownership and usage.

These might be:

10. Limit the time each day when you use your phone, with only extraordinarily limited exceptions. If you need to use your phone for schoolwork for two or three hours, that still counts as phone usage.

9. Leave the phone in another room when you’re not using it.

8. If you can’t say something supportive or pleasant on social media, don’t say anything.

7. No anonymous messages or criticism. If you can’t use your name or stand behind what you write, you shouldn’t have written it in the first place.

6. Don’t take embarrassing pictures of your parents and share them with your friends. Older people don’t tend to look as glamorous in digital pictures as younger people, so be kind.

5. Internet fame is not a life goal.

4. When you become better at using your phone than your parents (which occurs in a surprisingly short time), share your wisdom and skills with them. Think of it as familial community service.

3. Don’t assume everything you find online is true. In fact, at least once a week, or even once a day, find something on the internet that you think is false. Use trusted sources to contradict what you think an internet provider got wrong.

2. If it looks like everyone else is having a better time than you, put your phone down. They aren’t.

1. If you can tell your parents to wait while you respond to a text or call from a friend, make sure you tell your friends the same thing when your parents reach out to you.

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Dr. John Clarke. Photo from BNL

By Daniel Dunaief

Live from Upton, New York, it’s … Dr. John Clarke.

While the arrival of the new Occupational Medicine Director and Chief Medical Officer at Brookhaven National Laboratory doesn’t involve late-night comedy, or a live studio audience, it does bring a medical doctor with a passion for bringing his rap and musical skills to a health care audience.

Dr. John Clarke. Photo from BN

Formerly the director of occupational medicine at Cornell University, Dr. Clarke joined the Department of Energy lab as Occupational Medicine Director and Chief Medical Officer for BNL in June..

“My role is to help maintain safety and wellness among the workers,” said Dr. Clarke. “If we have employees who start coming in for some sort of complaint and we see a pattern, that may help us identify who could be at risk of something we didn’t know about that we are detecting.”

A doctor who served as chief resident at New York Medical College in family residency and Harvard University in occupational & environmental medicine, Dr. Clarke said he plans to support a range of preventive efforts.

“I’m excited about the potential to engage in what’s considered primary prevention,” said Clarke, which he defined as preventing a disease from occurring in the first place.

Through primary prevention, he hopes to help the staff avoid developing chronic illnesses such as cancer, while also ensuring the health and responsiveness of their immune systems.

Through physical fitness, a plant-based diet including fruits and vegetables, adequate sleep and hydration with water, people can use lifestyle choices and habits to reduce their need for various medications and enable them to harness the ability of their immune systems to mount an effective response against any threat.

“Modifying your lifestyle is the therapy,” he said. “If you engage [in those activities] in the right way, that is the treatment.”

Dr. Clarke added that the severity and stage of a disease may impact the effectiveness of such efforts. For any vaccine and for the body’s natural immunity to work, people need a healthy immune system.

When Dr. Clarke practiced family medicine, he saw how patients lost weight through a diet that reduced the need for medication for diabetes and high blood pressure.

“Losing weight and staying active does provide a therapeutic impact, where you could be medication free,” he said.

To be sure, living a healthier lifestyle requires ongoing effort to maintain. After reaching a desired weight or cholesterol level, people can backslide into an unhealthier state or condition, triggering the occurrence or recurrence of a disease.

In the vast majority of cases, Clarke said, “you have to make a permanent lifestyle change” to avoid the need for pharmaceutical remedies that reduce the worst effects of disease.

BNL has an exercise physiologist on staff who “we hope to engage in consultations with employees,” said Clarke. He would like the exercise physiologist to go to the gym with staff to show them how to use equipment properly to get the maximum benefit.

BNL already has some classes and various initiatives that promote wellness. “One of the things we’d like to do is coordinate and try to publicize it enough where employees are aware” of the options available at the lab to live a healthier and balanced life, he added.

BNL also has a dietician on staff. Dr. Clarke has not worked with the dietician yet, but hopes it will be part of an upcoming initiative. As he and his staff respond to the demand, they will consider bringing on other consultants and experts to develop programs. 

Covid concerns

Like others in his position in other large employers around Long Island, Dr. Clarke is focused on protecting workers from any ongoing threat from Covid-19.

“We’re still learning more as [SARS-CoV2, the virus that caused the pandemic] evolves,” he said. BNL does a “great job about monitoring the prevalence and the numbers of cases in Suffolk County and among workers.”

Dr. Clarke said he and others at BNL are following the Department of Energy, New York State and Centers for Disease Control and Prevention guidance on these issues.

If the numbers of infections and hospitalizations increase in the coming months, as people move to more indoor activities, BNL may consider deploying a strategy where the lab provides more opportunities for staff to work remotely.

Prior to his arrival at BNL, Dr. Clarke worked as a consultant for a company that was looking to create numerous permanent jobs that were remote.

He suggested that workers need to remain aware of their remote surroundings and shouldn’t work near a furnace or any heater that might release dangerous gases like carbon monoxide. 

Additionally, people should avoid working in areas that aren’t habitable, such as in an attic. Dr. Clarke urges people to notify and consult their employer if they have concerns about working safely at home or on site.

Music vs. medicine

A native of Queens who spent three years of his childhood in Barbados, Dr. Clarke attended Columbia University, where he majored in sociology and music while he was on a pre-med track.

While he was an undergraduate, Dr. Clarke wrote, produced and performed original music. An independent label was going to help secure a major label deal.

He chose to attend medical school at Icahn School of Medicine at Mount Sinai.

Dr. Clarke has championed a program he calls “health hop,” in which he has used rap to reach various audiences with medical care messages. In 2009, he won a flu prevention video contest sponsored by the Department of Health and Human Services for an “H1N1 rap.”

Train commuters may also recognize him from his work for the Long Island Railroad, for which he created a “gap rap.” The public service announcement was designed to protect children from falling into or tripping over the gap between the train and the platform.

Dr. Clarke has produced music for numerous genres, including for a children’s album and a Christian album.

As for life outside BNL, Dr. Clarke is married to Elizabeth Clarke, who is a nurse practitioner and is in the doctorate of nursing practice and clinical leadership program at Duke University.

When he’s not spending time with his wife or their children, he enjoys home projects like flooring and tiling.

Dr. Clarke is pleased to be working at the national Department of Energy lab.“BNL is a great place, because the science and the work they do has an impact,” he said.

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