UP Biologists Set Up First DNA Segments to Monitor In-demand Seafood

UP Biologists Set Up First DNA Segments to Monitor In-demand Seafood

Published: June 06, 2024

By: Eunice Jean C. Patron

One of the Sustainable Development Goals created by the United Nations is to “end hunger, achieve food security and improved nutrition, and promote sustainable agriculture.” Aquaculture, the practice of farming aquatic animals and plants such as fish and seaweed, plays a critical role in achieving food security. The Philippines and the entire Indo-Pacific region are home to various fish species with significant aquaculture potential and increased seafood consumption, therefore requiring genetic monitoring to ensure their populations’ long-term stability.

 

Recognizing the need to develop sustainable management approaches for the country’s emerging aquaculture species, biologists from the University of the Philippines – Diliman College of Science (UPD-CS) continued monitoring and conservation efforts for these fish species by generating their microsatellite markers.

Caranx ignobilis, locally known as maliputo, became an economically important species in the Philippines due to its high value as a food fish. (Photo credit: Shenna Kate Torres)

Shenna Kate Torres, Verinna Charisse Mangonon, and Maria Theresa Tengco of the UPD-CS Institute of Biology (IB), and project leader Dr. Brian Santos of both IB and the Natural Sciences Research Institute (NSRI), developed microsatellite markers for Caranx ignobilis, locally known as maliputo or talakitok in some parts of the country. 


The biologists chose maliputo for their study due to its high value as seafood. According to researchers from the Department of Agriculture-National Fisheries Research and Development Institute (DA-NFRDI), the species’ relatively large body size and excellent meat quality have high market value, contributing significantly to the Philippines’ economic growth. Being a high-value species, maliputo has been cultured in captivity through the initiatives of the DA-NFRDI, through the Freshwater Fisheries Research and Development Center. “As it became a target fish, studying its biology is important to prevent overexploitation and to ensure sustainable aquaculture practices,” Torres added.


A microsatellite is a short segment of DNA that repeats multiple times in a row at a specific genomic location, as defined by the National Human Genome Research Institute. “Molecular markers, like microsatellites, act as tools to identify which populations are adapting well to their environment and to determine how different groups are related to each other,” explained Torres. 


The research results can enhance the aquaculture production of maliputo in the Philippines. “If we want to expand aquaculture practices for this species, genetic diversity studies can pinpoint seed stock populations or breeders with high genetic variation, or what we can call fit breeders,” Torres explained. “By selecting these diverse and fit breeders, we can enhance the resilience and growth rates of the farmed fish populations.” Maintaining a healthy fish population can also reduce environmental impact and lead to cost savings.


Apart from enhancing the aquaculture production of maliputo, the microsatellite markers can be used to analyze the population structure of the fish species, which can help infer whether distinct populations of maliputo exist in the Philippines. Knowing the population structure provides a basis for management strategies to conserve and sustainably manage the fish population.


The team of biologists aims to utilize microsatellites and other genetic markers to analyze wild and hatchery-grown populations of maliputo across the Philippines.  Torres is also examining the genetic differences between marine and freshwater populations of maliputo. By understanding the genetics of maliputo populations and their environmental adaptations, Filipinos can develop better strategies for sustainable production and genetic marker-assisted breeding.


Their paper, “Development and Characterization of 12 Microsatellite Markers for an Economically Important Fish, Caranx ignobilis, in the Philippines,” was published in GENAQUA, a journal featuring research in the genetics and molecular biology on aquatic organisms.


For interview requests and other concerns, please contact media@science.upd.edu.ph.


References:


Mutia, M. T. M., Muyot, M. C., Balunan, R. L., Muyot, F. B. (2020a). Value chain analysis of maliputo, Caranx ignobilis in the Philippines. The Philippine Journal of Fisheries, 27, 137-136. https://doi.org/10.31398/tpjf/27.2.2018A0003


Mutia, M. T. M., Muyot, F. B., Magistrado, M. L., Muyot, M. C., & Baral, J. L. (2020b). Induced spawning of giant trevally, Caranx ignobilis (Forsskål, 1775) using human chorionic gonadotropin (hCG) and luteinising hormone releasing hormone analogue (LHRHa). Asian Fisheries Society, 33, 118-127. https://doi.org/10.33997/j.afs.2020.33.2.004


Morris, S. (2024, May 29). Microsatellite. National Human Genome Research Institute. https://www.genome.gov/genetics-glossary/Microsatellite


Torres, S. K. M., Mangonon, V. C. B., Tengco, M. T. T., Santos, B. S. (2024). Development and Characterization of 12 Microsatellite Markers for an Economically Important Fish, Caranx ignobilis, in the Philippines, 8(1), GA717. https://doi.org/10.4194/GA717


United Nations. (n.d.). Goal 2: Zero hunger. United Nations Sustainable Development. Retrieved May 30, 2024, from https://sdgs.un.org/goals/goal2

Why Do Science? CERN Physicist Answers

Why Do Science? CERN Physicist Answers

Published: June 04, 2024

By: Harvey L. Sapigao

Dr. David giving a talk at UPD-CS (Photo credit: Maria Alexandra Marmol).

There are scientists whose works are immediately appreciated by people: molecular biologists and pharmaceutical scientists who develop medicines and vaccines and find cures for cancer; climatologists and environmental scientists who monitor the weather and fight climate change; engineers who invent thinner gadgets and faster electric cars. And then there are those like particle physicist Dr. André David, whose work veers into the more unfamiliar realms of science, the kinds that elicit unimpressed comments like “What for?” and “How will this help me in my everyday life?”.

 

Dr. David works at the European Organization for Nuclear Research, better known as CERN (Conseil Européen pour la Recherche Nucléaire), located on the border between Switzerland and France. But last February, he was at UPD College of Science (UPD-CS) giving a talk to students of the Science, Technology, and Society (STS) course about the very reason we do science. Judging solely from his familiarity with the weather (he wore khaki shorts and a beige shirt to reflect the heat) and his almost-natural interjections of parang and ano between his sentences, he is not unaccustomed to the Philippines.

 

Back at CERN, he and thousands of researchers from across the globe are demystifying the fundamental particles that make up the universe, particles much smaller and more elusive than the familiar protons and electrons. Using ring tunnels that span kilometers in diameter, called particle accelerators, they accelerate protons to near lightspeed and smash them together. The particles that unfurl from the collisions are what they study, revealing not only the most fundamental building blocks of matter but also the interactions that govern them.

 

In 2012, CERN announced the discovery of the Higgs boson, a particle that had eluded scientists since Peter Higgs theorized its existence in 1964 (Higgs sadly passed away on April 10, 2024). The Higgs boson gives particles their mass, allowing everything – stars, planets, life – to exist. Because of its significance, CERN’s discovery of the Higgs boson is considered one of the biggest scientific achievements in recent history.

 

But some still wonder why it’s even necessary to look for these particles, a sentiment that has only grown more prevalent after the discovery. Beyond the mental calisthenics and existential what-ifs, what has the Higgs boson contributed to our daily lives? Did it make our coffee taste better, our days cooler, our sleep deeper? One might even argue that there’s no discernible difference between their lives before and after knowing the Higgs boson exists.

 

When I asked Dr. David if he has one-liners in response, developed from having been confronted with these questions countless times, he was quick to clarify he doesn’t. “I’m no Richard Feynman,” he said. But in his lecture at UPD-CS, he had passingly said something that I thought, in hindsight, summed up his points succinctly: “You won’t see if you don’t look.”

 

That is, discoveries come from exploring the unknown, not from working on what’s already known, and “should you not seek, you are guaranteed to not find,” he explained to me. “The importance of new findings is that they can only be rendered useful if they are brought into the light of our collective knowledge. No amount of applied research on candles would have made the electric lightbulb possible.”

 

Indeed, when William Gilbert was investigating why amber attracts straws and chaff, he didn’t know he was laying the groundwork for what is now an essential component of our modern lives. He was examining how static electricity works and had devised the first electrical measuring instrument called the electroscope – a simple pivoted needle that revolves when drawn near a lightly rubbed amber. During his time (the 16th century), the world was run by horse-drawn carriages and manual labor. At the time, there were no apparent applications for the phenomenon that made amber sticky, nor would there be until 200 years later when Ewald Georg von Kleist and Pieter van Musschenbroek independently invented the Leyden jar, a device used to store electric charge. Even then, Gilbert’s, Kleist’s, and Musschenbroek’s works would not be fully realized until the 19th century, when inventors such as Alexander Graham Bell and Thomas Edison developed the first practically usable electric devices such as the telephone and the incandescent light bulb.

 

Many scientists in the Renaissance were working on things that offered no immediate improvements to their quality of life, nor any apparent use until much later. When Isaac Newton was investigating why apples fall to the ground, he didn’t know his law of gravitation would be used to shoot satellites into orbit. When Robert Hooke and Antoni van Leeuwenhoek created the first microscope to observe the curious life of microorganisms, they didn’t know their work would become the backbone of modern medicine. “What seems abstract now may become commonplace later,” Dr. David said.

 

And what type of world would we have without them? Had Hooke and Leeuwenhoek not created the microscope, molecular biologists and pharmaceutical scientists today would not have any means of developing vaccines. Had Newton not investigated gravity, climatologists and environmental scientists would not have spatial heat maps and typhoon images generated from space. Had Gilbert not cared for amber, engineers would not have gadgets to make thinner or electric cars to make faster. One might even argue that virologists and climatologists and engineers wouldn’t exist.

 

Still, that’s not to say applied researchers are inferior to scientists like Dr. David. “I equally respect those who prefer to exploit what is known and make it better instead of exploring the unknown,” he clarified. “I suspect that eventually, the best for humans as a whole is that both proclivities coexist.”

 

Humans have prospered precisely because both types of endeavors have existed since antiquity. While at certain moments cavemen were hunting for food and fighting predators, at other times they investigated the glowing orb that appeared when lightning struck the ground, which gave succeeding humans the knowledge to control fire. Our instinct to explore the unknown is hardwired into our nature in much the same way as caring for our well-being is, and it is inhuman to disregard one over the other.

 

Science, as we now know it, is the fulfillment of our human nature, achieving both goals of improving our lives and exploring the world simultaneously. “I would say the scientific method is probably one of the least bad ways we’ve found to actually learn things about this reality,” Dr. David said.

 

Now, scientists like Dr. David are taking care of half the job. But just because their works may only be useful later doesn’t mean they are futile now. For instance, in a cost-benefit analysis conducted by researchers at the University of Milan and the Centre for Industrial Studies in Milan, they estimated a 92% probability that the benefits of CERN exceed its cost, with an expected net present value of about 3 billion euros. And that’s not including the unpredictable economic value of discoveries.

 

Beyond the numbers, the impact of CERN on its thousands of collaborators is priceless. “Year in and year out, I can see the impact that passing through CERN has on people from all walks of life and stages,” he said. “That impact on their lives and careers is very tangible and one of the largest added values of projects like the ones that only a transnational organization like CERN can host.”

 

We don’t need to look any further than our scientists for examples. Dr. Marvin Flores of UPD-CS National Institute of Physics (NIP) and the High Energy Physics & Phenomenology (HEP-PH) subgroup have been collaborating with CERN scientists since 2021. “Being part of the ATLAS Collaboration at CERN is a surreal feeling,” he said. “It greatly skyrocketed my love and appreciation for fundamental science and curiosity-driven research.” For Dr. Flores, the collaboration is also a source of inspiration. “Our first baby boy, who was born recently last April 15, 2024, is named Atlas partly because [of] it.”

Dr. Marvin Flores, Dr. Andre David, and the HEP-PH NIP subgroup (Photo credit: HEP-PH, GANAP, NIP photo archives).

The ATLAS collaboration at CERN, which involves 9,000 collaborators, transcends borders and brings people together. “Here is a collaboration made of scientists from all around the world who have come together regardless of nationality, race, religion, political stance, and societal status, to ask the fundamental question: at the tiniest of scales, what is the universe made out of?” Dr. Flores said. At the very least, these scientists who dedicate their whole lives to the pursuit of the unknown deserve the same level of respect as applied researchers.

 

On a personal note, Dr. David still finds it difficult to articulate why he does science. “It is not easy to explain why I enjoy working on things that I may not be around to see the fruits of,” he said. “I am doing my best now with a common interest of learning more about what matter is made of, that may come only to fruition after I am gone.”


For interview requests and other concerns, please contact media@science.upd.edu.ph.

Staff Spotlight: Tala of the Dean’s Office

Staff Spotlight: Tala of the Dean’s Office

Published: June 03, 2024

By: Harvey L. Sapigao

Tala, an admin staff member of UPD-CS Dean’s Office (Photo credit: Mikke Ibarra).

Everything starts with coffee. That’s how Marie Kristine Alice Dela Rama, known as Tala, also starts her day. “I’d say coffee, hot or cold, is vital in my office routine.” Tala is an administrative staff member at UP Diliman College of Science (UPD-CS) Dean’s Office, where she processes and digitizes documents, and forecasts and updates contracts. But outside work, she and a couple of researchers had been working tirelessly for the past three years to write a textbook for senior high students. The book was finally published on April 1, 2024.

 

The book, Understanding Culture, Society, and Politics, explores the intersection between culture, society, and politics, and how they relate to social science disciplines such as anthropology, sociology, and political science.  “This textbook is an appreciation of [these] social sciences subjects where students will be provided with opportunities to explore ideas, theories, and views on how our society, our culture, and politics define and redefine our collective and personal experiences,” she explained.

 

Tala, after graduating with a Bachelor of Arts in Philippine Studies majoring in Malikhaing Pagsulat sa Filipino and Anthropology at UP Diliman, worked as an assistant editor for Social Science/Araling Panlipunan in C&E Publishing Inc. Tala’s then-supervisor propositioned her to be a researcher for the project, but she was eventually offered to join the team of authors. “From structural to content to technical editing, I was actively involved,” she said.

 

Writing a textbook is no less challenging than writing other types of books. In fact, the lessons and exercises in the textbook took a lot of time and effort. “It was a strenuous process mainly because I started from scratch, complying with the manuscript’s evaluation,” she said. “In the early stages of the product development, I remember I had monthly to quarterly submissions of Unit Lessons, so I rigorously did my research during the day and composed lessons at night.”

 

The book was originally planned to be published in 2023 but was delayed to align with the school year. Now, she’s glad it’s finally published. It is available in C&E bookshop branches across the country. For requests for the e-book version, one may contact the bookshop’s customer service for assistance at this email: customerservice@cebookshop.com. 

 

As a UP graduate, the commitment to serve the people rings true to Tala. After all the hard work, the real reward comes from the impact the book will have on its readers. “Secondary na lang yung royalty dito,” she said. “My goal for the book is for it to reach far-flung communities. Sana makarating [ito] sa mga komunidad at maibahagi sa mga batang gusto magaral.”

 

Outside her work at CS and her stint in book-writing, Tala is known to her friends as a homebody, or “someone who likes being at home most of the time rather than being with them out and about,” she described. But she thinks this is a misnomer. She does like going out – to the church, cafes, or the beach – just not to bars and parties. “Anywhere there is peace and silence.”

 

Eventually, she hopes to continue pursuing her Master’s in Community Development at UPD, but she is currently prioritizing her health and personal and career growth. “That’s my goal for myself,” she said. “Nothing extravagant.”

 

For interview requests and other concerns, please contact media@science.upd.edu.ph.

UP Professors Urge Long-term Monitoring of West Philippine Sea Resources 

UP Professors Urge Long-term Monitoring of West Philippine Sea Resources

Published: May 30, 2024

By: Eunice Jean C. Patron

The ongoing dispute over the West Philippine Sea between China and the Philippines hinders Filipino scientists from conducting scientific work in Philippine territory, but something can still be done.

Guest speakers of the SCIENCE x WPS forum held on May 13, 2024 (Photo credit: Craig Soroño).

The University of the Philippines – Diliman College of Science (UPD-CS) facilitated a public forum titled SCIENCE X WPS: Opportunities and Challenges for Scientists in the West Philippine Sea on May 13, 2024. During the public forum, UP professors discussed the current geopolitical and ecological situation in the West Philippine Sea, as well as strategies that scientists and researchers can use to protect and preserve the sea’s marine resources.


“The issue of the West Philippine Sea is not a single topic issue, it is also not a single-agency activity.” UPD-CS Dean Giovanni Tapang said, with an invitation to collaborate with other agencies, as part of the university’s mandate to serve the nation. “The College of Science would want to work with everyone to address not only the scientific issues surrounding the West Philippine Sea but other issues as well.”


Threats and Opportunities in the West Philippine Sea


The West Philippine Sea faces a lot of risk because of climate change, shared Dr. Laura David, UPD-CS Marine Science Institute (MSI) Director. Changes in the environment have a huge impact on coastal habitats such as coral reefs, seagrass, and mangroves.


Dr. David listed several threats that the West Philippine Sea faces. Overfishing is a major challenge that Filipino fisherfolk experience. “People think that our neighbors are interested in the West Philippine Sea because of natural gas. That’s true, but they’re also interested in the fish because they have to feed their population.”


She also pointed out that, unlike the Philippines, neighboring countries subsidize the catch of their fisherfolks by giving additional compensation for every tub of fish they catch aside from the cost of the actual fish.


Oil spills and land use are other threats that the West Philippine Sea deals with. Dr. David cited the oil spill in the Verde Island Passage in 2023 as proof that the Philippines is still not prepared for such occurrences. Mangroves have also degraded all over the South China Sea area because of converting mangrove areas for other land use, therefore contributing to a huge percentage of mangrove loss.


Dr. David also mentioned plastics as a huge threat to the West Philippine Sea, with plastic waste floating in places far from populated islands. “In certain areas, including West Palawan, you have mostly fishing gears. But as you come closer to the population, then it becomes trash associated with shampoos, sachets, snacks, and so on. If you look at the labels of those, they are not just in English. They’re in different languages. That means it’s coming from all over the South China Sea,” Dr. David added.


The reclamation of islands has jarring effects on the West Philippine Sea. Dr. David said that the number of alive coral reefs declined as the amount of occupations rose. “Somebody has to be held liable for all that damages because the damage is not just local,” she further explained. Everything that happens across the whole South China Sea region ends up having an impact on all countries in that area, but Dr. David said that the Philippines is the country that experiences the highest impact – with the number of fish families found in the West Philippine Sea declining from 34 to 22 in just 20 years.


Dr. Fernando Siringan, Academician of the National Academy of Science and Technology and Professor at MSI said that one threat the West Philippine Sea should also consider is tsunamis that occur because of earthquakes.


“Sana may mga simulations rin tayong gawin, tingnan natin kung ano ang epekto ng mga tsunami sa ating mga pulo-pulo, at maging bahagi ‘yon ng ating consideration sa pagdevelop ng mga isla [in West Philippine Sea],” Dr. Siringan shared, who also mentioned that monitoring the occurrences of natural hazards such as tsunamis, storm surges, and floods will help researchers determine what kind of structures can be developed in the West Philippine Sea. 


Dr. David underscored the importance of long-term monitoring as a tool for creating strategic plans for protecting and preserving marine resources. “We need to increase our research efforts, and we need to involve a lot of other disciplines. We need to talk to the fishers, and we need more policymakers so that we can make better-informed policies for the West Philippine Sea,” she concluded.


Similar to Dr. David, Dr. Siringan also encouraged conducting long-term monitoring activities involving marine and terrestrial biodiversity in the West Philippine Sea region. “I-sample natin ‘yung mga hindi pa na-sample, at magkakaroon tayo ng maraming discoveries. Kailangan nating idescribe kung saan natin sila nakita, ano ang kanilang kondisyon. Makakatulong ito in understanding the area’s biology and diversity,” he specified, adding that these studies can help in designing a marine protected area in the West Philippine Sea.


Apart from letting scientists study the West Philippine Sea, Dr. Siringan calls on the government to fund these research projects, for studying the ocean is expensive and can be perilous. “Hindi man tao ‘yung source ng fear mo, nandoon ‘yung alon, ‘yung agos ng tubig. Mamatayan ka ng makina, saan ka pupulutin?” he said.


In his talk, Dr. Siringan mentioned the Pagasa Island Research Station, a marine station in Pagasa Island. For 2024, an additional six marine stations all over the country will soon be established. Dr. Siringan recommended marine researchers collaborate with them at the marine stations. “This is a facility for everyone, I would highly encourage that we work together,” he added.


The current geopolitical situation in the West Philippine Sea


Professor Herman Joseph Kraft of the UPD College of Social Sciences and Philosophy – Department of Political Science briefly introduced geopolitics, which, when applied to the West Philippine Sea issue, is more than the Philippines versus China. “On one hand, you’re talking about questions of control over space. But, on the other hand, that control involves the relationship between the great powers – particularly, the competition between China and the United States,” he said.


According to Professor Kraft, countries located in the South China Sea adjusted their claims based on the United Nations Convention on the Law of the Sea (UNCLOS). The only country that has not made any changes and whose claim is not based on UNCLOS is China with its nine-dash line. The UNCLOS also added that maritime domains emanate from land territory. “What China has here is excessive because it goes farther away or quite far from the territory of China itself,” Professor Kraft said.


There are several reasons why China wants to claim a wide area of the South China Sea and its islands from other neighboring countries. This includes controlling maritime and air traffic, accessing marine resources, and pursuing petroleum interests. China has built artificial islands for its vessels to resupply, allowing for longer lingering times.


The solution, Professor Kraft mentioned, is multilateral cooperation with other countries. “The geopolitical situation requires the Philippines to work with various partners to try to maintain the situation in the region,” he added. However, this isn’t an easy solution, as this means being involved in the competition between two powerful forces.


“On one hand, the Philippines seeks to be able to assert its claims and sovereign rights vis-à-vis China. But in doing so, its inability to do anything on the waters requires us to work with the United States, which puts us in a situation where we seem to choose the US over China,” Professor Kraft concluded. “The Philippines is caught in a situation where it has to make diplomatic and political choices regarding the kind of situation it faces now in the West Philippine Sea,” he said further.


Looking beyond West Philippine Sea resources


“We cannot separate the West Philippine Sea from the rest of the country.” Dr. Jonathan Anticamara of the Institute of Biology said, emphasizing the importance of the Philippines’ marine resources – including those in the West Philippine Sea. “Our marine resources are our treasures, but we don’t have a lot of information on what’s going on. We don’t have a systematic database to analyze what’s going on over time. These are our resources, we are small islands in the middle of the Pacific and we shouldn’t forget that.”


Dr. Anticamara mentioned how the Philippines greatly expanded its fishing power and efforts – such as the number of boats and fishers – which led to an increase in contributions of the Philippines to global fisheries. “As Asia’s and the Philippines’ fishing power increase, the production decreases. Fisheries production in the Philippines has declined by more than 60% or 80%. Government agencies give thousands of boats and ships, yet these are just lying [around],” he added.


Lower fisheries production and overfishing resulted in extreme poverty experienced by fishing communities in the Philippines. Dr. Anticamara said that changes should be implemented in taking care of fish and other marine resources. “Filipinos have to think about strategies. How can we make money while not destroying these resources? We need to feed ourselves, but there has to be balance at the end.”


Science has a critical role in protecting the Philippines’ marine resources. Dr. Anticamara emphasized the need for long-term monitoring to better grasp the state of the country’s marine resources, and how to better preserve it.


“Good quality of life can be built by ensuring that nature is doing well and that people are not harming and destroying nature,” Dr. Anticamara said. “Even without China, if the Filipinos don’t have the intention to take care of these resources, then we’ll walk into the future where all of these resources are dead and Filipinos are very, very poor with nothing to eat.” 


For interview requests and other concerns, please contact media@science.upd.edu.ph.

UPD College of Science Kickstarts Innovation-Research Fair 2024

UPD College of Science Kickstarts Innovation-Research Fair 2024

Published: May 09, 2024

By: Harvey L. Sapigao

Organizers and participants of the Innovation-Research Fair 2024 (Photo credit: Craig Soroño).

The UPD College of Science (UPD-CS) Innovation Committee, under the Science and Society Program (SSP) and led by SSP Director Dr. Lerrie Ann Ipulan-Colet, hosted the two-day Innovation-Research Fair on 29 and 30 April 2024 in celebration of World Creativity and Innovation Day.

 

The Innovation-Research Fair is an initiative to bridge the gap between scientists who develop novel inventions and entrepreneurs who produce these inventions for public use. The key players, UPD-CS Dean Giovanni Tapang said in his opening speech, are the innovation officers who bring scientists’ works to entrepreneurs and transmit market demands back to the scientists.

 

Research adoptors from various industries participated in the event. Among the companies and agencies present were Analog Devices Philippines, Ateneo de Manila University, BioAssets Corporation, Bureau of Plant Industry, Bureau of Soils and Water Management, Osaka University – Institute of Laser Engineering, International Flavors and Fragrances, Maynilad Water Services Inc. – WATERLab, Pathway Technologies Inc., Mandaluyong City Health Office, and the Department of Environment, Natural Resources Environmental Management Bureau (DENR-EMB) Air Quality Management Section, and Vecor Labs Philippines.

 

Different institutes of UPD-CS showcased their service laboratories and research capabilities to the research adoptors, namely Marine Science Institute (MSI), Institute of Biology (IB), Institute of Chemistry (IC), Institute of Environmental Science and Meteorology (IESM), Institute of Mathematics (IM), National Institute of Molecular Biology and Biotechnology (NIMBB), National Institute of Physics (NIP), Material Science and Engineering Program (MSEP), and National Institute of Geological Sciences (NIGS).

 

Some CS laboratories and institutes exhibited their value proposition posters to the research adoptors. Among those who participated were UPD-CS IB’s Microbial Ecology of Terrestrial and Aquatic Systems Laboratory, Fungal Laboratory, Pathogen-Host-Environment Interactions Research Laboratory, Developmental Toxicity and Signaling Research Laboratory, Integrative Research Laboratory Philippines, and DNA Barcoding Laboratory and UPD-CS IESM’s Biogeography, Environment, Evolution and Climate Laboratory . UPD-CS IM and MSEP also presented their posters to the research adoptors.

Dr. Renier Mendoza presenting UPD-CS IM’s value proposition poster to a research adoptor (Photo credit: Craig Soroño).

The event included plenary sessions, poster presentations, and panel discussions to stimulate and promote innovation in and out of the academic community. It also aimed to strengthen linkages between students, researchers, and public and private sectors by providing a venue for students and researchers to promote and share their work.

 

As part of the plenary sessions, Department of Trade and Industry (DTI) Undersecretary Rafaelita Aldaba, Ph.D. presented ways the science community and entrepreneurial industries can collaborate; UP Office of the President Consultant for Innovation Mr. Jose Emmanuel P. Reverente presented his perspective on innovation culture; UP System Technology Transfer and Business Development Office Director Luis Sison discussed technology transfers and customer discovery principles; and IP & Technology Transfer Officer Ms. Ma. Christina Mate of Technology Transfer and Business Development Office discussed the technology transfer in UPD-CS.

 

The Innovation-Research Fair also included the 10th iteration of iStories, where Dr. Mannix S. Pedro of the UP Los Baños National Institute of Molecular Biology and Biotechnology (BIOTECH) presented the Bio N invention. This technology can convert nitrogen from the atmosphere into a form used in agriculture. The Bio N technology is an example of an invention that has been commercialized and is now widely used nationwide.

 

Dr. Ipulan-Colet also introduced SSP’s CAPE Innovation Program, an initiative to collate, build awareness, prepare, and expose UPD-CS to innovation opportunities. The program, which started in 2023 and will continue until 2025, is designed to propel researchers toward innovation, connect researchers to industry partners, and develop a system to assist innovators in fulfilling utilizable outputs from their research.

 

The Innovation-Research Fair is expected to be a regular program of UPD-CS as part of its wider effort to streamline the flow of innovation from scientists to entrepreneurs.

 

For interview requests and other concerns, please contact media@science.upd.edu.ph.

Novel Explanation for Long-Standing Neutron Lifetime Problem Proposed by UP Nuclear Physicist

Novel Explanation for Long-Standing Neutron Lifetime Problem Proposed by UP Nuclear Physicist

Published: April 25, 2024

By: Harvey L. Sapigao

Atoms are both a wave and a particle, similar to water waves (which are waves) that give rise to water droplets (which are particles) (Photo credit: Zhang Kaiyv on Unsplash)

Neutrons, when plucked from the nucleus of atoms, become unstable and decay after some time. Physicists know that these unstable neutrons die after about 14 minutes, but they cannot pinpoint the exact seconds in which the neutrons last, even as today’s experiments are at their most precise. 

 

This problem, known as the neutron lifetime anomaly, arises because two different but equally rigorous experimental methods – the beam method and the bottle method – produce different results. A popular reason is that some undiscovered phenomenon might be at play.

 

But Dr. Denny Lane Sombillo of the UP Diliman College of Science National Institute of Physics (UPD-CS NIP) thinks the explanation may lie in how time behaves at a quantum level. “If this [theory] is correct,” he said, “we don’t need to modify the known physics and simply focus on the nature of time in quantum mechanics.”

 

Dr. Sombillo’s theory involves a separate problem called the quantum time of arrival (QTOA) problem. His theory is built upon the works of Dr. Eric Galapon of UPD-CS NIP. By employing Einstein’s concept of causality in Dr. Galapon’s work, Dr. Sombillo provides an intuitive picture of the quantum time of arrival problem, one that can be used to explain other mysteries such as the neutron lifetime anomaly.

 

Time of Arrival in Classical vs. Quantum Mechanics

 

In classical mechanics, a car traveling at 40 kilometers per hour will arrive at the destination 40 kilometers away in exactly one hour. So long as the speed of the car and the distance to the destination do not change, we can be sure that the car’s time of arrival will always be one hour.

 

A different story emerges in quantum mechanics. An atom traveling at some speed will reach its destination – say, a detector – after some time. However, a weird quirk of an atom is that we can prepare its exact position or exact speed, but not both at the same time. That is, we can prepare it with an exact speed, but we cannot set how far away it is from the detector, and vice-versa. As a result, we cannot be sure of the atom’s time of arrival; we can only know the probability of it arriving after a certain time.

 

This feature called the Heisenberg uncertainty principle, owes its weirdness to the duality of atoms as both a wave and a particle. Naturally, atoms are clouds of probabilities with no definite properties, much like the ambiguity of a wave. When measured or prepared, however, atoms instantaneously acquire exact properties, much like the distinctness of a particle.

 

Dr. Galapon’s theory on QTOA posits that right after the atom is prepared, it collapses into a specific type of wave. After some time, this wave will evolve and turn into a particle. This process is aptly named the Galapon collapse mechanism (GCM).

 

Employing Causality

 

However, Dr. Sombillo noticed that the theory allows for a situation where the atom instantaneously arrives at the detector. That is, the atom can “teleport” to the detector, rendering no time to travel, which is physically impossible. This also violates the concept of causality, which states that one event (a cause) must first happen before another event (an effect).

 

“You can think of causality as the proper ordering of events,” Dr. Sombillo explained. In the traveling atom, for example, the proper order of events would be that the atom must be prepared first (a cause) before appearing at the detector (an effect). That is, the atom should not be detected by the detector if it has not yet been prepared.

 

Dr. Galapon’s theory allows for the reversed ordering of events where the detection of the atom precedes its preparation.  “Intuitively, this reversed ordering should not be in the theory, but it is not easy to identify this loophole using mathematics alone,” Dr. Sombillo said. “One needs to evaluate the physical implications of the formalism.”

 

By employing causality, Dr. Sombillo and his collaborator, Dr. Neris Sombillo of Ateneo de Manila University, were able to fix the issue. “We found that the instantaneous arrival time can be removed if we impose causality in the formulation of the time of arrival operator theory,” he said. “Even if we remove the causality-violating part, the quantum correction to time remains.” Their improved formulations can now be used to explain physical phenomena such as the neutron lifetime anomaly.

 

Neutron Lifetime Anomaly

 

When an unstable neutron dies, it changes into a proton, emitting an electron and antineutrino. But exactly how long before this process happens is still unknown. The beam experiment suggests that the unstable neutron lasts an average of 14 minutes and 48 seconds, while the bottle experiment suggests 14 minutes and 39 seconds – a nine-second difference.

 

Dr. Sombillo believes that the difference comes from how the neutrons are initially prepared, which would have affected their lifetime. Just like in the quantum time of arrival problem where the atom’s particle-like state affects how it will evolve into a wave, the neutron’s initial state affects how it will decay.

 

The beam and bottle experiment, he theorizes, sets the neutrons with dissimilar quantum characteristics. Plugging these values into his equations on quantum time of arrival would result in different neutron lifetimes, accounting for the discrepancy in the experiments.

 

Now published in Physics Letters A, their paper is the first to merge causality and the quantum time of arrival problem, as well as use it to explain the neutron lifetime anomaly. “Our work is the only proposal that presents the anomaly as a quantum correction to a time observable,” Dr. Sombillo said.  “The paper laid the foundation for future work on the neutron lifetime anomaly using the theory of quantum arrival.”

 

While their work is still at its preliminary stage, he said that they intend to pursue a more thorough investigation of the quantum time theory in the future. Before transitioning as a nuclear physicist, Dr. Sombillo was part of the quantum time operator research group of UPD-CS NIP. He later learned about the neutron lifetime anomaly and how it might relate to the quantum time of arrival problem after his transition.

 

For interview requests and other concerns, please contact media@science.upd.edu.ph.

 

References:

Sombillo, D. L. B., & Sombillo, N. I. (December 5, 2023). Formulation of causality-preserving quantum time of arrival theory. Physics Letters A, 490, 129205. https://doi.org/10.1016/j.physleta.2023.129205

 

Galapon, E. A. (2008). Theory of quantum arrival and spatial wave function collapse on the appearance of particle. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, 465(2101), 71–86. https://doi.org/10.1098/rspa.2008.0278 

 

Wietfeldt, F. E., & Greene, G. L. (2011). Colloquium: The neutron lifetime. Reviews of Modern Physics, 83(4), 1173–1192. https://doi.org/10.1103/revmodphys.83.1173

Science Majors Participate in Month-long Singapore-PH Leadership Exchange Program

Science Majors Participate in Month-long Singapore-PH Leadership Exchange Program

Published: April 19, 2024

By: Harvey L. Sapigao

Program participants at Mt. Pinatubo (Photo credit: Lillian Rodriguez).

Students of the UP Diliman College of Science (UPD-CS) and the Republic Polytechnic in Singapore (RP) immersed themselves in the month-long Temasek Foundation International Specialists’ Community Action and Leadership Exchange (TFI SCALE) Programme, the first half taking place in Singapore on September 6 to 19, 2023, and the second half in the Philippines last March 31 to April 8, 2024.

 

The TFI SCALE Programme aims to promote cultural, cognitive, social, and emotional engagements among Southeast Asian youths. In the 9th iteration of the program, students from the National Institute of Geological Sciences (UPD-CS NIGS), Institute of Biology (UPD-CS IB), and National Institute of Molecular Biology and Biotechnology (UPD-CS NIMBB) collaborated with students from RP’s School of Applied Sciences.

 

As part of the program in the Philippines, the exchange students visited Mt. Pinatubo, the Las Piñas-Parañaque Wetland Park (LPPWP), and the Parañaque Science High School (ParSci) to explore the country’s climate, biodiversity, research, and sustainability issues.

 

The participants were divided into three groups: the microplastics group which examined the presence of microplastics in Manila Bay, the coliform group which investigated human and animal waste in the bay, and the mangrove cleanup trash segregation group which surveyed various types of trash found in the protected mangrove area of LPPWP.

Participants performing a clean-up drive at LPPWP (Photo credit: Lillian Rodriguez).

They also conducted a Youth Community Engagement Program for Grade 7 students of ParSci. The outreach program included activities meant to raise awareness of climate change, biodiversity, and sustainability among ParSci students, especially since the school is located right beside one of the major tributaries of Manila Bay.

 

In her closing remarks, Program Coordinator Dr. Lillian Jennifer Rodriguez underscored the program’s importance in teaching the youth about sustainability, building lifelong ties, and producing future leaders. “You are our future leaders,” she said, reminding them of their responsibility to apply the knowledge they have gained from the program.

 

Last April 4, 2024, UPD Chancellor Edgardo Carlo Vistan II signed a memorandum of understanding (MOU)  in the presence of RP officials, solidifying future partnerships between the two institutions. The MOU stated that both parties will collaborate on the “exchange of students, including student internship; joint lectures, research activities, symposia, and projects; exchange of academic materials, publications, and information; and exchange of academic staff.”

MOU signing by UPD Chancellor Edgardo Carlo Vistan II and RP’s Senior Director (Student Services) Mr. Ashley Chua at UPD-CS Administration Building Auditorium (Photo credit: Jefferson Villacruz, UP Diliman Information Office).

“This program fostered a rich exchange of experiences,” said Raymond Gallego, one of the program’s participants and student of UPD-CS NIGS, in his testimonial. “The formalization of this partnership between UP Diliman and Republic Polytechnic definitely paves the way for more students to forge friendships, expand their knowledge, and strengthen relations between our countries.” 

 

Aside from Gallego, the CS students who completed the program were Francesca Petero, Alena Taladua, Kristina Marie Dela Cruz, Johannah Isabel Sengson, Florence Maryanna Agcaoili, Sabine Alexa Guinto, Martine Gabrielle Rosete, Josef Emil Artiaga, Sean Michael Maghirang, John Daniel Regala, John Nash Guzon, and Glenn Vallespin.


For interview requests and other concerns, please contact media@science.upd.edu.ph.

Two UPD College of Science Professors Win the NRCP Achievement Award

Two UPD College of Science Professors Win the NRCP Achievement Award

Published: April 18, 2024

By: Harvey L. Sapigao

Dr. Cristine Villagonzalo (left) and Dr. Reynaldo Garcia (right) receiving the Achievement Award (Photo credit: DOST-NRCP)

Dr. Cristine Villagonzalo and Dr. Reynaldo Garcia from the UP Diliman College of Science (UPD-CS) received the prestigious Achievement Award from the National Research Council of the Philippines (NRCP) in the recently held Annual Scientific Conference and 91st General Membership Assembly last March 12, 2024.

 

Dr. Villagonzalo of the UPD-CS National Institute of Physics (UPD-CS NIP) was lauded for her contributions to Physics, and Dr. Garcia of the UPD-CS National Institute of Molecular Biology and Biotechnology (UPD-CS NIMBB) for his contributions to the field of Medical Sciences.

 

Dr. Villagonzalo served as the President of the NRCP Governing board from 2022 to 2023. She is a Professor and the Deputy Director for Academic Affairs at NIP and the Project Leader of the International Year of Basic Sciences for Sustainable Development (IYBSSD) Philippines. Dr. Villagonzalo received her doctorate of natural sciences at Chemnitz University of Technology in Germany. She is currently working on a research project to integrate a quantum mechanics principle called the perturbation theory in a quantum circuit.

 

Dr. Garcia founded the Disease Molecular Biology and Epigenetics Laboratory (DMBEL) at NIMBB in 2011. He and his team played a crucial role in detecting and preventing the spread of COVID-19 during the pandemic. Dr. Garcia received his doctorate in Biochemistry and Molecular Biology at the Australian National University and is currently a Professor at NIMBB. He is currently investigating how specific mutations in colon cancer cells affect their resistance to treatments, and how these mutated cells divide, migrate, and survive.

 

The NRCP started awarding the Achievement Award in 1979 to those who have significantly contributed to the research and development of natural sciences, health sciences, engineering, industry, social sciences, and humanities in the Philippines.

 

Aside from Dr. Villagonzalo and Dr. Garcia, three professors from UP Los Baños also received the Achievement Awards, namely Dr. Inocencio Buot Jr. for his contributions to Biological Sciences, Dr. Maria Ana Quimbo for Social Sciences, and Dr. Remil Galay for Veterinary Medicine.

 

The UPD Department of Chemical Engineering was awarded the 2023 NRCP Outstanding Institution Award. It joins the ranks of UPD-CS institutes that have received the award, namely NIP, Marine Science Institute (MSI), and Natural Sciences Research Institute DNA Analysis Laboratory (NSRI-DAL).


For interview requests and other concerns, please contact media@science.upd.edu.ph.

“Making the Invisible Visible” with Bird Window Strike PH

“Making the Invisible Visible” with Bird Window Strike PH

Published: April 11, 2024

By: Maria Alexandra Marmol

(Left to right) Panels featured in the “Making the Invisible Visible” pop-up exhibit. Bird displays serve as an example of the harm caused by window collisions. (Photo credits: Bird Window Strike PH & Marmol, 2024)

In February 2024, the UP Diliman College of Science Institute of Biology (UPD – CS IB) housed the “Making the Invisible Visible” pop-up exhibition of the citizen science project, Bird Window Strike Philippines. 

 

Featuring the feathered remains of unlucky birds that had collided into windows, the displays served as poignant and striking visuals for this strange, but common phenomenon. Infographics and posters provided possible solutions and detailed accounts of incidents from up to 290 citizen reports from all around the Philippines.

 

Bird Window Strike PH first started as a research initiative and passion project under Janina Castro of the Ateneo Institute of Sustainability, the school’s hub for sustainable development, and Jelaine Gan of The UP Wild, an online educational community raising awareness on UP Diliman’s wildlife and green spaces. 

 

The two had long been avid bird watchers—or “birders”—when the idea formed after Janina rescued a Coppersmith Barbet that had struck a window in the Ateneo de Manila University. She realized that little to no research was being done on bird collisions with windows despite their somewhat common occurrence. Teaming up with Jelaine, the two discussed how they could bring more attention to this issue and what could be done to prevent further collisions.

Displays showcasing various installations that can help prevent window collisions, ranging from darker tinted glass, to stickers, to ropes and mesh. (Photo credit: Bird Window Strike PH, 2024)

Bird collisions with windows can happen when they are misled by either the reflections of trees and the sky on the glass surface or by the view of the environment through the glass. Based on studies by various researchers and the American Bird Conservancy (ABC) database, the most efficient means of prevention involved breaking up the reflection. This could be done by installing stickers at least 1 cm in size, ideally spaced around 5 cm apart. The “Making the Invisible Visible” pop-up exhibition showed other solutions, such as ropes and wire mesh screens for windows. 


“[These solutions are] among the most effective, but this doesn’t mean that these are the only choices,” the Bird Window Strike PH team emphasized. “In the ABC database, there are a number of DIY solutions and commercial solutions that people can choose from.” 

(The ABC database can be found here.)


Citizens from across the country aid in raising awareness on the endangerment of various species, as the Bird Window Strike PH regularly receives incident reports and photos—some of which were part of the exhibit. Pigeons (Columbidae), kingfishers (Alcedinidae), barbets (Megalaimidae), and pittas (Pittidae) were among the most common victims of window collisions.


“In particular, we get a lot of Common Emerald Dove (Chalcophaps indica) and Hooded Pitta (Pitta sordida) in the reports,” they explained. “We don’t know why these birds seem to be colliding more, but some of the explanations in literature are related to increased blue light pollution in cities and to birds’ behavior of moving around different forest patches.”


The citizen science and conservation initiative plans to set up more pop-up exhibitions in the future. By showcasing solutions through these displays and serving as an avenue for incident reports, they hope to reach more people and encourage them to take action in preventing any further accidents.


Keep an eye out for the Bird Window Strike PH’s next exhibit and work on their FB page.


For interview requests and other concerns, please contact media@science.upd.edu.ph.

UK Recognizes UP Scientists’ Contributions to Philippine Research and Development

UK Recognizes UP Scientists’ Contributions to Philippine Research and Development

Published: March 19, 2024

By: Harvey L. Sapigao

Students using VISSER, a portable learning device CS Dean Giovanni Tapang helped commercialize (Photo credit: making.technology)

Pamela Louise Tolentino of UP Diliman College of Science National Institute of Geological Sciences (UPD-CS NIGS) and CS Dean Giovanni Tapang are among the Filipino scientists highlighted by the UK in their decadal recap of joint scientific achievements with the Philippines.

 

Since 2014, Filipino scientists have been collaborating with UK scientists through the scientific partnership between the two countries. In 2016, the Newton Agham Fund was launched, aimed at providing £3 million (about ₱180 million) of funds for key research projects in health and life sciences, environmental resilience, and energy security.

 

Tolentino is one of the lead investigators in their project examining where rivers flow and how they change landscapes. By understanding the geomorphological processes behind river systems, their work provides evidence-based solutions for a more effective flood risk assessment and planning. Tolentino and colleagues’ work is under the “Understanding the Impacts of Hydrometeorological Hazards in Southeast Asia Programme” and is funded through the Newton Agham Fund.

 

In 2016, Dean Tapang was a Leaders in Innovation Fellow, a program that trains and mentors scientists in bringing their inventions to the market. Last year, he spearheaded the commercialization of the Versatile Instrumentation System for Science Education and Research (VISSER), a portable learning device that allows students to conduct 120 experiments in chemistry, biology, environmental science, and physics. At the end of the year, the company distributed 43 VISSER units and generated ₱3.4 million in total revenue. Read the VISSER press release here.

 

“Every project should have collaboration and inclusion at its core to have impacts that last way beyond its lifetime,” said Tolentino in UK’s Science Snapshot. “I honestly believe that more than the outputs such as methods and data developed from the project, it is truly the conversations where the common goal of providing a better future for everyone that will drive the changes.”

 

To express interest in continuing the partnership, the UK and the Philippines held the first Joint Committee Meeting (JCM) at The Manila Peninsula Makati City on February 22, 2024. The JCM would now be held every two years to bolster cooperation between both parties.

 

For interview requests and other concerns, please contact media@science.upd.edu.ph.