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      in Environment

      Understanding air pollution from space

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      Climate change and air pollution are interlocking crises that threaten human health. Reducing emissions of some air pollutants can help achieve climate goals, and some climate mitigation efforts can in turn improve air quality.

      One part of MIT Professor Arlene Fiore’s research program is to investigate the fundamental science in understanding air pollutants — how long they persist and move through our environment to affect air quality.

      “We need to understand the conditions under which pollutants, such as ozone, form. How much ozone is formed locally and how much is transported long distances?” says Fiore, who notes that Asian air pollution can be transported across the Pacific Ocean to North America. “We need to think about processes spanning local to global dimensions.”

      Fiore, the Peter H. Stone and Paola Malanotte Stone Professor in Earth, Atmospheric and Planetary Sciences, analyzes data from on-the-ground readings and from satellites, along with models, to better understand the chemistry and behavior of air pollutants — which ultimately can inform mitigation strategies and policy setting.

      A global concern

      At the United Nations’ most recent climate change conference, COP26, air quality management was a topic discussed over two days of presentations.

      “Breathing is vital. It’s life. But for the vast majority of people on this planet right now, the air that they breathe is not giving life, but cutting it short,” said Sarah Vogel, senior vice president for health at the Environmental Defense Fund, at the COP26 session.

      “We need to confront this twin challenge now through both a climate and clean air lens, of targeting those pollutants that warm both the air and harm our health.”

      Earlier this year, the World Health Organization (WHO) updated its global air quality guidelines it had issued 15 years earlier for six key pollutants including ozone (O3), nitrogen dioxide (NO2), sulfur dioxide (SO2), and carbon monoxide (CO). The new guidelines are more stringent based on what the WHO stated is the “quality and quantity of evidence” of how these pollutants affect human health. WHO estimates that roughly 7 million premature deaths are attributable to the joint effects of air pollution.

      “We’ve had all these health-motivated reductions of aerosol and ozone precursor emissions. What are the implications for the climate system, both locally but also around the globe? How does air quality respond to climate change? We study these two-way interactions between air pollution and the climate system,” says Fiore.

      But fundamental science is still required to understand how gases, such as ozone and nitrogen dioxide, linger and move throughout the troposphere — the lowermost layer of our atmosphere, containing the air we breathe.

      “We care about ozone in the air we’re breathing where we live at the Earth’s surface,” says Fiore. “Ozone reacts with biological tissue, and can be damaging to plants and human lungs. Even if you’re a healthy adult, if you’re out running hard during an ozone smog event, you might feel an extra weight on your lungs.”

      Telltale signs from space

      Ozone is not emitted directly, but instead forms through chemical reactions catalyzed by radiation from the sun interacting with nitrogen oxides — pollutants released in large part from burning fossil fuels—and volatile organic compounds. However, current satellite instruments cannot sense ground-level ozone.

      “We can’t retrieve surface- or even near-surface ozone from space,” says Fiore of the satellite data, “although the anticipated launch of a new instrument looks promising for new advances in retrieving lower-tropospheric ozone”. Instead, scientists can look at signatures from other gas emissions to get a sense of ozone formation. “Nitrogen dioxide and formaldehyde are a heavy focus of our research because they serve as proxies for two of the key ingredients that go on to form ozone in the atmosphere.”

      To understand ozone formation via these precursor pollutants, scientists have gathered data for more than two decades using spectrometer instruments aboard satellites that measure sunlight in ultraviolet and visible wavelengths that interact with these pollutants in the Earth’s atmosphere — known as solar backscatter radiation.

      Satellites, such as NASA’s Aura, carry instruments like the Ozone Monitoring Instrument (OMI). OMI, along with European-launched satellites such as the Global Ozone Monitoring Experiment (GOME) and the Scanning Imaging Absorption spectroMeter for Atmospheric CartograpHY (SCIAMACHY), and the newest generation TROPOspheric Monitoring instrument (TROPOMI), all orbit the Earth, collecting data during daylight hours when sunlight is interacting with the atmosphere over a particular location.

      In a recent paper from Fiore’s group, former graduate student Xiaomeng Jin (now a postdoc at the University of California at Berkeley), demonstrated that she could bring together and “beat down the noise in the data,” as Fiore says, to identify trends in ozone formation chemistry over several U.S. metropolitan areas that “are consistent with our on-the-ground understanding from in situ ozone measurements.”

      “This finding implies that we can use these records to learn about changes in surface ozone chemistry in places where we lack on-the-ground monitoring,” says Fiore. Extracting these signals by stringing together satellite data — OMI, GOME, and SCIAMACHY — to produce a two-decade record required reconciling the instruments’ differing orbit days, times, and fields of view on the ground, or spatial resolutions. 

      Currently, spectrometer instruments aboard satellites are retrieving data once per day. However, newer instruments, such as the Geostationary Environment Monitoring Spectrometer launched in February 2020 by the National Institute of Environmental Research in the Ministry of Environment of South Korea, will monitor a particular region continuously, providing much more data in real time.

      Over North America, the Tropospheric Emissions: Monitoring of Pollution Search (TEMPO) collaboration between NASA and the Smithsonian Astrophysical Observatory, led by Kelly Chance of Harvard University, will provide not only a stationary view of the atmospheric chemistry over the continent, but also a finer-resolution view — with the instrument recording pollution data from only a few square miles per pixel (with an anticipated launch in 2022).

      “What we’re very excited about is the opportunity to have continuous coverage where we get hourly measurements that allow us to follow pollution from morning rush hour through the course of the day and see how plumes of pollution are evolving in real time,” says Fiore.

      Data for the people

      Providing Earth-observing data to people in addition to scientists — namely environmental managers, city planners, and other government officials — is the goal for the NASA Health and Air Quality Applied Sciences Team (HAQAST).

      Since 2016, Fiore has been part of HAQAST, including collaborative “tiger teams” — projects that bring together scientists, nongovernment entities, and government officials — to bring data to bear on real issues.

      For example, in 2017, Fiore led a tiger team that provided guidance to state air management agencies on how satellite data can be incorporated into state implementation plans (SIPs). “Submission of a SIP is required for any state with a region in non-attainment of U.S. National Ambient Air Quality Standards to demonstrate their approach to achieving compliance with the standard,” says Fiore. “What we found is that small tweaks in, for example, the metrics we use to convey the science findings, can go a long way to making the science more usable, especially when there are detailed policy frameworks in place that must be followed.”

      Now, in 2021, Fiore is part of two tiger teams announced by HAQAST in late September. One team is looking at data to address environmental justice issues, by providing data to assess communities disproportionately affected by environmental health risks. Such information can be used to estimate the benefits of governmental investments in environmental improvements for disproportionately burdened communities. The other team is looking at urban emissions of nitrogen oxides to try to better quantify and communicate uncertainties in the estimates of anthropogenic sources of pollution.

      “For our HAQAST work, we’re looking at not just the estimate of the exposure to air pollutants, or in other words their concentrations,” says Fiore, “but how confident are we in our exposure estimates, which in turn affect our understanding of the public health burden due to exposure. We have stakeholder partners at the New York Department of Health who will pair exposure datasets with health data to help prioritize decisions around public health.

      “I enjoy working with stakeholders who have questions that require science to answer and can make a difference in their decisions.” Fiore says. More

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      in Environment

      J-PAL North America announces five new partnerships with state and local governments

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      J-PAL North America, a research center in MIT’s Department of Economics, has announced five new partnerships with state and local governments across the United States after a call for proposals in early February. Over the next year, these partners will work with J-PAL North America’s State and Local Innovation Initiative to evaluate policy-relevant questions critical to alleviating poverty in the United States.

      J-PAL North America will work with the Colorado Department of Higher Education, Ohio’s Franklin County Department of Job and Family Services, the New Mexico Public Education Department, Puerto Rico’s Department of Economic Development and Commerce, and Oregon’s Jackson County Fire District 3. Each partner will leverage support from J-PAL North America to develop randomized evaluations, which have the potential to reveal widely applicable lessons about which programs and policies are most effective. 

      State and local leaders are vital stakeholders in developing rigorous evidence in order to understand which policies and programs work to reduce poverty, and why. By supporting each government partner in developing these five evaluation projects, the voice of policymakers and practitioners will remain a central part of the research process. Each of this year’s selected projects seeks to address policy concerns that have been identified by state and local governments in J-PAL North America’s State and Local Learning Agenda as key areas for addressing barriers to mobility from poverty, including environment, education, economic security, and housing stability. 

      One project looks to mitigate the emission of carbon co-pollutants, which cause disproportionately high rates of health problems among communities experiencing poverty. 

      Oregon’s Jackson County Fire District 3 will investigate the impact of subsidies on the uptake of wildfire risk reduction activities in a county severely affected by wildfires. “Wildfires have become more prevalent, longer lasting, and more destructive in Oregon and across the western United States. We also know that wildfire is disproportionately impacting our most vulnerable populations,” says Bob Horton, fire chief of Jackson County Fire District 3. “With technical support from JPAL North America’s staff and this grant funding, we will devise the most current and effective strategy, deeply rooted in the evidence, to drive the take-up of home-hardening behaviors — methods to increase a home’s resistance to fire — and lower the risk to homes when faced with wildfire.” 

      This project is in alignment with the priorities of J-PAL’s Environment, Energy, and Climate Change sector and its agenda for catalyzing more policy-relevant research on adaptation strategies. 

      Policymakers and researchers have also identified programs aimed at increasing opportunity within education as a key priority for evaluation. In partnering with J-PAL North America, the Colorado Department of Higher Education will assess the impact of My Colorado Journey, an online platform available to all Coloradans that provides information on education, training, and career pathways. 

      “As Colorado builds back stronger from the pandemic, we know that education and workforce development are at the center of Colorado’s recovery agenda,” shares Executive Director Angie Paccione of the Colorado Department of Education. “Platforms like My Colorado Journey are key to supporting the education, training, and workforce exploration of Coloradans of any age. With support from J-PAL North America, we can better understand how to effectively serve Coloradans, further enhance this vital platform, and continue to build a Colorado for all.”

      Similarly, the New Mexico Public Education Department proposes their intervention within the context of New Mexico’s community school state initiative. They will look at the impact of case management and cash transfers on students at risk of multiple school transfers throughout their education, which include children who are experiencing homelessness, migrant children, children in the foster care system, and military-connected children, among others. “New Mexico is delighted to partner with J-PAL North America to explore visionary pathways to success for highly mobile students,” says New Mexico Public Education Secretary (Designate) Kurt Steinhaus. “We look forward to implementing and testing innovative solutions, such as cash transfers, that can expand our current nationally recognized community schools strategy. Together, we aim to find solutions that meet the needs of highly mobile students and families who lack stable housing.”

      Another key priority for the intersection of policy and research is economic security — fostering upward mobility by providing individuals with resources to promote stable incomes and increase standards of living. By adjusting caseworker employment services to better align with local needs, Puerto Rico’s Department of Economic Development and Commerce (DEDC) looks to understand how individualized services can impact employment and earnings. 

      “The commitment of the government of Puerto Rico is to develop human resources to the highest quality standards,” says DEDC Secretary Cidre Miranda, whose statement was provided in Spanish and translated. “For the DEDC, it is fundamental to contribute to the development of initiatives like this one, because they have the objective of forging the future professionals that Puerto Rico requires and needs.” J-PAL North America’s partnership with DEDC has the potential to provide valuable lessons for other state and local programs also seeking to promote economic security. 

      Finally, Ohio’s Franklin County Department of Job and Family Services seeks to understand the impact of an eviction prevention workshop in a county with eviction rates that are higher than both the state and national average. “Stable housing should not be a luxury, but for far too many Franklin County families it has become one,” Deputy Franklin County Administrator Joy Bivens says. “We need to view our community’s affordable housing crisis through both a social determinants of health and racial equity lens. We are grateful for the opportunity to partner with J-PAL North America to ensure we are pursuing research-based interventions that, yes, address immediate housing needs, but also provide long-term stability so they can climb the economic ladder.”

      Franklin County Department of Job and Family Services’ evaluation aligns with policymaker and researcher interests to ensure safe and affordable housing. This partnership will have great potential to not only improve resources local to Franklin County, but, along with each of the other four agencies, can also provide a useful model for other government agencies facing similar challenges.For more information on state and local policy priorities, see J-PAL North America’s State and Local Learning Agenda. To learn more about the State and Local Innovation Initiative, please visit the Initiative webpage or contact Initiative Manager Louise Geraghty. More

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      in Environment

      New “risk triage” platform pinpoints compounding threats to US infrastructure

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      Over a 36-hour period in August, Hurricane Henri delivered record rainfall in New York City, where an aging storm-sewer system was not built to handle the deluge, resulting in street flooding. Meanwhile, an ongoing drought in California continued to overburden aquifers and extend statewide water restrictions. As climate change amplifies the frequency and intensity of extreme events in the United States and around the world, and the populations and economies they threaten grow and change, there is a critical need to make infrastructure more resilient. But how can this be done in a timely, cost-effective way?

      An emerging discipline called multi-sector dynamics (MSD) offers a promising solution. MSD homes in on compounding risks and potential tipping points across interconnected natural and human systems. Tipping points occur when these systems can no longer sustain multiple, co-evolving stresses, such as extreme events, population growth, land degradation, drinkable water shortages, air pollution, aging infrastructure, and increased human demands. MSD researchers use observations and computer models to identify key precursory indicators of such tipping points, providing decision-makers with critical information that can be applied to mitigate risks and boost resilience in infrastructure and managed resources.

      At MIT, the Joint Program on the Science and Policy of Global Change has since 2018 been developing MSD expertise and modeling tools and using them to explore compounding risks and potential tipping points in selected regions of the United States. In a two-hour webinar on Sept. 15, MIT Joint Program researchers presented an overview of the program’s MSD research tool set and its applications.  

      MSD and the risk triage platform

      “Multi-sector dynamics explores interactions and interdependencies among human and natural systems, and how these systems may adapt, interact, and co-evolve in response to short-term shocks and long-term influences and stresses,” says MIT Joint Program Deputy Director C. Adam Schlosser, noting that such analysis can reveal and quantify potential risks that would likely evade detection in siloed investigations. “These systems can experience cascading effects or failures after crossing tipping points. The real question is not just where these tipping points are in each system, but how they manifest and interact across all systems.”

      To address that question, the program’s MSD researchers have developed the MIT Socio-Environmental Triage (MST) platform, now publicly available for the first time. Focused on the continental United States, the first version of the platform analyzes present-day risks related to water, land, climate, the economy, energy, demographics, health, and infrastructure, and where these compound to create risk hot spots. It’s essentially a screening-level visualization tool that allows users to examine risks, identify hot spots when combining risks, and make decisions about how to deploy more in-depth analysis to solve complex problems at regional and local levels. For example, MST can identify hot spots for combined flood and poverty risks in the lower Mississippi River basin, and thereby alert decision-makers as to where more concentrated flood-control resources are needed.

      Successive versions of the platform will incorporate projections based on the MIT Joint Program’s Integrated Global System Modeling (IGSM) framework of how different systems and stressors may co-evolve into the future and thereby change the risk landscape. This enhanced capability could help uncover cost-effective pathways for mitigating and adapting to a wide range of environmental and economic risks.  

      MSD applications

      Five webinar presentations explored how MIT Joint Program researchers are applying the program’s risk triage platform and other MSD modeling tools to identify potential tipping points and risks in five key domains: water quality, land use, economics and energy, health, and infrastructure. 

      Joint Program Principal Research Scientist Xiang Gao described her efforts to apply a high-resolution U.S. water-quality model to calculate a location-specific, water-quality index over more than 2,000 river basins in the country. By accounting for interactions among climate, agriculture, and socioeconomic systems, various water-quality measures can be obtained ranging from nitrate and phosphate levels to phytoplankton concentrations. This modeling approach advances a unique capability to identify potential water-quality risk hot spots for freshwater resources.

      Joint Program Research Scientist Angelo Gurgel discussed his MSD-based analysis of how climate change, population growth, changing diets, crop-yield improvements and other forces that drive land-use change at the global level may ultimately impact how land is used in the United States. Drawing upon national observational data and the IGSM framework, the analysis shows that while current U.S. land-use trends are projected to persist or intensify between now and 2050, there is no evidence of any concerning tipping points arising throughout this period.  

      MIT Joint Program Research Scientist Jennifer Morris presented several examples of how the risk triage platform can be used to combine existing U.S. datasets and the IGSM framework to assess energy and economic risks at the regional level. For example, by aggregating separate data streams on fossil-fuel employment and poverty, one can target selected counties for clean energy job training programs as the nation moves toward a low-carbon future. 

      “Our modeling and risk triage frameworks can provide pictures of current and projected future economic and energy landscapes,” says Morris. “They can also highlight interactions among different human, built, and natural systems, including compounding risks that occur in the same location.”  

      MIT Joint Program research affiliate Sebastian Eastham, a research scientist at the MIT Laboratory for Aviation and the Environment, described an MSD approach to the study of air pollution and public health. Linking the IGSM with an atmospheric chemistry model, Eastham ultimately aims to better understand where the greatest health risks are in the United States and how they may compound throughout this century under different policy scenarios. Using the risk triage tool to combine current risk metrics for air quality and poverty in a selected county based on current population and air-quality data, he showed how one can rapidly identify cardiovascular and other air-pollution-induced disease risk hot spots.

      Finally, MIT Joint Program research affiliate Alyssa McCluskey, a lecturer at the University of Colorado at Boulder, showed how the risk triage tool can be used to pinpoint potential risks to roadways, waterways, and power distribution lines from flooding, extreme temperatures, population growth, and other stressors. In addition, McCluskey described how transportation and energy infrastructure development and expansion can threaten critical wildlife habitats.

      Enabling comprehensive, location-specific analyses of risks and hot spots within and among multiple domains, the Joint Program’s MSD modeling tools can be used to inform policymaking and investment from the municipal to the global level.

      “MSD takes on the challenge of linking human, natural, and infrastructure systems in order to inform risk analysis and decision-making,” says Schlosser. “Through our risk triage platform and other MSD models, we plan to assess important interactions and tipping points, and to provide foresight that supports action toward a sustainable, resilient, and prosperous world.”

      This research is funded by the U.S. Department of Energy’s Office of Science as an ongoing project. More

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      in Environment

      Finding common ground in Malden

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      When disparate groups convene around a common goal, exciting things can happen.

      That is the inspiring story unfolding in Malden, Massachusetts, a city of about 60,000 — nearly half people of color — where a new type of community coalition continues to gain momentum on its plan to build a climate-resilient waterfront park along its river. The Malden River Works (MRW) project, recipient of the inaugural Leventhal City Prize, is seeking to connect to a contiguous greenway network where neighboring cities already have visitors coming to their parks and enjoying recreational boating. More important, the MRW is changing the model for how cities address civic growth, community engagement, equitable climate resilience, and environmental justice.                                                                                        

      The MRW’s steering committee consists of eight resident leaders of color, a resident environmental advocate, and three city representatives. One of the committee’s primary responsibilities is providing direction to the MRW’s project team, which includes urban designers, watershed and climate resilience planners, and a community outreach specialist. MIT’s Kathleen Vandiver, director of the Community Outreach Education and Engagement Core at MIT’s Center for Environmental Health Sciences (CEHS), and Marie Law Adams MArch ’06, a lecturer in the School of Architecture and Planning’s Department of Urban Studies and Planning (DUSP), serve on the project team.

      “This governance structure is somewhat unusual,” says Adams. “More typical is having city government as the primary decision-maker. It is important that one of the first things our team did was build a steering committee that is the decision maker on this project.”

      Evan Spetrini ’18 is the senior planner and policy manager for the Malden Redevelopment Authority and sits on both the steering committee and project team. He says placing the decision-making power with the steering committee and building it to be representative of marginalized communities was intentional. 

      “Changing that paradigm of power and decision-making in planning processes was the way we approached social resilience,” says Spetrini. “We have always intended this project to be a model for future planning projects in Malden.”

      This model ushers in a new history chapter for a city founded in 1640.

      Located about six miles north of Boston, Malden was home to mills and factories that used the Malden River for power, and a site for industrial waste over the last two centuries. Decades after the city’s industrial decline, there is little to no public access to the river. Many residents were not even aware there was a river in their city. Before the project was under way, Vandiver initiated a collaborative effort to evaluate the quality of the river’s water. Working with the Mystic River Watershed Association, Gradient Corporation, and CEHS, water samples were tested and a risk analysis conducted.

      “Having the study done made it clear the public could safely enjoy boating on the water,” says Vandiver. “It was a breakthrough that allowed people to see the river as an amenity.”

      A team effort

      Marcia Manong had never seen the river, but the Malden resident was persuaded to join the steering committee with the promise the project would be inclusive and of value to the community. Manong has been involved with civic engagement most of her life in the United States and for 20 years in South Africa.

      “It wasn’t going to be a marginalized, token-ized engagement,” says Manong. “It was clear to me that they were looking for people that would actually be sitting at the table.”

      Manong agreed to recruit additional people of color to join the team. From the beginning, she says, language was a huge barrier, given that nearly half of Malden’s residents do not speak English at home. Finding the translation efforts at their public events to be inadequate, the steering committee directed more funds to be made available for translation in several languages when public meetings began being held over Zoom this past year.

      “It’s unusual for most cities to spend this money, but our population is so diverse that we require it,” says Manong. “We have to do it. If the steering committee wasn’t raising this issue with the rest of the team, perhaps this would be overlooked.”

      Another alteration the steering committee has made is how the project engages with the community. While public attendance at meetings had been successful before the pandemic, Manong says they are “constantly working” to reach new people. One method has been to request invitations to attend the virtual meetings of other organizations to keep them apprised of the project.

      “We’ve said that people feel most comfortable when they’re in their own surroundings, so why not go where the people are instead of trying to get them to where we are,” says Manong.

      Buoyed by the $100,000 grant from MIT’s Norman B. Leventhal Center for Advanced Urbanism (LCAU) in 2019, the project team worked with Malden’s Department of Public Works, which is located along the river, to redesign its site and buildings and to study how to create a flood-resistant public open space as well as an elevated greenway path, connecting with other neighboring cities’ paths. The park’s plans also call for 75 new trees to reduce urban heat island effect, open lawn for gathering, and a dock for boating on the river.

      “The storm water infrastructure in these cities is old and isn’t going to be able to keep up with increased precipitation,” says Adams. “We’re looking for ways to store as much water as possible on the DPW site so we can hold it and release it more gradually into the river to avoid flooding.”

      The project along the 2.3-mile-long river continues to receive attention. Recently, the city of Malden was awarded a 2021 Accelerating Climate Resilience Grant of more than $50,000 from the state’s Metropolitan Area Planning Council and the Barr Foundation to support the project. Last fall, the project was awarded a $150,015 Municipal Vulnerability Preparedness Action Grant. Both awards are being directed to fund engineering work to refine the project’s design.

      “We — and in general, the planning profession — are striving to create more community empowerment in decision-making as to what happens to their community,” says Spetrini. “Putting the power in the community ensures that it’s actually responding to the needs of the community.”

      Contagious enthusiasm

      Manong says she’s happy she got involved with the project and believes the new governance structure is making a difference.

      “This project is definitely engaging with communities of color in a manner that is transformative and that is looking to build a long-lasting power dynamic built on trust,” she says. “It’s a new energized civic engagement and we’re making that happen. It’s very exciting.”

      Spetrini finds the challenge of creating an open space that’s publicly accessible and alongside an active work site professionally compelling.

      “There is a way to preserve the industrial employment base while also giving the public greater access to this natural resource,” he says. “It has real implications for other communities to follow this type of model.”

      Despite the pandemic this past year, enthusiasm for the project is palpable. For Spetrini, a Malden resident, it’s building “the first significant piece of what has been envisioned as the Malden River Greenway.” Adams sees the total project as a way to build social resilience as well as garnering community interest in climate resilience. For Vandiver, it’s the implications for improved community access.

      “From a health standpoint, everybody has learned from Covid-19 that the health aspects of walking in nature are really restorative,” says Vandiver. “Creating greater green space gives more attention to health issues. These are seemingly small side benefits, but they’re huge for mental health benefits.”

      Leventhal City Prize’s next cycle

      The Leventhal City Prize was established by the LCAU to catalyze innovative, interdisciplinary urban design, and planning approaches worldwide to improve both the environment and the quality of life for residents. Support for the LCAU was provided by the Muriel and Norman B. Leventhal Family Foundation and the Sherry and Alan Leventhal Family Foundation.

      “We’re thrilled with inaugural recipients of the award and the extensive work they’ve undertaken that is being held up as an exemplary model for others to learn from,” says Sarah Williams, LCAU director and a professor in DUSP. “Their work reflects the prize’s intent. We look forward to catalyzing these types of collaborative partnership in the next prize cycle.”

      Submissions for the next cycle of the Leventhal City Prize will open in early 2022.    More

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      in Security

      A new way to detect the SARS-CoV-2 Alpha variant in wastewater

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      Researchers from the Antimicrobial Resistance (AMR) interdisciplinary research group at the Singapore-MIT Alliance for Research and Technology (SMART), MIT’s research enterprise in Singapore, alongside collaborators from Biobot Analytics, Nanyang Technological University (NTU), and MIT, have successfully developed an innovative, open-source molecular detection method that is able to detect and quantify the B.1.1.7 (Alpha) variant of SARS-CoV-2. The breakthrough paves the way for rapid, inexpensive surveillance of other SARS-CoV-2 variants in wastewater.

      As the world continues to battle and contain Covid-19, the recent identification of SARS-CoV-2 variants with higher transmissibility and increased severity has made developing convenient variant tracking methods essential. Currently, identified variants include the B.1.17 (Alpha) variant first identified in the United Kingdom and the B.1.617.2 (Delta) variant first detected in India.

      Wastewater surveillance has emerged as a critical public health tool to safely and efficiently track the SARS-CoV-2 pandemic in a non-intrusive manner, providing complementary information that enables health authorities to acquire actionable community-level information. Most recently, viral fragments of SARS-CoV-2 were detected in housing estates in Singapore through a proactive wastewater surveillance program. This information, alongside surveillance testing, allowed Singapore’s Ministry of Health to swiftly respond, isolate, and conduct swab tests as part of precautionary measures.

      However, detecting variants through wastewater surveillance is less commonplace due to challenges in existing technology. Next-generation sequencing for wastewater surveillance is time-consuming and expensive. Tests also lack the sensitivity required to detect low variant abundances in dilute and mixed wastewater samples due to inconsistent and/or low sequencing coverage.

      The method developed by the researchers is uniquely tailored to address these challenges and expands the utility of wastewater surveillance beyond testing for SARS-CoV-2, toward tracking the spread of SARS-CoV-2 variants of concern.

      Wei Lin Lee, research scientist at SMART AMR and first author on the paper adds, “This is especially important in countries battling SARS-CoV-2 variants. Wastewater surveillance will help find out the true proportion and spread of the variants in the local communities. Our method is sensitive enough to detect variants in highly diluted SARS-CoV-2 concentrations typically seen in wastewater samples, and produces reliable results even for samples which contain multiple SARS-CoV-2 lineages.”

      Led by Janelle Thompson, NTU associate professor, and Eric Alm, MIT professor and SMART AMR principal investigator, the team’s study, “Quantitative SARS-CoV-2 Alpha variant B.1.1.7 Tracking in Wastewater by Allele-Specific RT-qPCR” has been published in Environmental Science & Technology Letters. The research explains the innovative, open-source molecular detection method based on allele-specific RT-qPCR that detects and quantifies the B.1.1.7 (Alpha) variant. The developed assay, tested and validated in wastewater samples across 19 communities in the United States, is able to reliably detect and quantify low levels of the B.1.1.7 (Alpha) variant with low cross-reactivity, and at variant proportions down to 1 percent in a background of mixed SARS-CoV-2 viruses.

      Targeting spike protein mutations that are highly predictive of the B.1.1.7 (Alpha) variant, the method can be implemented using commercially available RT-qPCR protocols. Unlike commercially available products that use proprietary primers and probes for wastewater surveillance, the paper details the open-source method and its development that can be freely used by other organizations and research institutes for their work on wastewater surveillance of SARS-CoV-2 and its variants.

      The breakthrough by the research team in Singapore is currently used by Biobot Analytics, an MIT startup and global leader in wastewater epidemiology headquartered in Cambridge, Massachusetts, serving states and localities throughout the United States. Using the method, Biobot Analytics is able to accept and analyze wastewater samples for the B.1.1.7 (Alpha) variant and plans to add additional variants to its analysis as methods are developed. For example, the SMART AMR team is currently developing specific assays that will be able to detect and quantify the B.1.617.2 (Delta) variant, which has recently been identified as a variant of concern by the World Health Organization.

      “Using the team’s innovative method, we have been able to monitor the B.1.1.7 (Alpha) variant in local populations in the U.S. — empowering leaders with information about Covid-19 trends in their communities and allowing them to make considered recommendations and changes to control measures,” says Mariana Matus PhD ’18, Biobot Analytics CEO and co-founder.

      “This method can be rapidly adapted to detect new variants of concern beyond B.1.1.7,” adds MIT’s Alm. “Our partnership with Biobot Analytics has translated our research into real-world impact beyond the shores of Singapore and aid in the detection of Covid-19 and its variants, serving as an early warning system and guidance for policymakers as they trace infection clusters and consider suitable public health measures.”

      The research is carried out by SMART and supported by the National Research Foundation (NRF) Singapore under its Campus for Research Excellence And Technological Enterprise (CREATE) program.

      SMART was established by MIT in partnership with the National Research Foundation of Singapore (NRF) in 2007. SMART is the first entity in CREATE developed by NRF. SMART serves as an intellectual and innovation hub for research interactions between MIT and Singapore, undertaking cutting-edge research projects in areas of interest to both Singapore and MIT. SMART currently comprises an Innovation Center and five IRGs: AMR, Critical Analytics for Manufacturing Personalized-Medicine, Disruptive and Sustainable Technologies for Agricultural Precision, Future Urban Mobility, and Low Energy Electronic Systems.

      The AMR interdisciplinary research group is a translational research and entrepreneurship program that tackles the growing threat of antimicrobial resistance. By leveraging talent and convergent technologies across Singapore and MIT, AMR aims to develop multiple innovative and disruptive approaches to identify, respond to, and treat drug-resistant microbial infections. Through strong scientific and clinical collaborations, its goal is to provide transformative, holistic solutions for Singapore and the world. More