DOE News
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    The DOE Science News Source is a Newswise initiative to promote research news from the Office of Science of the DOE to the public and news media.
    • 2020-02-14 12:30:31
    • Article ID: 726780

    January Science Snapshots

    • Credit: Boatman et al. and Smithsonian Institute

      In order to take these mesmerizing microscopy images, the team carefully demineralized small bits of T. rex bone to liberate the preserved vessel tissue inside. The sample used in this study came from the femur of the famous, nearly complete fossil specimen known as “the Nation’s T. rex,” which is currently on display at the Smithsonian National Museum of Natural History.

    • Credit: Zosia Rostomian/Berkeley Lab

    • Credit: ClaudioVentrella/iStock

    Berkeley Lab Helps Reveal How Dinosaur Blood Vessels Can Preserve Through the Ages

    --By Aliyah Kovner 

    A team of scientists led by Elizabeth Boatman at the University of Wisconsin Stout used X-ray imaging and spectromicroscopy performed at Berkeley Lab’s Advanced Light Source (ALS) to demonstrate how soft tissue structures may be preserved in dinosaur bones – countering the long-standing scientific dogma that protein-based body parts cannot survive more than 1 million years.

    In their paper, now published in Scientific Reports, the team analyzed a sample from a 66-million-year-old Tyrannosaurus rex tibia to provide evidence that vertebrate blood vessels – collagen and elastin structures that don’t fossilize like mineral-based bone – may persist across geologic time through two natural, protein-fusing “cross-linking” processes called Fenton chemistry and glycation.

    First, the scientists used imaging, diffraction, spectroscopy, and immunohistochemistry to establish that structures present in the sample are indeed the animal’s original collagen-based tissue. Then, Berkeley Lab co-authors Hoi-Ying Holman and Sirine Fakra respectively performed synchrotron radiation-based Fourier-transform infrared spectromicroscopy (SR-FTIR) to examine how the cross-linked collagen molecules were arranged, and X-ray fluorescence (XRF) mapping to analyze the distribution and types of metal present in T. rex vessels.

    “SR-FTIR takes images and spectra of the same sample, and so you can reveal the distribution of protein-folding patterns, which helps to identify the possible cross-linking mechanisms,” said Holman, a senior scientist in the Molecular Biophysics & Integrated Bioimaging Division.

    Fenton chemistry and glycation are both non-enzymatic reactions – meaning they can occur in deceased organisms – that are driven by the iron present in the body. “The XRF microprobe revealed the presence of finely crystalline goethite, a very stable iron oxyhydroxide mineral, on the vessels that likely contributed to the preservation of organic molecules,” said Fakra, an ALS research scientist.

    The authors believe that the cross-linking reactions they found evidence of, combined with the protection offered from being surrounded by dense mineralized bone, can explain how original soft tissues persist.

    Read more about this research

    Joint Genome Institute Study Reveals Diversity of Giant Viruses Worldwide

    --By Aliyah Kovner 

    A team led by the U.S. Department of Energy Joint Genome Institute (JGI) at Berkeley Lab has reconstructed the genomes of 2,074 large and giant viruses found across the globe, drastically increasing the number of known viruses and providing a resource for future studies on this poorly understood group of viruses, called nucleocytoplasmic large DNA viruses (NCLDVs).

    The work, recently published in Nature, drew from more than 8,500 publicly available metagenome datasets generated from samples of microbial communities, many of which were from freshwater ecosystems. (A metagenome is the entire collection of genetic information captured in a sample.)

    The genomes of the large and giant viruses – which carry between 10 and 100 times more genes than most well-studied viruses – were digitally extracted from the other genetic information by filtering for a NCLDV-specific protein and then organized into distinct genomes known as metagenome-assembled genomes (MAGs). This process was performed, in part, using capabilities of the National Energy Research Scientific Computing Center (NERSC), also located at Berkeley Lab.

    “This is the first study to take a more global look at giant viruses by capturing genomes of uncultivated giant viruses from environmental sequences across the globe, then using these sequences to make inferences about the biogeographic distribution of these viruses in the various ecosystems, their diversity, their predicted metabolic features and putative hosts,” said Tanja Woyke, senior author of the study and head of JGI’s Microbial Genomics Program.

    After analyzing the genes identified in the viral MAGs, Woyke and her colleagues found that NCLDVs have evolved strategies to alter the metabolism of their host organisms (primarily single-celled eukaryotes, but also multicellular eukaryotic organisms) in order to optimize conditions for viral replication. Because eukaryotic microbes are known to play a big part in biogeochemical processes such as carbon and nitrogen cycling, the findings suggest that NCLDVs are a key part of understanding how ecosystems function.

    Read the full release by JGI

    X-Ray Technology Sheds New Light on Antibiotic Synthesis

    -- By Aliyah Kovner 

    Atomic-scale structural analyses performed at Berkeley Lab’s Advanced Light Source (ALS) are helping scientists understand the inner workings of the enzyme “assembly lines” that microbes use to produce an important class of compounds, many of which have uses as antibiotics, antifungals, and immunosuppressants.

    These cellular machines, known as nonribosomal peptide synthetases (NRPSs), are large, multi-enzyme clusters that synthesize compounds by passing a precursor molecule from one module to the next, with each “station” catalyzing a change in the molecule. In the past decade, researchers have learned a great deal about how individual NRPS modules work, but an understanding of how the assembly lines function as a whole has been lacking. In the hopes of eventually engineering custom NRPSs to make new and improved medicines, a team led by McGill University began investigating the bacterial NRPS that synthesizes the antibiotic gramicidin.

    The scientists used the SIBYLS X-ray scattering beamline at the ALS to validate X-ray crystallography and small-angle X-ray scattering performed at the Canadian Light Source in Saskatchewan and the Advanced Photon Source at Argonne National Laboratory. The results, published in Science, show that the modules are surprisingly physically flexible, and that the assembly line can function in many different arrangements.

    Gregory Hura, a Berkeley Lab biophysicist on the SIBYLS team and head of the Structural Biology Department in the Molecular Biophysics & Integrated Bioimaging Division, notes that the analytic capabilities of the beamline are helping decode the functionality of many important large molecules. “There is no surprise that macromolecules, responsible for the complex activities of life, are dynamic, modular, and multifaceted – but our appreciation for those dynamics has been hindered by a lack of modalities for sensing them. The newly upgraded SIBYLS beamline provides unique insights that complement crystallography and electron microscopy, and together, these technologies are helping us develop new medicines.”

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    Scientists See Energy Gap Modulations in a Cuprate Superconductor

    Scientists See Energy Gap Modulations in a Cuprate Superconductor

    Scientists studying high-Tc superconductors at the U.S. Department of Energy's Brookhaven National Laboratory have definitive evidence for the existence of a state of matter known as a pair density wave--first predicted by theorists some 50 years ago. Their results show that this phase coexists with superconductivity in a well-known bismuth-based copper-oxide superconductor.

    Uncertain Climate Future Could Disrupt Energy Systems

    Uncertain Climate Future Could Disrupt Energy Systems

    An international team of scientists has published a new study proposing an optimization methodology for designing climate-resilient energy systems and to help ensure that communities will be able to meet future energy needs given weather and climate variability. Their findings were recently published in Nature Energy.

    Argonne and CERN weigh in on the origin of heavy elements

    Argonne and CERN weigh in on the origin of heavy elements

    Nuclear physicists from Argonne National Laboratory led an international physics experiment conducted at CERN that utilizes novel techniques developed at Argonne to study the nature and origin of heavy elements in the universe.

    A new explanation for sudden collapses of heat in plasmas can help create fusion energy on Earth

    A new explanation for sudden collapses of heat in plasmas can help create fusion energy on Earth

    PPPL researchers find that jumbled magnetic fields in the core of fusion plasmas can cause the entire plasma discharge to suddenly collapse.

    Nanocages Trap and Separate Elusive Noble Gases

    Nanocages Trap and Separate Elusive Noble Gases

    Researchers have discovered how two-dimensional nanoscale cages trap some noble gases. These cages can trap atoms of argon, krypton, and xenon at above freezing temperatures. Noble gases are hard to trap using other methods because they condense at temperatures far below freezing.

    Parker Spiral Created in the Laboratory for the First Time Ever

    Parker Spiral Created in the Laboratory for the First Time Ever

    The Sun is a spinning ball of plasma that generates its own magnetic field. As the Sun spews out plasma, it generates solar wind that pulls the Sun's magnetic field along with it, twisting the magnetic field into what is called a Parker spiral. A recent experiment recreated this interaction at a small scale in the laboratory.

    A Chemical Extreme in the Periodic Table Is Revealed

    A Chemical Extreme in the Periodic Table Is Revealed

    Understanding how a small, gas-phase molecule containing an actinide atom reacts with other molecules helps us understand the chemistry of heavy elements. This study identified an extreme in the chemical behavior of curium, which lies at the center of the actinide series on the periodic table.

    New Technique Looks for Dark Matter Traces in Dark Places

    New Technique Looks for Dark Matter Traces in Dark Places

    A new study by scientists at Berkeley Lab, UC Berkeley, and the University of Michigan - published online this week in the journal Science - concludes that a possible dark matter-related explanation for a mysterious light signature in space is largely ruled out.

    Quantum Effect Triggers Unusual Material Expansion

    Quantum Effect Triggers Unusual Material Expansion

    New research conducted in part at Brookhaven Laboratory may bring a whole new class of chemical elements into a materials science balancing act for designing alloys for aviation and other applications.

    Upgrading Biomass with Selective Surface-Modified Catalysts

    Upgrading Biomass with Selective Surface-Modified Catalysts

    Loading single platinum atoms on titanium dioxide promotes the conversion of a plant derivative into a potential biofuel.


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    Argonne's Paul Dickman honored with nuclear waste management achievement award

    Argonne's Paul Dickman honored with nuclear waste management achievement award

    Paul Dickman has been named a Waste Management Symposium Fellow for 2020.

    Using Fiber Optics to Advance Safe and Renewable Energy

    Using Fiber Optics to Advance Safe and Renewable Energy

    Fiber optic cables, it turns out, can be incredibly useful scientific sensors. Researchers at Lawrence Berkeley National Laboratory have studied them for use in carbon sequestration, groundwater mapping, earthquake detection, and monitoring of Arctic permafrost thaw. Now they have been awarded new grants to develop fiber optics for two novel uses: monitoring offshore wind operations and underground natural gas storage.

    Brookhaven Lab's Lijun Wu Receives 2020 Chuck Fiori Award

    Brookhaven Lab's Lijun Wu Receives 2020 Chuck Fiori Award

    For the past 20 years, Wu has been advancing quantitative electron diffraction to study batteries, catalysts, and other energy materials.

    Jefferson Lab Temporarily Suspends Operations

    Jefferson Lab Temporarily Suspends Operations

    In an effort to minimize the risk to the Jefferson Lab workforce and in keeping with recommendations from national, state, and local authorities, the Department of Energy's Thomas Jefferson National Accelerator Facility is temporarily suspending operations.

    Department of Energy to Provide $60 Million for Science Computing Teams

    The U.S. Department of Energy (DOE) announced a plan to provide $60 million to establish multidisciplinary teams to develop new tools and techniques to harness supercomputers for scientific discovery.

    Fermilab, UNICAMP and Sao Paulo Research Foundation collaborate on major international projects for neutrino research

    Fermilab, UNICAMP and Sao Paulo Research Foundation collaborate on major international projects for neutrino research

    Under a new agreement, the University of Campinas and the Sao Paulo Research Foundation will play important roles in the Long-Baseline Neutrino Facility and the international Deep Underground Neutrino Experiment, hosted by Fermilab.

    New $21.4 million U.S.-Israel center aims to develop water-energy technologies

    New $21.4 million U.S.-Israel center aims to develop water-energy technologies

    A U.S.-Israel team that includes researchers from the U.S. Department of Energy's Argonne National Laboratory has received $21.4 million to develop new technologies to help solve global water challenges.

    Argonne's Valerii Vinokur awarded Fritz London Prize

    Argonne's Valerii Vinokur awarded Fritz London Prize

    Valerii Vinokur, a senior scientist and distinguished fellow at the U.S. Department of Energy's (DOE) Argonne National Laboratory, has been awarded the Fritz London Memorial Prize for his work in condensed matter and theoretical physics.

    Register to Join a Special April 16 Media Tour of a Telescope Instrument that Will Create a 3D Map of Millions of Galaxies

    Register to Join a Special April 16 Media Tour of a Telescope Instrument that Will Create a 3D Map of Millions of Galaxies

    Members of the media are invited to attend a mid-April dedication of the Dark Energy Spectroscopic Instrument (DESI), which is scheduled to begin its five-year mission to construct a 3D map of the universe in the coming months.

    Department of Energy to Provide $100 Million for Solar Fuels Research

    The U.S. Department of Energy (DOE) announced a plan to provide up to $100 million over five years for research on artificial photosynthesis for the production of fuels from sunlight.


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    Harvesting Energy from Light using Bio-inspired Artificial Cells

    Harvesting Energy from Light using Bio-inspired Artificial Cells

    Scientists designed and connected two different artificial cells to each other to produce molecules called ATP (adenosine triphosphate).

    Engineering Living Scaffolds for Building Materials

    Engineering Living Scaffolds for Building Materials

    Bone and mollusk shells are composite systems that combine living cells and inorganic components. This allows them to regenerate and change structure while also being very strong and durable. Borrowing from this amazing complexity, researchers have been exploring a new class of materials called engineered living materials (ELMs).

    Excavating Quantum Information Buried in Noise

    Excavating Quantum Information Buried in Noise

    Researchers developed two new methods to assess and remove error in how scientists measure quantum systems. By reducing quantum "noise" - uncertainty inherent to quantum processes - these new methods improve accuracy and precision.

    How Electrons Move in a Catastrophe

    How Electrons Move in a Catastrophe

    Lanthanum strontium manganite (LSMO) is a widely applicable material, from magnetic tunnel junctions to solid oxide fuel cells. However, when it gets thin, its behavior changes for the worse. The reason why was not known. Now, using two theoretical methods, a team determined what happens.

    When Ions and Molecules Cluster

    When Ions and Molecules Cluster

    How an ion behaves when isolated within an analytical instrument can differ from how it behaves in the environment. Now, Xue-Bin Wang at Pacific Northwest National Laboratory devised a way to bring ions and molecules together in clusters to better discover their properties and predict their behavior.

    Tune in to Tetrahedral Superstructures

    Tune in to Tetrahedral Superstructures

    Shape affects how the particles fit together and, in turn, the resulting material. For the first time, a team observed the self-assembly of nanoparticles with tetrahedral shapes.

    Tracing Interstellar Dust Back to the Solar System's Formation

    Tracing Interstellar Dust Back to the Solar System's Formation

    This study is the first to confirm dust particles pre-dating the formation of our solar system. Further study of these materials will enable a deeper understanding of the processes that formed and have since altered them.

    Investigating Materials that Can Go the Distance in Fusion Reactors

    Investigating Materials that Can Go the Distance in Fusion Reactors

    Future fusion reactors will require materials that can withstand extreme operating conditions, including being bombarded by high-energy neutrons at high temperatures. Scientists recently irradiated titanium diboride (TiB2) in the High Flux Isotope Reactor (HFIR) to better understand the effects of fusion neutrons on performance.

    Better 3-D Imaging of Tumors in the Breast with Less Radiation

    Better 3-D Imaging of Tumors in the Breast with Less Radiation

    In breast cancer screening, an imaging technique based on nuclear medicine is currently being used as a successful secondary screening tool alongside mammography to improve the accuracy of the diagnosis. Now, a team is hoping to improve this imaging technique.

    Microbes are Metabolic Specialists

    Microbes are Metabolic Specialists

    Scientists can use genetic information to measure if microbes in the environment can perform specific ecological roles. Researchers recently analyzed the genomes of over 6,000 microbial species.


    Spotlight

    Barbara Garcia: A first-generation college student spends summer doing research at PPPL
    Tuesday September 24, 2019, 04:05 PM

    Barbara Garcia: A first-generation college student spends summer doing research at PPPL

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    Argonne organization's scholarship fund blazes STEM pathway
    Tuesday September 17, 2019, 05:05 PM

    Argonne organization's scholarship fund blazes STEM pathway

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    Brookhaven Lab, Suffolk Girl Scouts Launch Patch Program
    Friday September 13, 2019, 11:30 AM

    Brookhaven Lab, Suffolk Girl Scouts Launch Patch Program

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    From an acoustic levitator to a
    Thursday September 12, 2019, 03:05 PM

    From an acoustic levitator to a "Neutron Bloodhound" robot, hands-on research inspires PPPL's summer interns

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    Brookhaven Lab Celebrates the Bright Future of its 2019 Interns
    Friday August 30, 2019, 10:00 AM

    Brookhaven Lab Celebrates the Bright Future of its 2019 Interns

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    PPPL apprenticeship program offers young people chance to earn while they learn high-tech careers
    Thursday August 01, 2019, 12:05 PM

    PPPL apprenticeship program offers young people chance to earn while they learn high-tech careers

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    Creating a diverse pipeline
    Friday July 19, 2019, 01:05 PM

    Creating a diverse pipeline

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    JSA Awards Graduate Fellowships for Research at Jefferson Lab
    Monday July 08, 2019, 03:00 PM

    JSA Awards Graduate Fellowships for Research at Jefferson Lab

    Thomas Jefferson National Accelerator Facility

    ILSAMP Symposium showcases benefits for diverse students, STEM pipeline
    Monday May 20, 2019, 12:05 PM

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    Argonne National Laboratory

    Integrating Scientific Computing into Science Curricula
    Monday May 13, 2019, 11:05 AM

    Integrating Scientific Computing into Science Curricula

    Brookhaven National Laboratory

    Students from Minnesota and Massachusetts Win DOE's 29th National Science Bowl(r)
    Monday April 29, 2019, 02:05 PM

    Students from Minnesota and Massachusetts Win DOE's 29th National Science Bowl(r)

    Department of Energy, Office of Science

    DOE's Science Graduate Student Research Program Selects 70 Students to Pursue Research at DOE Laboratories
    Friday April 12, 2019, 03:05 PM

    DOE's Science Graduate Student Research Program Selects 70 Students to Pursue Research at DOE Laboratories

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    Young Women's Conference in STEM seeks to change the statistics one girl at a time
    Thursday March 28, 2019, 03:05 PM

    Young Women's Conference in STEM seeks to change the statistics one girl at a time

    Princeton Plasma Physics Laboratory

    Students team with Argonne scientists and engineers to learn about STEM careers
    Tuesday March 12, 2019, 05:05 PM

    Students team with Argonne scientists and engineers to learn about STEM careers

    Argonne National Laboratory

    Lynbrook High wins 2019 SLAC Regional Science Bowl competition
    Wednesday February 13, 2019, 02:05 PM

    Lynbrook High wins 2019 SLAC Regional Science Bowl competition

    SLAC National Accelerator Laboratory

    Equipping the next generation for a technological revolution
    Thursday January 24, 2019, 01:05 PM

    Equipping the next generation for a technological revolution

    Argonne National Laboratory

    Chemistry intern inspired by Argonne's real-world science
    Friday January 18, 2019, 05:05 PM

    Chemistry intern inspired by Argonne's real-world science

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    Chasing a supernova
    Friday January 18, 2019, 04:05 PM

    Chasing a supernova

    Argonne National Laboratory

    Argonne intern streamlines the beamline
    Tuesday January 08, 2019, 02:05 PM

    Argonne intern streamlines the beamline

    Argonne National Laboratory

    Research on Light-Matter Interaction Could Lead to Improved Electronic and Optoelectronic Devices
    Thursday October 11, 2018, 04:00 PM

    Research on Light-Matter Interaction Could Lead to Improved Electronic and Optoelectronic Devices

    Rensselaer Polytechnic Institute (RPI)

    Innovating Our Energy Future
    Wednesday October 03, 2018, 07:05 PM

    Innovating Our Energy Future

    Oregon State University, College of Engineering

    Physics graduate student takes her thesis research to a Department of Energy national lab
    Tuesday October 02, 2018, 03:05 PM

    Physics graduate student takes her thesis research to a Department of Energy national lab

    University of Alabama at Birmingham

    Friday September 21, 2018, 01:05 PM

    "Model" students enjoy Argonne campus life

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    Writing Code for a More Skilled and Diverse STEM Workforce
    Thursday September 06, 2018, 01:05 PM

    Writing Code for a More Skilled and Diverse STEM Workforce

    Brookhaven National Laboratory

    New graduate student summer school launches at Princeton Plasma Physics Laboratory
    Tuesday September 04, 2018, 11:30 AM

    New graduate student summer school launches at Princeton Plasma Physics Laboratory

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    The Gridlock State
    Friday August 31, 2018, 06:05 PM

    The Gridlock State

    California State University (CSU) Chancellor's Office

    Meet Jasmine Hatcher and Trishelle Copeland-Johnson
    Friday August 31, 2018, 02:05 PM

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    Brookhaven National Laboratory

    Argonne hosts Modeling, Experimentation and Validation Summer School
    Friday August 24, 2018, 11:05 AM

    Argonne hosts Modeling, Experimentation and Validation Summer School

    Argonne National Laboratory

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    Wednesday August 22, 2018, 01:05 PM

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    SLAC National Accelerator Laboratory

    Brookhaven Lab Pays Tribute to 2018 Summer Interns
    Wednesday August 22, 2018, 10:05 AM

    Brookhaven Lab Pays Tribute to 2018 Summer Interns

    Brookhaven National Laboratory

    Changing How Buildings Are Made
    Monday August 20, 2018, 12:05 PM

    Changing How Buildings Are Made

    Washington University in St. Louis

    CSUMB Selected to Host Architecture at Zero Competition in 2019
    Thursday August 16, 2018, 12:05 PM

    CSUMB Selected to Host Architecture at Zero Competition in 2019

    California State University, Monterey Bay

    Department of Energy Invests $64 Million in Advanced Nuclear Technology
    Friday July 20, 2018, 03:00 PM

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    Professor Miao Yu Named the Priti and Mukesh Chatter '82 Career Development Professor
    Thursday July 19, 2018, 05:00 PM

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    2018 RHIC & AGS Annual Users' Meeting: 'Illuminating the QCD Landscape'
    Tuesday July 03, 2018, 11:05 AM

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    Argonne welcomes <em>The Martian</em> author Andy Weir
    Friday June 29, 2018, 06:05 PM

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    Monday June 18, 2018, 09:55 AM

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    Friday June 15, 2018, 10:00 AM

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    Monday May 07, 2018, 10:30 AM

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    Students from Massachusetts and Washington Win DOE's 28th National Science Bowl(r)
    Wednesday May 02, 2018, 04:05 PM

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