Doe Science news source
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.
  • 2017-09-26 12:00:47
  • Article ID: 681802

2018 DOE JGI Community Science Program Allocations Announced

Proposals encompass multiple capabilities of the national user facility

  • Credit: S. Torres-Martínez. University of Murcia, Spain

    Image of Mucor circinelloides sporangiophore. Fungal responses to DNA methylation in the context of developmental signals is just one aspect of Victoriano Garre‘s 2018 JGI Community Science Program proposal.

Though organisms can be studied in isolation, a more comprehensive picture emerges when their environmental interactions are taken into account. Along the same lines, many of the 30 proposals selected for the 2018 Community Science Program (CSP) of the U.S. Department of Energy Joint Genome Institute (DOE JGI), a DOE Office of Science User Facility, aim to utilize multiple genomic and analytical capabilities, along with scientific expertise, to users focused on the underlying mechanisms involved in bioenergy generation and biogeochemical processes.

“These new CSP projects demonstrate further growth into multi-omics, with nearly all requesting functional genomics technologies including transcriptomics, epigenomics and metabolomics, and roughly half spanning more than one of our Science Programs,” said Susannah Tringe, DOE JGI User Programs Deputy. “They bring exciting new investigators, ideas and approaches to the application of genomics to DOE mission science.”

The CSP 2018 proposals were selected from 76 full submissions based on 94 letters of intent. Click here to see the full list of approved CSP 2018 proposals. Additionally, 60 percent of the accepted proposals come from new DOE JGI primary investigators.

Among this year’s accepted proposals:

  • Dan Buckley of Cornell University aims to dissect soil microbial food webs using stable isotope probing, a method that traces nutrient fluxes by providing labeled substrates that are consumed and incorporated into DNA. This will allow his group to identify and characterize uncultivated microbes that have crucial roles in the soil carbon cycle.
  • Boulos Chalhoub of the French National Institute for Agricultural Research (INRA) will explore how DNA methylation and repeated hybridization have shaped the polyploid Brachypodium hybridum, a relative of candidate bioenergy grasses such as switchgrass. Polyploid plants contain multiple sets of chromosomes, which makes sequencing and assembling these genomes more challenging, but can also make the plants more stress tolerant.
  • Maureen Coleman of the University of Chicago will apply integrated ecosystem genomics across the Great Lakes, which hold 20 percent of the Earth’s surface freshwater. She will characterize the metabolic diversity and activity of microbes participating in nutrient cycling in these important aquatic systems.
  • Byron Crump of Oregon State University aims to apply metagenomics and metatranscriptomics to microbes that metabolize dissolved organic matter in river ecosystems, critical conduits for land-to-ocean transfer of materials including terrestrial organic matter.
  • Alisa Huffaker of the University of California (UC), San Diego will harness the DOE JGI’s diverse capabilities in the plant, metagenome, and synthesis programs, and use metabolomics to produce systems analysis of the metabolic diversity of sorghum and maize to better understand microbiome interactions and how these grasses tolerate various stresses.
  • James Leebens-Mack of the University of Georgia will develop a comparative plant genomics framework involving high-quality genome assemblies and annotations for 35 species. The Open Green Genomes Initiative, which lists 98 co-primary investigators along with Leebens-Mack, will improve comparative analyses of the genes, regulatory networks and metabolic pathways influencing plant growth and responses to environmental stress, and inform engineering of plants for efficient production of biofuels and bioproducts. In the proposal, the team noted that the large number of investigators “is a testament to the importance and broad interest in developing infrastructure – including strategically sampled reference-quality genome sequences – to aid comprehensive comparative analyses across the green tree of life.”
  • Udaya Kalluri of Oak Ridge National Laboratory wants to know how modifying plant cell walls in the candidate bioenergy feedstock crop poplar, one of the DOE JGI’s Plant Flagship Genomes, impacts plant-microbe interactions and the utility of poplar for biofuel production.
  • Corby Kistler of the USDA-ARS Cereal Disease Lab and the University of Minnesota targets the mutually antagonistic relationships between bacteria and fungi in native prairie soil, and how their system of checks and balances allow perennials to thrive. His proposal will harness the DOE JGI’s fungal, microbial, metagenome and metabolomics capabilities.
  • Yu Liu of the University of Texas Southwestern Medical Center plans to define the global regulatory network of DNA chromatin structures in the filamentous fungus Neurospora crassa, an important model organism for the fungal conversion of biomass.
  • Norma Martinez-Gomez of Michigan State University aims to identify the rare earth element-dependent enzymes involved in plant-microbe interactions that can boost crop yields such as candidate bioenergy feedstocks while reducing the need for fertilizers.
  • Jennifer Martiny of UC Irvine will explore the activity of surface soil microbes on leaf litter in an arid ecosystem to understand how daily cycles in moisture and temperature impact nutrient cycling.
  • Neslihan Tas of Lawrence Berkeley National Laboratory, recently named a DOE Early Career Research Program awardee, plans to use sequencing and metabolomics to explore microbial functions over time in watershed ecosystems. Her team is already collecting samples from soil-aquatic interfaces at two Colorado high-elevation streams.
  • Ru Zhang of the Donald Danforth Plant Science Center is investigating how the model green alga Chlamydomonas reinhardtiigenome sequenced and assembled by the DOE JGI – regulates its responses to heat stress and day length with the aid of metabolomics. The information could lead to algal strains that produce more biomass for conversion to biofuel. 

These projects, as well as the other 17 selected in this round of the CSP, represent new ways of incorporating DNA sequencing with other analytic approaches to explore biological relationships that underpin bioenergy and biogeochemical processes. Understanding how microbes live in association with other microbes and plants, how plant genome diversity results from DNA modifications, how microbes exploit available local nutrient resources, and how metabolic plasticity can be understood and potentially exploited, among other questions, will help scientists leverage high throughput analytic methods for DOE mission purposes.

 

The U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility at Lawrence Berkeley National Laboratory, is committed to advancing genomics in support of DOE missions related to clean energy generation and environmental characterization and cleanup. DOE JGI, headquartered in Walnut Creek, Calif., provides integrated high-throughput sequencing and computational analysis that enable systems-based scientific approaches to these challenges. Follow @doe_jgi on Twitter.

DOE’s Office of Science is the largest supporter of basic research in the physical sciences in the United States, and is working to address some of the most pressing challenges of our time. For more information, please visit science.energy.gov.

X
X
X
  • Filters

  • × Clear Filters

Opening Windows for New Spintronic Studies

A surprising discovery could potentially offer major advantages in speed, heat dissipation and power consumption in electronic devices.

Sunlight Stimulates Microbial Respiration of Carbon in Surface Waters

This research offers new information to understand the role of microorganisms in elemental cycling in the Arctic.

Pulling Needles Out of Haystacks: With Computation, Researchers Identify Promising Solid Oxide Fuel Cell Materials

Using advanced computational methods, University of Wisconsin-Madison materials scientists have discovered new materials that could bring widespread commercial use of solid oxide fuel cells closer to reality.

Imaging Individual Flexible DNA 'Building Blocks' in 3-D

A team of researchers from Lawrence Berkeley National Lab (Berkeley Lab) and Ohio State University have generated 3-D images from 129 individual molecules of flexible DNA origami particles. Their work provides the first experimental verification of the theoretical model of DNA origami. https://newscenter.lbl.gov/2018/02/22/imaging-individual-flexible-dna-building-blocks-3-d

Remembering Really Fast

Colossal magnetoresistance at terahertz frequencies in thin composites boosts novel memory devices operated at extremely high speed.

In a First, Tiny Diamond Anvils Trigger Chemical Reactions by Squeezing

Menlo Park, Calif. --Scientists have turned the smallest possible bits of diamond and other super-hard specks into "molecular anvils" that squeeze and twist molecules until chemical bonds break and atoms exchange electrons. These are the first such chemical reactions triggered by mechanical pressure alone, and researchers say the method offers a new way to do chemistry at the molecular level that is greener, more efficient and much more precise.

Berkeley Lab "Minimalist Machine Learning" Algorithms Analyze Images From Very Little Data

Berkeley Lab mathematicians have developed a new approach to machine learning aimed at experimental imaging data. Rather than relying on the tens or hundreds of thousands of images used by typical machine learning methods, this new approach "learns" much more quickly and requires far fewer images.

Tuning Quantum Light Sources

First known material capable of emitting single photons at room temperature and telecom wavelengths.

Working Night and Day

Day-night changes in light and temperature power a low-cost material assembly that mimics biological self-copying.

Squeezing Into the Best Shape

Gel uses nanoparticles for on-demand control of droplet shapes, of interest for energy storage and catalysis.


  • Filters

  • × Clear Filters

ORNL Wins Four FLC Technology Transfer Awards

Four technologies developed at the Department of Energy's Oak Ridge National Laboratory have earned 2018 Excellence in Technology Transfer Awards from the Federal Laboratory Consortium for Technology Transfer (FLC).

Pacific Northwest National Laboratory, OHSU Create Joint Research Co-Laboratory to Advance Precision Medicine

News Release PORTLAND, Ore. -- Pacific Northwest National Laboratory and OHSU today announced a joint collaboration to improve patient care by focusing research on highly complex sets of biomedical data, and the tools to interpret them.The OHSU-PNNL Precision Medicine Innovation Co-Laboratory, called PMedIC, will provide a comprehensive ecosystem for scientists to utilize integrated 'omics, data science and imaging technologies in their research in order to advance precision medicine -- an approach to disease treatment that takes into account individual variability in genes, environment and lifestyle for each person.

The Mysteries of Plasma and Solar Eruptions Earn PPPL Graduate an Astrophysics Prize

Article describes dissertation award for graduate of Princeton University Department of Astrophysical Sciences.

45-Year-Old Telescope Gets a Makeover to Demystify Dark Energy

Forty-five years ago this month, a telescope tucked inside a 14-story, 500-ton dome atop a mile-high peak in Arizona took in the night sky for the first time and recorded its observations on glass photographic plates. Today, the dome closes on the previous science chapters of the 4-meter Nicholas U. Mayall Telescope and starts preparing for its new role in creating the largest 3-D map of the universe. This map could help determine why the universe is expanding at faster and faster rates, driven by an unknown force called dark energy.

MSU Uses $3 Million NASA Grant to Find Better Ways to Regulate Dams

Michigan State University researchers, equipped with $3 million from NASA, will investigate innovative methods to improve dams so that they are less harmful to people and the environment.

Harker School Wins Second Consecutive SLAC Regional DOE Science Bowl

Twenty-four teams from 16 Bay Area high schools faced off Feb. 3 in the SLAC Regional DOE Science Bowl, a series of fast-paced question-and-answer matches that test knowledge in biology, chemistry, physics, earth and space sciences, energy and math. The competition is hosted annually by the Department of Energy's SLAC National Accelerator Laboratory.

David Asner Named Deputy Associate Laboratory Director and Head of the Instrumentation Division in Brookhaven Lab's Nuclear and Particle Physics Directorate

A particle physicist with extensive leadership and management experience, Asner will help expand a portfolio of physics programs and oversee instrumentation research and development.

UIC to Provide Energy-Saving 'Kits' with $3.1m in Funding From ComEd

The University of Illinois at Chicago's Energy Resources Center has received funding from ComEd to provide energy-efficient LED light bulbs, advanced power strips, and educational material to income-qualified participants in northern Illinois.As part of a $3.1 million year-long investment, the utility company will fund the Low Income Kit Energy (LIKE) program, allowing engineers at UIC's Energy Resources Center to provide energy-saving kits to 35,000 eligible individuals and/or families.

DOE's HPC4Manufacturing Program Seeks Industry Proposals

The Department of Energy (DOE) on Feb. 1 announced up to $3 million will be made available to U.S. manufacturers for public/private projects aimed at applying high performance computing to industry challenges for the advancement of energy innovation.

Elke-Caroline Aschenauer Awarded Prestigious Humboldt Research Award

UPTON, NY -- Elke-Caroline Aschenauer, a senior physicist at the U.S. Department of Energy's Brookhaven National Laboratory, has been awarded a Humboldt Research Award for her contributions to the field of experimental nuclear physics. This prestigious international award--issued by the Alexander von Humboldt Foundation in Bonn, Germany--comes with a prize of EUR60,000 (more than $70,000 U.


  • Filters

  • × Clear Filters

Sunlight Stimulates Microbial Respiration of Carbon in Surface Waters

This research offers new information to understand the role of microorganisms in elemental cycling in the Arctic.

Defects and Surface Reactions Boost Batteries

Defect-enhanced transport and complex phase growth are changing design rules for lithium-ion batteries.

Remembering Really Fast

Colossal magnetoresistance at terahertz frequencies in thin composites boosts novel memory devices operated at extremely high speed.

Tuning Quantum Light Sources

First known material capable of emitting single photons at room temperature and telecom wavelengths.

Working Night and Day

Day-night changes in light and temperature power a low-cost material assembly that mimics biological self-copying.

A Nanowire Array to Screen Drugs for Neurodegenerative Diseases

Engineers develop wires that penetrate neurons and measure their activity

Squeezing Into the Best Shape

Gel uses nanoparticles for on-demand control of droplet shapes, of interest for energy storage and catalysis.

Forcing the Hand of Elusive Electrons

Current generated when light hits a material reveals electrons behaving like an elusive particle.

Single Atoms in Nano-Cages

Tiny cages can trap and release inert argon gas atoms, allowing their further study and providing a new way to capture rare gases.

Unwavering Juggler with Three Extra Electrons

Simulations discovered the first molecule with three extra electrons and extraordinary stability.


Spotlight

Thursday February 15, 2018, 12:05 PM

Insights on Innovation in Energy, Humanitarian Aid Highlight UVA Darden's Net Impact Week

University of Virginia Darden School of Business

Friday February 09, 2018, 11:05 AM

Ivy League Graduate, Writer and Activist with Dyslexia Visits CSUCI to Reframe the Concept of Learning Disabilities

California State University, Channel Islands

Wednesday January 17, 2018, 12:05 PM

Photographer Adam Nadel Selected as Fermilab's New Artist-in-Residence for 2018

Fermi National Accelerator Laboratory (Fermilab)

Wednesday January 17, 2018, 12:05 PM

Fermilab Computing Partners with Argonne, Local Schools for Hour of Code

Fermi National Accelerator Laboratory (Fermilab)

Wednesday December 20, 2017, 01:05 PM

Q&A: Sam Webb Teaches X-Ray Science from a Remote Classroom

SLAC National Accelerator Laboratory

Monday December 18, 2017, 01:05 PM

The Future of Today's Electric Power Systems

Rensselaer Polytechnic Institute (RPI)

Monday December 18, 2017, 12:05 PM

Supporting the Development of Offshore Wind Power Plants

Rensselaer Polytechnic Institute (RPI)

Tuesday October 03, 2017, 01:05 PM

Stairway to Science

Argonne National Laboratory

Thursday September 28, 2017, 12:05 PM

After-School Energy Rush

Argonne National Laboratory

Thursday September 28, 2017, 10:05 AM

Bringing Diversity Into Computational Science Through Student Outreach

Brookhaven National Laboratory

Thursday September 21, 2017, 03:05 PM

From Science to Finance: SLAC Summer Interns Forge New Paths in STEM

SLAC National Accelerator Laboratory

Thursday September 07, 2017, 02:05 PM

Students Discuss 'Cosmic Opportunities' at 45th Annual SLAC Summer Institute

SLAC National Accelerator Laboratory

Thursday August 31, 2017, 05:05 PM

Binghamton University Opens $70 Million Smart Energy Building

Binghamton University, State University of New York

Wednesday August 23, 2017, 05:05 PM

Widening Horizons for High Schoolers with Code

Argonne National Laboratory

Saturday May 20, 2017, 12:05 PM

Rensselaer Polytechnic Institute Graduates Urged to Embrace Change at 211th Commencement

Rensselaer Polytechnic Institute (RPI)

Monday May 15, 2017, 01:05 PM

ORNL, University of Tennessee Launch New Doctoral Program in Data Science

Oak Ridge National Laboratory

Friday April 07, 2017, 11:05 AM

Champions in Science: Profile of Jonathan Kirzner

Department of Energy, Office of Science

Wednesday April 05, 2017, 12:05 PM

High-Schooler Solves College-Level Security Puzzle From Argonne, Sparks Interest in Career

Argonne National Laboratory

Tuesday March 28, 2017, 12:05 PM

Champions in Science: Profile of Jenica Jacobi

Department of Energy, Office of Science

Friday March 24, 2017, 10:40 AM

Great Neck South High School Wins Regional Science Bowl at Brookhaven Lab

Brookhaven National Laboratory

Wednesday February 15, 2017, 04:05 PM

Middle Schoolers Test Their Knowledge at Science Bowl Competition

Argonne National Laboratory

Friday January 27, 2017, 04:00 PM

Haslam Visits ORNL to Highlight State's Role in Discovering Tennessine

Oak Ridge National Laboratory

Tuesday November 08, 2016, 12:05 PM

Internship Program Helps Foster Development of Future Nuclear Scientists

Oak Ridge National Laboratory

Friday May 13, 2016, 04:05 PM

More Than 12,000 Explore Jefferson Lab During April 30 Open House

Thomas Jefferson National Accelerator Facility

Monday April 25, 2016, 05:05 PM

Giving Back to National Science Bowl

Ames Laboratory

Friday March 25, 2016, 12:05 PM

NMSU Undergrad Tackles 3D Particle Scattering Animations After Receiving JSA Research Assistantship

Thomas Jefferson National Accelerator Facility

Tuesday February 02, 2016, 10:05 AM

Shannon Greco: A Self-Described "STEM Education Zealot"

Princeton Plasma Physics Laboratory

Monday November 16, 2015, 04:05 PM

Rare Earths for Life: An 85th Birthday Visit with Mr. Rare Earth

Ames Laboratory

Tuesday October 20, 2015, 01:05 PM

Meet Robert Palomino: 'Give Everything a Shot!'

Brookhaven National Laboratory

Tuesday April 22, 2014, 11:30 AM

University of Utah Makes Solar Accessible

University of Utah

Wednesday March 06, 2013, 03:40 PM

Student Innovator at Rensselaer Polytechnic Institute Seeks Brighter, Smarter, and More Efficient LEDs

Rensselaer Polytechnic Institute (RPI)

Friday November 16, 2012, 10:00 AM

Texas Tech Energy Commerce Students, Community Light up Tent City

Texas Tech University

Wednesday November 23, 2011, 10:45 AM

Don't Get 'Frosted' Over Heating Your Home This Winter

Temple University

Wednesday July 06, 2011, 06:00 PM

New Research Center To Tackle Critical Challenges Related to Aircraft Design, Wind Energy, Smart Buildings

Rensselaer Polytechnic Institute (RPI)

Friday April 22, 2011, 09:00 AM

First Polymer Solar-Thermal Device Heats Home, Saves Money

Wake Forest University

Friday April 15, 2011, 12:25 PM

Like Superman, American University Will Get Its Energy from the Sun

American University

Thursday February 10, 2011, 05:00 PM

ARRA Grant to Help Fund Seminary Building Green Roof

University of Chicago

Tuesday December 07, 2010, 05:00 PM

UC San Diego Installing 2.8 Megawatt Fuel Cell to Anchor Energy Innovation Park

University of California San Diego

Monday November 01, 2010, 12:50 PM

Rensselaer Smart Lighting Engineering Research Center Announces First Deployment of New Technology on Campus

Rensselaer Polytechnic Institute (RPI)

Friday September 10, 2010, 12:40 PM

Ithaca College Will Host Regional Clean Energy Summit

Ithaca College

Tuesday July 27, 2010, 10:30 AM

Texas Governor Announces $8.4 Million Award to Create Renewable Energy Institute

Texas Tech University

Friday May 07, 2010, 04:20 PM

Creighton University to Offer New Alternative Energy Program

Creighton University

Wednesday May 05, 2010, 09:30 AM

National Engineering Program Seeks Subject Matter Experts in Energy

JETS Junior Engineering Technical Society

Wednesday April 21, 2010, 12:30 PM

Students Using Solar Power To Create Sustainable Solutions for Haiti, Peru

Rensselaer Polytechnic Institute (RPI)

Wednesday March 03, 2010, 07:00 PM

Helping Hydrogen: Student Inventor Tackles Challenge of Hydrogen Storage

Rensselaer Polytechnic Institute (RPI)

Thursday February 04, 2010, 02:00 PM

Turning Exercise into Electricity

Furman University

Thursday November 12, 2009, 12:45 PM

Campus Leaders Showing the Way to a Sustainable, Clean Energy Future

National Wildlife Federation (NWF)

Tuesday November 03, 2009, 04:20 PM

Furman University Receives $2.5 Million DOE Grant for Geothermal Project

Furman University





Showing results

0-4 Of 2215