Posts tagged help
CU team receives $9.2 million DOE grant to engineer E. coli into biofuels
Dec 4th
A team led by the University of Colorado Boulder has been awarded $9.2 million over five years from the U.S. Department of Energy to research modifying E. coli to produce biofuels such as gasoline.
“This is a fantastic opportunity to take what we have worked on for the past decade to the next level,” said team leader Ryan Gill, a fellow of CU-Boulder’s Renewable and Sustainable Energy Institute, or RASEI. “In this project, we will develop technologies that are orders of magnitude beyond where we are currently.”
The team is working with a non-pathogenic strain of E. coli. Among the microbe’s more than 4,000 genes, the team is searching for a small set and how it can be manipulated in a combination of on and off states to change the bacteria’s behavior.
“E. coli is not going to want to make your biofuel at all,” said Gill, who’s also a CU-Boulder associate professor of chemical and biological engineering. “It doesn’t do that naturally. It’s programmed with thousands of genes controlling how it replicates. We’re figuring out what control structure we need to rewire in the bug to make it do what we want, not what it wants.”
Included in the team are Rob Knight, CU-Boulder associate professor of chemistry and biochemistry; Pin-Ching Maness, principal scientist at DOE’s National Renewable Energy Laboratory, or NREL; and Adam Arkin, physical biosciences director at DOE’s Lawrence Berkeley National Laboratory.
The researchers hope to engineer the production of ethylene and isobutanol in the modified E. coli. The two compounds are widely used commodities that can be converted into gasoline among other chemicals.
The greatest challenge is harnessing an efficient and inexpensive process that competes with abundant and low-cost fossil fuels like oil, according to Gill.
“Microorganisms and their genomes are incredibly complex machines,” said Gill. “The first step alone — of pinpointing the part of the E. coli genome that can help us make biofuels or other chemicals on a cost-competitive basis — is a daunting challenge. Then we have to determine if the results we want will take one year or decades, $5 million or $500 million.”
The team will be able to simultaneously identify numerous E. coli genes and the results of turning these genes on or off using advanced technologies. Many of the technologies have been developed by the researchers’ own labs.
The grant is the first of its kind from the DOE’s Office of Biological and Environmental Research and was awarded to only seven other research groups including teams led by MIT, Purdue University and the J. Craig Venter Institute.
In 2011, CU’s Technology Transfer Office named Gill an inventor of the year. In 2005, Gill won a National Science Foundation CAREER Award as well as a National Institutes of Health K25 Career Development Award for genomics research and teaching.
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CU study: New public gut bacteria study expected to reach around world
Nov 25th
Ever wondered who is living in your gut, and what they’re doing? The trillions of microbial partners in and on our bodies outnumber our own cells by as many as 10 to 1 and do all sorts of important jobs, from helping digest the food we eat this Thanksgiving to building up our immune systems.
In association with the Human Food Project, researchers at the University of Colorado Boulder along with researchers at other institutions around the world are launching a new open-access project known as “American Gut” in which participants can get involved in finding out what microbes are in their own guts and what they are doing in there.
The project builds on previous efforts, including the five-year, $173-million NIH-funded Human Microbiome Project, to characterize the microbes living in and on our bodies, said Associate Professor Rob Knight of CU-Boulder’s BioFrontiers Institute. But unlike other projects that have focused on carefully chosen test subjects with a few hundred people, this project allows the public to get involved and is encouraging tens of thousands of people to do so, Knight said.
“Galileo saw outer space through his telescope, and we want to see the inner space of your gut through modern genetics,” said Rob Dunn, a scientist at North Carolina State University and a collaborator on the project. The new project will be “crowd-funded” by individuals interested in learning more about their own gut bacteria and by others who simply want to contribute to the project, said Dunn.
“By combining the crowd-funding model with the open-access data analysis model that we pioneered with the Earth Microbiome Project, we can finally give anyone with an interest in his or her microbiome an opportunity to participate, whether by contributing samples or by looking at the data,” said Knight, also a Howard Hughes Medical Institute Early Career Scientist.
Public interest is immense, says the research team. 18,000 people have already signed up to receive more information by email about the project when it launches. “The American Gut project builds on the Human Microbiome Project by allowing anyone to participate, and will let the public join in the excitement of this new field,” said Lita Proctor, program director for the Human Microbiome Project. “We can expect this to lay the groundwork for all sorts of fascinating studies in the future, that others will in turn build on.”
The American Gut project is an opportunity for the “citizen scientists” working with team of leading researchers and labs throughout the United States to help shape a new way of understanding how diet and lifestyle may contribute to human health through each person’s suite of trillions of tiny microbes, say the researchers. A key aspect of the project is to understand how diet and lifestyle, whether by choice — like athletes or vegetarians — or by necessity, including those suffering from particular autoimmune diseases or who have food allergies, affect peoples’ microbial makeup, said Knight.
“This will be the first project of its kind that might be able to address this question at such a large scale,” said Jeff Leach, founder of the Human Food Project and co-founder of American Gut. The gut microbiome has been linked to many diseases, including obesity, cancer, and inflammatory bowel disease — all of which are much more common in Western populations, he said.
“We should start thinking about diets not only from the perspective of what we should eat, but what we should be feeding our entire gut microbial systems,” said Leach. A key aspect of the project is to integrate studies of Americans of all shapes and sizes with studies of people living more traditional lifestyles in Africa, South America and elsewhere, he said.
The steep decline in the cost of DNA sequencing and recent advances in computational techniques allow for the analysis of microbial genomes orders of magnitude cheaper than was possible only a few years ago, said Knight. Sequencing is now getting cheap enough — participants who donate $99 or more can expect to get tens of thousands of sequences from microbes in their gut — that participants can include their families and even their pets, Knight said.
Doctoral student Daniel McDonald is one of several CU-Boulder students who will be involved in the effort. “I am excited to have the opportunity to develop new computational tools in order to further explore this frontier,” said McDonald, who is in the Interdisciplinary Quantitative Biology program at the BioFrontiers Institute.
“I am pleased to participate in this pioneering effort that marries the vast interest of the public in science with questions that are worth answering about human health and nutrition,” said Martin Blaser, chair of the Department of Medicine and professor of microbiology at New York University. “Through this consortium, the technical and intellectual resources are there to lead to important new knowledge.”
The project will seek to build on a growing canine and feline database as well. “The majority of data we currently have on the dog and cat microbiomes has come from a handful of small studies in research or clinically ill animals,” said Associate Professor Kelly Swanson of the Department of Animal Sciences and Division of Nutritional Sciences at the University of Illinois at Urbana-Champaign. “This study will apply the technology to free-living pets, where diet, genetics, and living environment are quite different from household to household.
“This research may identify important trends not possible with lab-based studies, and help guide us on how to feed our pets in the future,” said Swanson.
The backdrop to the project is the radical decline in the cost of DNA sequencing, which allows analysis of microbial genomes orders of magnitude cheaper than was possible only a few years ago, and recent advances in computational techniques. Participants in the project include many of the key players in the Human Microbiome Project and research facilities around the world.
To learn more about participating in or contributing to the project visit https://www.indiegogo.com/americangut. For a list of additional collaborators on the project visithttp://humanfoodproject.com/the-people/collaborators/.
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CU Boulder invites public to Nov. 26 workshop on oil and gas development on groundwater
Nov 19th
Following the recent Colorado Oil and Gas Conservation Commission hearing on creation of statewide regulations for groundwater sampling and monitoring near new oil and gas wells, the University of Colorado Boulder will host an informational workshop on Monday, Nov. 26, from 1 to 5 p.m. at the Wolf Law Building.
The workshop, titled “Monitoring and Protecting Groundwater during Oil and Gas Development,” will focus on oil and gas development procedures that can impact groundwater, the current state regulations that protect groundwater, the changes proposed by the commission, and other recommendations. The commission will hold a second hearing and plans to finalize new regulations on Dec. 10, 2012.
The workshop is free and open to the public and is co-sponsored by the CU-Boulder Natural Resources Law Center’s Intermountain Oil and Gas Best Management Practices Project and the Colorado Water and Energy Research Center.
The Oil and Gas Conservation Commission of the state of Colorado has required water well sampling and monitoring for many years through numerous state orders, rules and conditions of approval. The proposed water-sampling rule would establish sampling and monitoring requirements on a statewide basis and would eventually supersede other commission water sampling rules and orders, with the exception of rules concerning sampling in coal-bed methane areas.
The sampling rule is intended to provide the commission with a mechanism to obtain data consistently across the state. These data are intended to help verify that water wells, ground and surface waters, and residents of producing basins are adequately protected and that impacts, should they occur, are quickly identified and mitigated.
“Energy, jobs and a clean environment, including clean and sufficient groundwater, are extremely important to Colorado today and for our future,” said Kathryn Mutz, Natural Resources Law Center senior research associate and Intermountain Oil and Gas Best Management Practices Project manager. “Ensuring groundwater protection during oil and gas development is one important part of the puzzle. This workshop is providing a venue outside of the formal commission rulemaking process to discuss and educate ourselves and the stakeholders about the alternatives so that we get this rule right for Colorado.”
For more information about the Nov. 26 workshop and the proposed amendments, visit http://www.oilandgasbmps.org/workshops/COGCCgroundwater/index.php. To RSVP, email your name and contact information to nrlc@colorado.edu. Continuing Legal Education credits are available to attendees for a fee.
The Intermountain Oil and Gas Best Management Practices Project website and database are maintained as part of the Natural Resources Law Center within the CU-Boulder Law School. Best Management Practices are mitigation measures applied to areas being developed for oil and gas to promote energy development in an environmentally sensitive manner. The project is supported, in part, by the Environmentally Friendly Drilling Project and a CU-Boulder Outreach Award.
The Colorado Water and Energy Research Center, led by Mark Williams, CU-Boulder professor of geography, provides a neutral clearinghouse for information on the potential hydrologic impacts of natural gas development.
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