Navigation Links
DOE JGI releases soybean genome assembly to enable worldwide bioenergy research efforts
Date:1/18/2008

WALNUT CREEK, CA--A preliminary assembly and annotation of the soybean genome, Glycine max, has been made available by the U.S. Department of Energy Joint Genome Institute (DOE JGI), to the greater scientific community to enable bioenergy research.

The announcement was made by Eddy Rubin, DOE JGI Director, during his keynote remarks Jan. 15 at the Plant and Animal Genome XVI Conference in San Diego,CA. The preliminary data can be accessed at http://www.phytozome.net/soybean.

The soybean genome project was initiated through the DOE JGI Community Sequencing Program (CSP) by a consortium led by DOE JGI's Dan Rokhsar, Stanford's Jeremy Schmutz, Gary Stacey of the University of Missouri-Columbia, Randy Shoemaker of Iowa State University, and Scott Jackson of Purdue University, with support from the U.S. Department of Agriculture and the National Science Foundation.

The large-scale shotgun DNA sequencing project began in the middle of 2006 and will be completed in 2008. A total of about 13 million shotgun reads have been produced and deposited in the National Center for Biotechnology Information (NCBI) Trace Archive in accordance with the consortium's commitment to early access and consistent with the Fort Lauderdale genome data release policy.

The current assembly (representing 7.23x coverage), gene, set, and browser are collectively referred to as "Glyma0". Glyma0 is a preliminary release, based on a partial dataset. This is expected to be replaced with an improved, chromosome-scale "Glyma1" version by the end of 2008. Early users of this data are encouraged to track their favorite genes by saving local copies of the DNA sequences of these loci, and not by identifier or sequence coordinate, as these will change in future versions.

DOE JGI's interest in sequencing the soybean stems from its role as a principal source of biodiesel, a renewable, alternative fuel with the highest energy content of any alternative fuel.

Detailed knowledge of the soybean genetic code will enable crop improvements for more effective application of this plant for clean bioenergy generation. Knowing which genes control specific traits, researchers are able to change the type, quantity, and/or location of oil produced by the crop. Through utilization of the sequence information generated by DOE JGI, it may be possible to develop a customized biomass production platform for combining oil seed production for biodiesel with enhanced vegetative growth for ethanol conversion--doubling the energy output of the crop. In 2004, over 3.1 billion bushels of soybeans were grown on nearly 75 million acres in the US, with an estimated annual value exceeding $17 billion--second only to corn, and about twice that of wheat.

Several other individuals, projects, grants, and agencies have made this monumental project possible. These included the four major projects: Public Expressed Sequence Tags (ESTs), SoyMap (which includes BAC libraries, modern physical mapping, and clone-based sequencing), and the Genetic Map with funding from USDA, NSF, United Soybean Board (USB), and the North Central Soybean Research Program (NCSRP).

The Public EST Project, supported by USB and NCSRP, was led by Lila Vodkin of the University of Illinois at Urbana-Champaign; Randy Shoemaker of the USDA-ARS, Ames, Iowa; and P. Steven Keim of Northern Arizona University.

The original physical map development, funded by USB, was conducted by Jan Dvorak, from the University of California, Davis, along with the Washington University Genome Center in St. Louis, Missouri, and David Grant, USDA-ARS, Ames, Iowa.

The NSF SoyMap team, comprising principal investigator Scott Jackson, Gary Stacey and Henry Nguyen, Jeff Doyle of Cornell University, William Beavis of the National Center for Genome Resources (NCGR) in Santa Fe, New Mexico, and Iowa State, Gregory May (NCGR), Will Nelson and Rod Wing of the University of Arizona, with Randy Shoemaker, anchored the map and conducted quality control.

The team devoted to genetic mapping and physical map anchoring, yielding several thousand sequence-based markers, included USDA-Agricultural Research Service (ARS) investigators, including Perry Cregan and Dave Hyten of Beltsville, Maryland; Randy Shoemaker, David Grant, and Steven Cannon of USDA-ARS Ames, Iowa; along with James Specht of the University of Nebraska, Lincoln.


'/>"/>

Contact: David Gilbert
degilbert@lbl.gov
925-296-5643
DOE/Joint Genome Institute
Source:Eurekalert

Related biology news :

1. Toxic releases down from North American industry leaders, increasing from other facilities
2. University of Minnesota releases first ever comprehensive report of the health of college students
3. WHRC releases 4 key reports
4. Deadlines for 2007 National Soybean Rust Symposium fast approaching
5. Unravelling new complexity in the genome
6. Conquest of land began in shark genome
7. One species entire genome discovered inside anothers
8. Genome study shines light on genetic link to height
9. First individual genome sequence published
10. Ultraconserved elements in the genome: Are they indispensable?
11. $10 million gift to support cutting-edge epigenome center at USC
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:4/18/2017)... Inc., a global expert in SoC-based imaging and computing solutions, has ... features the company,s hybrid codec technology. A demonstration utilizing TeraFaces ® ... be showcased during the upcoming Medtec Japan at Tokyo Big Sight ... Las Vegas Convention Center April 24-27. ... Click here for an image of the ...
(Date:4/13/2017)... UBM,s Advanced Design and Manufacturing event in ... and evolving technology through its 3D Printing and Smart ... the expo portion of the event and feature a ... on trending topics within 3D printing and smart manufacturing. ... will take place June 13-15, 2017 at the Jacob K. ...
(Date:4/11/2017)... PALM BEACH GARDENS, Fla. , April 11, ... biometric identity management and secure authentication solutions, today ... million contract by Intelligence Advanced Research Projects Activity ... technologies for IARPA,s Thor program. "Innovation ... the onset and IARPA,s Thor program will allow ...
Breaking Biology News(10 mins):
(Date:10/11/2017)... ... October 11, 2017 , ... Disappearing forests and increased emissions are the ... million people each year. Especially those living in larger cities are affected by air ... one of the most pollution-affected countries globally - decided to take action. , “I ...
(Date:10/10/2017)... CA (PRWEB) , ... October ... ... a development-stage cancer-focused pharmaceutical company advancing targeted antibody-drug conjugate (ADC) therapeutics, today ... of targeted HPLN (Hybrid Polymerized Liposomal Nanoparticle), a technology developed in collaboration ...
(Date:10/10/2017)... Calif. , Oct. 10, 2017 SomaGenics ... from the NIH to develop RealSeq®-SC (Single Cell), expected ... for profiling small RNAs (including microRNAs) from single cells ... Program highlights the need to accelerate development of approaches ... "New techniques for measuring levels ...
(Date:10/9/2017)... ... October 09, 2017 , ... The award-winning American Farmer television series ... 2018. American Farmer airs Tuesdays at 8:30aET on RFD-TV. , With global population ... challenge of how to continue to feed a growing nation. At the same time, ...
Breaking Biology Technology: