Navigation Links
Genome-scale network of rice genes to speed the development of biofuel crops
Date:11/2/2011

The first genome-scale model for predicting the functions of genes and gene networks in a grass species has been developed by an international team of researches that includes scientists with the U.S. Department of Energy (DOE)'s Joint BioEnergy Institute (JBEI), a multi-institutional partnership led by Lawrence Berkeley National Laboratory (Berkeley Lab). Called RiceNet, this systems-level model of rice gene interactions should help speed the development of new crops for the production of advanced biofuels, as well as help boost the production and improve the quality of one of the world's most important food staples.

"With RiceNet, instead of working on one gene at a time based on data from a single experimental set, we can predict the function of entire networks of genes, as well as entire genetic pathways that regulate a particular biological process," says Pamela Ronald, a plant geneticist who holds joint appointments with JBEI, where she directs the grass genetics program, and with the University of California (UC) Davis, where she is a professor in the Department of Plant Pathology and at The Genome Center. "RiceNet represents a systems biology approach that draws from diverse and large datasets for rice and other organisms."

Rice is staple food for half the world's population and a model for monocotyledonous species one of the two major groups of flowering plants. Rice is especially useful as a model for the perennial grasses, such as Miscanthus and switchgrass, that have emerged as prime feedstock candidates for the production of clean, green and renewable cellulosic biofuels.

Given the worldwide importance of rice, a network modeling platform that can predict the function of rice genes has been sorely needed. However, until now the high number of rice genes in excess of 41,000 compared to about 27,000 for Arabidopsis, a model for the other major group of flowering plants along with several other important factors, has proven to be too great a challenge.

Ronald is the corresponding author of a paper in the Proceedings of the National Academy of Sciences (PNAS) that describes how JBEI researchers, working with researchers at the University of Texas in Austin, and Yonsei University in Seoul, Korea, overcame the challenge and developed a network that encompasses nearly half of all rice genes. The paper is titled "Genetic dissection of the biotic stress response using a genome-scale gene network for rice."

"RiceNet builds upon 24 publicly available data sets from five species as well as an earlier mid-sized network of 100 rice stress response proteins that my group constructed through protein interaction mapping," Ronald says. "We have conducted experiments that validated RiceNet's predictive power for genes involved in the rice innate immune response."

Ronald and her team also showed that RiceNet can accurately predict gene functions in another important monocotyledonous crop species, maize.

A RiceNet Website is now available that allows researchers from all over the world to use it. At JBEI, RiceNet will be used to identify genes that have not previously been known to be involved in cell wall synthesis and modification. JBEI researchers are looking for ways to increase the accessibility of fermentable sugars in the cell walls of feedstock plants.

"The ability to identify key genes that control simple or complex traits in rice has important biological, agricultural, and economic consequences," Ronald says. "RiceNet offers an attractive and potentially rapid route for focusing crop engineering efforts on the small sets of genes that are deemed most likely to affect the traits of interest."


'/>"/>

Contact: Lynn Yarris
lcyarris@lbl.gov
510-486-5375
DOE/Lawrence Berkeley National Laboratory
Source:Eurekalert  

Related biology news :

1. Vast hidden network regulates gene expression in cancer
2. Over the hump: Ecologists use power of network science to challenge long-held theory
3. University of Tennessee chosen to join national network to study climate change
4. Watching viruses friend a network
5. Disordered networks synchronise faster than small world networks
6. Wireless network in hospital monitors vital signs
7. NSF awards construction funding to National Ecological Observatory Network
8. 1st large-scale map of a plants protein network addresses evolution, disease process
9. Caltech researchers create the first artificial neural network out of DNA
10. Notre Dame research reveals brain network connections
11. Data revealing migrations of larval reef fish vital for designing networks of marine protected areas
Post Your Comments:
*Name:
*Comment:
*Email:
Related Image:
Genome-scale network of rice genes to speed the development of biofuel crops
(Date:2/2/2016)... , Feb. 2, 2016  Based on its ... & Sullivan recognizes US-based Intelligent Retinal Imaging Systems ... Sullivan Award for New Product Innovation. IRIS, a ... North America , is poised to ... growing diabetic retinopathy market. The IRIS technology presents ...
(Date:1/28/2016)... JOSE, Calif., Jan. 28, 2016 Synaptics (NASDAQ: SYNA ... results for its second quarter ended December 31, 2015. ... second quarter of fiscal 2016 increased 2 percent compared to the ... second quarter of fiscal 2016 was $35.0 million, or $0.93 per ... Non-GAAP net income for the first quarter of fiscal 2016 grew ...
(Date:1/22/2016)... , January 22, 2016 /PRNewswire/ ... announced the addition of the  "Global ... their offering. --> http://www.researchandmarkets.com/research/4lmf2s/global_behavioral ... the  "Global Behavioral Biometric Market 2016-2020" ... Research and Markets ( http://www.researchandmarkets.com/research/4lmf2s/global_behavioral ) ...
Breaking Biology News(10 mins):
(Date:2/10/2016)... FL (PRWEB) , ... February 10, 2016 , ... ... in regenerative medicine, has announced a new agreement with Singapore-based Global Stem Cells ... physicians from the Philippines, Thailand and Singapore in the latest adipose and bone ...
(Date:2/9/2016)... ... February 08, 2016 , ... ... Location: Baruch S. Blumberg Institute at the Pennsylvania Biotechnology Center of Bucks County, ... and The Commonwealth Medical College (TCMC) will hold an open house for participants ...
(Date:2/9/2016)... ... February 09, 2016 , ... ... years and Open Access publishing is one of the popular publication models that ... open access journals and 3000+ International Conferences across the globe, ...
(Date:2/9/2016)... 9, 2016 Three-Year Initiative Supports Next ... Take Part in Life-Changing Camp Experiences ... to positively affect the lives of children born with rare diseases, ... SHPG ) is announcing a new initiative designed to positively ... as the future of rare disease care. --> To ...
Breaking Biology Technology: