Navigation Links
New databases harvest a rich bounty of information on crop plant metabolism
Date:3/29/2012

Stanford, CA -- The Plant Metabolic Network (http://www.plantcyc.org/), which is based at Carnegie's Department of Plant Biology, has launched four new online databases that offer an unprecedented view of the biochemical pathways controlling the metabolism of corn, soybeans, wine grapes, and cassavafour important species of crop plant. The new databases will serve as a critical resource for scientists working with these species to increase crop production, enhance biofuel development, or explore novel medicines.

Meeting the ever-expanding demand for food, biofuel and phyto-pharmaceutical production will require a comprehensive understanding of the enzymes, biochemical pathways and regulatory networks that control metabolism in plants. The goal of the Plant Metabolic Network is to facilitate such understanding by providing a detailed, genome-scale view of the chemical reactions taking place in plant cells. These metabolic reactions include those that convert carbon dioxide and sunlight into chemical energy, import essential mineral nutrients from the soil into plant roots, aid plants in defending against environmental stress, and otherwise allow plants to maintain life. By providing rich information on these processes, the Plant Metabolic Network enables efforts to elucidate steps in poorly understood plant biochemical processes, as well as discover unique, previously uncharacterized enzymes important to plant life.

The Plant Metabolic Network research team consists of plant scientists, scientific curators, post-doctoral scholars, and student interns. It is led by Carnegie staff scientist Sue Rhee. The group employs a number of approaches to generate the information housed in each database, integrating techniques and concepts from a wide range of fields including molecular sequence analysis, artificial intelligence, statistics, plant molecular biology, and plant biochemistry.

The team created a computational pipeline called E2P2 to perform metabolism-related discovery on sequenced plant genomes in order to place the rapidly expanding pool of plant genomic and transcriptomic sequence data into a metabolic framework. Importantly, the pipeline allows for a consistent, systematic, and high throughput approach for metabolism-related analysis of plant genome data. The data generated by the pipeline is rigorously reviewed using the scientific literature to ensure the quality of each released database. Up to ten more databases will be forthcoming later this year. Corn, soybeans, wine grapes, and cassava were selected for early release because of their economic and agricultural importance to various regions.

"Wine grapes are an important crop for the state of California; corn and soybeans are the number one and two crops of the United States, both as a source of food and biofuel; cassavaalso called manioc and yucais one of the most-common sources of food worldwide and a tremendously important crop for combating hunger," said Dr. Rhee.

"That's why we decided to release the databases for these plants right away, even before we started preparing a manuscript describing this work, to help researchers get started in improving production and yield of these crucial crops."
'/>"/>

Contact: Sue Rhee
rhee@acoma.stanford.edu
650-739-4251
Carnegie Institution
Source:Eurekalert

Related biology news :

1. New markers for allergic disorders thanks to analysis of medical databases
2. What the doctor prescribes: Customized medical-image databases
3. Improved rainwater harvesting system promising
4. Making a light-harvesting antenna from scratch
5. Putting light-harvesters on the spot
6. Scientists lay out plans for efficient harvesting of solar energy
7. Tropical birds return to harvested rainforest areas in Brazil
8. Device could improve harvest of stem cells from umbilical cord blood
9. MIT: Development in fog harvesting process
10. NSF announces new awards that will investigate more efficient ways to harvest sunlight
11. Rainwater harvest study finds roofing material affects water quality
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:6/2/2016)... --  The Weather Company , an IBM Business (NYSE: ... in which consumers will be able to interact with IBM ... voice or text and receive relevant information about the product ... have long sought an advertising solution that can create a ... and valuable; and can scale across millions of interactions and ...
(Date:5/16/2016)... NEW YORK , May 16, 2016   ... authentication solutions, today announced the opening of an IoT ... to strengthen and expand the development of embedded ... provides an unprecedented level of convenience and security with ... to authenticate one,s identity aside from DNA. EyeLock,s platform ...
(Date:4/28/2016)... April 28, 2016 First quarter 2016:   ... 966% compared with the first quarter of 2015 The ... 589.1 M (loss: 18.8) and the operating margin was 40% (-13) ... Cash flow from operations was SEK 249.9 M (21.2) ... guidance is unchanged, SEK 7,000-8,500 M. The operating margin ...
Breaking Biology News(10 mins):
(Date:6/23/2016)... , June 23, 2016   Boston Biomedical ... novel compounds designed to target cancer stemness pathways, ... been granted Orphan Drug Designation from the U.S. ... of gastric cancer, including gastroesophageal junction (GEJ) cancer. ... designed to inhibit cancer stemness pathways by targeting ...
(Date:6/23/2016)... June 23, 2016  The Prostate Cancer Foundation (PCF) is pleased ... and faster cures for prostate cancer. Members of the Class of 2016 were ... Read More About the Class of 2016 PCF Young ... ... ...
(Date:6/23/2016)... NC (PRWEB) , ... June 23, 2016 , ... In ... University Hospital in Denmark detail how a patient who developed lymphedema after being treated ... tissue. The results could change the paradigm for dealing with this debilitating, frequent side ...
(Date:6/23/2016)... ... 23, 2016 , ... ClinCapture, the only free validated electronic ... showcase its product’s latest features from June 26 to June 30, 2016 for ... Disrupting Clinical Trials in The Cloud during the conference. DIA (Drug Information ...
Breaking Biology Technology: