More biology articles in the 'Bioinformatics' category

cshl080305_1sm.jpgRice feeds more than half of the world's human population. Estimates indicate that the agricultural yield of rice will need to be increased by some 30% over the next two decades to meet projected increased demands. In the August 11 issue of the journal Nature, members of a 10-nation International Rice Genome Sequencing Project (IRGSP) report a highly accurate or "finished" map-based DNA sequence of the entire rice genome. The completed rice genome sequence, which reveals some 37,500 genes on the 12 chromosomes of rice, provides the raw material for many studies aimed at improving the agricultural yield of the world's most important food source.

Moreover, because the rice genome is closely related to that of other major cereal grasses--including corn, wheat, barley, rye, sorghum, and millet--the complete rice genome sequence is an extraordinarily useful resource for identifying genes of interest in a number of different crop plants that collectively supply two-third's of humanity's food supply.

"This study revealed thousands of genetic markers or signposts in the rice genome that are of immediate use to plant breeders and others working to improve rice agriculture," says Dr. W. Richard McCombie of Cold Spring Harbor Laboratory, a co-leader of the study.

"This is also the first finished genome sequence we have from any crop plant, so rice is now a great model for how to use genome sequence information to improve many other aspects of agriculture," says McCombie, who adds that several programs are already under way to study the structure and function of rice genes as well as agriculturally relevant genetic variation among different varieties of rice.

The finished rice genome sequence builds upon earlier draft sequences published by the private companies Monsanto and Syngenta. Robin Buell, lead investigator of The Institute of Genomic Research's portion of the project, calls this a "nice model of a public-private partnership" and added that by donating their genome sequences to the IRGSP, the companies saved the public consortium both time and money.

By enabling scientists to identify genes that underlie agriculturally important traits, a previous IRGSP-generated rough draft of the rice genome sequence--made publicly available in 2002--has already spurred both biotechnological and conventional plant breeding approaches to increasing rice yields. The newly-reported, finished rice genome sequence has the potential to greatly accelerate these efforts.

"The genetic map will greatly speed the hunt for genes that increase yield, protect against disease and pests, or provide drought-resistance in rice and other cereal crops," says Buell.

Formally established in 1998, the Japanese-led International Rice Genome Sequencing Project comprises researchers from 32 institutions in Japan, China, India, Thailand, Taiwan, Brazil, France, Canada, the United Kingdom, and the United States. Major U.S. funding for the project was from the National Science Foundation, U.S. Department of Agriculture-Cooperative State Research, Education and Extension Service, U.S. Department of Energy, and the Rockefeller Foundation. U.S. Efforts were coordinated by the National Plant Genome Initiative.

Participating U.S. institutions were Cold Spring Harbor Laboratory, the University of Arizona, Rutgers University, The Institute for Genomic Research, Washington University in St. Louis, the University of Wisconsin-Madison, Brookhaven National Laboratory, and Cornell University.

Source : Cold Spring Harbor Laboratory

August 11, 2005 11:06 PMBioinformatics

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