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UGA researchers unlock common bean’s genetic makeup

J. Merritt Melancon

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By J. Merritt Melancon |
June 30, 2014
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Beans are a staple crop and primary protein source for millions of people around the world, but very little has been known about their domestication or nitrogen-fixing properties until now.

Recently, UGA researchers worked with a team of scientists to help sequence and analyze the genome of the common bean, Phaseolus vulgaris. Black beans, pinto beans, kidney beans, green beans, pole beans and others are varieties of the common bean.

UGA researchers unlock common bean’s genetic makeup

Scott Jackson, director of the UGA Center for Applied Genetic Technologies in the College of Agricultural and Environmental Sciences, Dan Rokhsar of the U.S. Department of Energy Joint Genome Institute, Jeremy Schmutz of the DOE JGI and the HudsonAlpha Institute for Biotechnology, and Phil McClean of North Dakota State University led the team. Their work appeared in the June 8 issue of Nature Genetics.

The project was supported by the DOE Office of Science, the U.S. Department of Agriculture's National Institute of Food and Agriculture and the National Science Foundation.

"Unlocking the genetic makeup of the common bean is a tremendous achievement that will lead to future advances in feeding the world's growing population through improved crop production," said Sonny Ramaswamy, director of the USDA National Institute of Food and Agriculture. "While we have much to learn about the application of genomics in agriculture, this study is groundbreaking. I applaud the work of this team of scientists and look forward to their continued work in this important area."

The common bean ranks as the 10th most grown food crop worldwide, and it is an important agricultural tool.

"The common bean is an integral part of a sustainable agricultural system due to its ability to fix atmospheric nitrogen to enrich the soil," Jackson said.

All plants require nitrogen to thrive. However, many agricultural lands are deficient in nitrogen, leading farmers to rely on fertilizers to supply the nutrient.

UGA researchers unlock common bean’s genetic makeup

Legumes-such as the common bean and soybean-form symbiotic relationships with nitrogen-fixing bacteria, which maximize the amount of usable nitrogen plants can extract from the soil. Understanding how such symbiotic relationships are formed and sustained is crucial to improving agricultural practices as increasing crop yields are desired both for fuel and food production.

The team sequenced and assembled a 473-million basepair genome of the common bean. Thought to have originated in Mexico more than 100,000 years ago, the common bean was domesticated separately at two different geographic locations: the Andes and Mesoamerica, home to the early civilizations of Mexico and Central America. The team compared sequences from pooled populations representing these regions, finding only a small fraction of shared genes. This indicated that different events had been involved in the domestication process at each location.

The team then compared the high-quality common bean genome against the sequence of its most economically important relative, the soybean. They found evidence of synteny, in which a gene in one species is present in another. They also noted that the common bean's genome had evolved more rapidly than soybean's since they diverged from the last common ancestor nearly 20 million years ago.

 

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