Sacred Lotus Plant Genome Sequenced and Analyzed

The sacred lotus (Nelumbo nucifera), a symbol of spiritual purity and longevity, is a pretty special plant. Its seeds can survive up to 1,300 years, its petals and leaves repel grime and water, and its flowers generate heat to attract pollinators.

Now researchers report in the journal Genome Biology that they have sequenced the lotus genome, and the results offer insight into the heart of some of its mysteries. The sequence reveals that of all the plants sequenced so far -- and there are dozens -- sacred lotus bears the closest resemblance to the ancestor of all eudicots, a broad category of flowering plants that includes apple, cabbage, cactus, coffee, cotton, grape, melon, peanut, poplar, soybean, sunflower, tobacco and tomato.

The plant lineage that includes the sacred lotus forms a separate branch of the eudicot family tree, and so lacks a signature triplication of the genome seen in most other members of this family, said University of Illinois plant biology and Institute for Genomic Biology professor Ray Ming, who led the analysis.

"Whole-genome duplications -- the doubling, tripling (or more) of an organism's entire genetic endowment -- are important events in plant evolution," Ming said. Some of the duplicated genes retain their original structure and function, and so produce more of a given gene product -- a protein, for example, he said. Some gradually adapt new forms to take on new functions. If those changes are beneficial, the genes persist; if they're harmful, they disappear from the genome.

Many agricultural crops benefit from genome duplications, including banana, papaya, strawberry, sugarcane, watermelon and wheat, said Robert VanBuren, a graduate student in Ming's lab and collaborator on the study.

Although it lacks the 100 million-year-old triplication of its genome seen in most other eudicots, sacred lotus experienced a separate, whole-genome duplication about 65 million years ago, the researchers found. A large proportion of the duplicated genes (about 40 percent) have been retained, and by looking at changes in these duplicated genes, the researchers could conclude that lotus has a slow mutation rate relative to other plants, Ming said.

These traits make lotus an ideal reference plant for the study of other eudicots, the researchers including Jane Shen-Miller, a plant and biology professor at the University of California at Los Angeles (who germinated a 1,300-year-old sacred lotus seed); and Shaohua Li, the director of the Wuhan Botanical Garden at the Chinese Academy of Sciences, said.

Paper:

Ray Ming, et al. Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.). Genome Biology, 2013; 14 (5): R41 DOI: 10.1186/gb-2013-14-5-r41