Genome of the Long-Living Sacred Lotus (Nelumbo Nucifera Gaertn.)
Background: Sacred lotus is a basal eudicot with agricultural, medicinal, cultural and religious importance. It was domesticated in Asia about 7,000 years ago, and cultivated for its rhizomes and seeds as a food crop. It is particularly noted for its 1,300-year seed longevity and exceptional water repellency, known as the lotus effect. The latter property is due to the nanoscopic closely packed protuberances of its self-cleaning leaf surface, which have been adapted for the manufacture of a self-cleaning industrial paint, Lotusan. Results: The genome of the China Antique variety of the sacred lotus was sequenced with Illumina and 454 technologies, at respective depths of 101× and 5.2×. The final assembly has a contig N50 of 38.8 kbp and a scaffold N50 of 3.4 Mbp, and covers 86.5% of the estimated 929 Mbp total genome size. The genome notably lacks the paleo-triplication observed in other eudicots, but reveals a lineage-specific duplication. The genome has evidence of slow evolution, with a 30% slower nucleotide mutation rate than observed in grape. Comparisons of the available sequenced genomes suggest a minimum gene set for vascular plants of 4,223 genes. Strikingly, the sacred lotus has 16 COG2132 multi-copper oxidase family proteins with root-specific expression; these are involved in root meristem phosphate starvation, reflecting adaptation to limited nutrient availability in an aquatic environment. Conclusions: The slow nucleotide substitution rate makes the sacred lotus a better resource than the current standard, grape, for reconstructing the pan-eudicot genome, and should therefore accelerate comparative analysis between eudicots and monocots.
MSU Digital Commons Citation
Ming, Ray; VanBuren, Robert; Liu, Yanling; Yang, Mei; Han, Yuepeng; Li, Lei Ting; Zhang, Qiong; Kim, Min Jeong; Schatz, Michael C.; Campbell, Michael; Li, Jingping; Bowers, John E.; Tang, Haibao; Lyons, Eric; Ferguson, Ann A.; Narzisi, Giuseppe; Nelson, David R.; Blaby-Haas, Crysten E.; Gschwend, Andrea R.; Jiao, Yuannian; Der, Joshua P.; Zeng, Fanchang; Han, Jennifer; Min, Xiang Jia; Hudson, Karen A.; Singh, Ratnesh; Grennan, Aleel K.; Karpowicz, Steven J.; Watling, Jennifer R.; and Ito, Kikukatsu, "Genome of the Long-Living Sacred Lotus (Nelumbo Nucifera Gaertn.)" (2013). Department of Biology Faculty Scholarship and Creative Works. 67.