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Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)
Faculty of Science, Medicine and Health - Papers
  • Ray Ming, Chinese Academy of Sciences
  • Robert Vanburen, University of Illinois at Urbana-Champaign
  • Yanling Liu, Chinese Academy of Sciences
  • Mei Yang, Chinese Academy of Sciences
  • Yuepeng Han, Chinese Academy of Sciences
  • Leiting Li, Chinese Academy of Sciences
  • Qiong Zhang, Nanjing Agricultural University
  • Min-Jeong Kim, Washington State University
  • Michael C Schatz, Simons Center for Quantitative Biology
  • Michael Campbell, University of Utah
  • Jingping Li, University of Georgia
  • John E Bowers, University of Georgia
  • Haibao Tang, J Craig Venter Institute
  • Eric Lyons, University of Arizona
  • Ann A Ferguson, Michigan State University
  • Giuseppe Narzisi, Simons Center for Quantitative Biology
  • David R Nelson, University of Tennessee
  • Crysten E Blaby-Haas, University of California
  • Andrea R Gschwend, University of Illinois at Urbana-Champaign
  • Yuannian Jiao, Pennsylvania State University
  • Joshua P Der, Pennsylvania State University
  • Fanchang Zeng, University of Illinois at Urbana-Champaign
  • Jennifer Han, University of Illinois at Urbana-Champaign
  • Jia Min Xiang, Youngstown State University
  • Karen A Hudson, Purdue University
  • Ratnesh Singh, Texas A&M University System
  • Aleel K Grennan, University of Illinois at Urbana-Champaign
  • Steven J Karpowicz, University of Central Oklahoma
  • Jennifer R Watling, University of Adelaide
  • Kikukatsu Ito, Iwate University
  • Sharon A Robinson, University of Wollongong
  • Matthew E Hudson, University of Illinois at Urbana-Champaign
  • Qingyi Yu, Texas A&M University System
  • Todd C Mockler, Donald Danforth Plant Science Center
  • Andrew Carroll, Lawrence Berkeley National Laboratory
  • Yun Zheng, Fudan University
  • Ramanjulu Sunkar, Oklahoma State University
  • Ruizong Jia, Hawaii Agriculture Research Center
  • Nancy Chen, University of Hawaii at Manoa
  • Jie Arro, University of Illinois at Urbana-Champaign
  • Ching Man Wai, University of Illinois at Urbana-Champaign
  • Eric Wafula, Pennsylvania State University
  • Ashley Spence, University of Illinois at Urbana-Champaign
  • Yanni Han, Chinese Academy of Sciences
  • Liming Xu, Chinese Academy of Sciences
  • Jisen Zhang, Fujian Normal University
  • Rhiannon Peery, University of Illinois at Urbana-Champaign
  • Miranda J Haus, University of Illinois at Urbana-Champaign
  • Wenwei Xiong, Montclair State University
  • James A Walsh, University of Illinois at Urbana-Champaign
  • Jun Wu, Nanjing Agricultural University
  • Ming-Li Wang, Hawaii Agriculture Research Center
  • Yun J Zhu, Hawaii Agriculture Research Center
  • Robert E Paull, University of Hawaii at Manoa
  • Anne B Britt, University of California
  • Chunguang Du, Montclair State University
  • Stephen R Downie, University of Illinois at Urbana-Champaign
  • Mary A Schuler, University of Illinois at Urbana-Champaign
  • Todd P Michael, The Genome Analysis Center
  • Steve P Long, University of Illinois at Urbana-Champaign
  • Donald R Ort, United States Department of Agriculture
  • J William Schopf, University of California
  • David R Gang, Washington State University
  • Ning Jiang, Michigan State University
  • Mark Yandell, University of Utah
  • Claude W Depamphilis, Pennsylvania State University
  • Sabeeha S Merchant, University of California
  • Andrew H Paterson, University of Georgia
  • Bob B Buchanan, University of California
  • Shaohua Li, Chinese Academy of Sciences
  • Jane Shen-Miller, University of California
RIS ID
78134
Publication Date
1-1-2013
Publication Details

Ming, R., Vanburen, R., Liu, Y., Yang, M., Han, Y., Li, L., Zhang, Q., Kim, M., Schatz, M. C., Campbell, M., Li, J., Bowers, J. E., Tang, H., Lyons, E., Ferguson, A. A., Narzisi, G., Nelson, D. R., Blaby-Haas, C. E., Gschwend, A. R., Jiao, Y., Der, J. P., Zeng, F., Han, J., Xiang, J., Hudson, K. A., Singh, R., Grennan, A. K., Karpowicz, S. J., Watling, J. R., Ito, K., Robinson, S. A., Hudson, M. E., Yu, Q., Mockler, T. C., Carroll, A., Zheng, Y., Sunkar, R., Jia, R., Chen, N., Arro, J., Wai, C., Wafula, E., Spence, A., Han, Y., Xu, L., Zhang, J., Peery, R., Haus, M. J., Xiong, W., Walsh, J. A., Wu, J., Wang, M., Zhu, Y. J., Paull, R. E., Britt, A. B., Du, C., Downie, S. R., Schuler, M. A., Michael, T. P., Long, S. P., Ort, D. R., Schopf, J., Gang, D. R., Jiang, N., Yandell, M., Depamphilis, C. W., Merchant, S. S., Paterson, A. H., Buchanan, B. B., Li, S. & Shen-Miller, J. (2013). Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.). Genome Biology: biology for the post-genomic era, 14 (5), R41.

Abstract
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 on 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 101x and 5.2x. 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 sixteen 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.
Citation Information
Ray Ming, Robert Vanburen, Yanling Liu, Mei Yang, et al.. "Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)" (2013)
Available at: http://works.bepress.com/srobinson/75/