The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism

Xiaohan Yang (), Rongbin Hu, Hengfu Yin, Jerry Jenkins, Shengqiang Shu, Haibao Tang, Degao Liu, Deborah A. Weighill, Won Cheol Yim, Jungmin Ha, Karolina Heyduk, David M. Goodstein, Hao-Bo Guo, Robert C. Moseley, Elisabeth Fitzek, Sara Jawdy, Zhihao Zhang, Meng Xie, James Hartwell, Jane Grimwood, Paul E. Abraham, Ritesh Mewalal, Juan D. Beltrán, Susanna F. Boxall, Louisa V. Dever, Kaitlin J. Palla, Rebecca Albion, Travis Garcia, Jesse A. Mayer, Sung Don Lim, Ching Man Wai, Paul Peluso, Robert Buren, Henrique Cestari Paoli, Anne M. Borland, Hong Guo, Jin-Gui Chen, Wellington Muchero, Yanbin Yin, Daniel A. Jacobson, Timothy J. Tschaplinski, Robert L. Hettich, Ray Ming, Klaus Winter, James H. Leebens-Mack, J. Andrew C. Smith, John C. Cushman, Jeremy Schmutz and Gerald A. Tuskan
Additional contact information
Xiaohan Yang: Oak Ridge National Laboratory
Rongbin Hu: Oak Ridge National Laboratory
Hengfu Yin: Oak Ridge National Laboratory
Jerry Jenkins: HudsonAlpha Institute for Biotechnology
Shengqiang Shu: US Department of Energy Joint Genome Institute
Haibao Tang: Fujian Agriculture and Forestry University
Degao Liu: Oak Ridge National Laboratory
Deborah A. Weighill: Oak Ridge National Laboratory
Won Cheol Yim: University of Nevada
Jungmin Ha: University of Nevada
Karolina Heyduk: University of Georgia
David M. Goodstein: US Department of Energy Joint Genome Institute
Hao-Bo Guo: University of Tennessee
Robert C. Moseley: Oak Ridge National Laboratory
Elisabeth Fitzek: Northern Illinois University
Sara Jawdy: Oak Ridge National Laboratory
Zhihao Zhang: Oak Ridge National Laboratory
Meng Xie: Oak Ridge National Laboratory
James Hartwell: University of Liverpool
Jane Grimwood: HudsonAlpha Institute for Biotechnology
Paul E. Abraham: Oak Ridge National Laboratory
Ritesh Mewalal: Oak Ridge National Laboratory
Juan D. Beltrán: University of Oxford
Susanna F. Boxall: University of Liverpool
Louisa V. Dever: University of Liverpool
Kaitlin J. Palla: Oak Ridge National Laboratory
Rebecca Albion: University of Nevada
Travis Garcia: University of Nevada
Jesse A. Mayer: University of Nevada
Sung Don Lim: University of Nevada
Ching Man Wai: University of Illinois at Urbana-Champaign
Paul Peluso: Pacific Biosciences, Inc.
Robert Buren: Michigan State University
Henrique Cestari Paoli: Oak Ridge National Laboratory
Anne M. Borland: Oak Ridge National Laboratory
Hong Guo: University of Tennessee
Jin-Gui Chen: Oak Ridge National Laboratory
Wellington Muchero: Oak Ridge National Laboratory
Yanbin Yin: Northern Illinois University
Daniel A. Jacobson: Oak Ridge National Laboratory
Timothy J. Tschaplinski: Oak Ridge National Laboratory
Robert L. Hettich: Oak Ridge National Laboratory
Ray Ming: Fujian Agriculture and Forestry University
Klaus Winter: Smithsonian Tropical Research Institute, Apartado
James H. Leebens-Mack: University of Georgia
J. Andrew C. Smith: University of Oxford
John C. Cushman: University of Nevada
Jeremy Schmutz: HudsonAlpha Institute for Biotechnology
Gerald A. Tuskan: Oak Ridge National Laboratory

Nature Communications, 2017, vol. 8, issue 1, 1-15

Abstract: Abstract Crassulacean acid metabolism (CAM) is a water-use efficient adaptation of photosynthesis that has evolved independently many times in diverse lineages of flowering plants. We hypothesize that convergent evolution of protein sequence and temporal gene expression underpins the independent emergences of CAM from C3 photosynthesis. To test this hypothesis, we generate a de novo genome assembly and genome-wide transcript expression data for Kalanchoë fedtschenkoi, an obligate CAM species within the core eudicots with a relatively small genome (~260 Mb). Our comparative analyses identify signatures of convergence in protein sequence and re-scheduling of diel transcript expression of genes involved in nocturnal CO2 fixation, stomatal movement, heat tolerance, circadian clock, and carbohydrate metabolism in K. fedtschenkoi and other CAM species in comparison with non-CAM species. These findings provide new insights into molecular convergence and building blocks of CAM and will facilitate CAM-into-C3 photosynthesis engineering to enhance water-use efficiency in crops.

Date: 2017
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DOI: 10.1038/s41467-017-01491-7

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