Comparative genomics analysis of drought response between obligate CAM and C₃ photosynthesis plants

Rongbin Hu¹, Jin Zhang², Sara Jawdy³, Avinash Sreedasyam⁴, Anna Lipzen⁵, Mei Wang⁶, Vivian Ng⁷, Christopher Daum⁸, Keykhosrow Keymanesh⁹, Degao Liu¹⁰, Haiwei Lu¹¹, Priya Ranjan¹², Jin-Gui Chen¹³, Wellington Muchero¹⁴, Timothy J Tschaplinski¹⁵, Gerald A Tuskan¹⁶, Jeremy Schmutz¹⁷, Xiaohan Yang¹⁸

Affiliations

¹ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: rongbin.hu@ucr.edu.
² The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, 311300, China. Electronic address: zhangj@zafu.edu.cn.
³ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: jawdys@ornl.gov.
⁴ HudsonAlpha Institute for Biotechnology, 601 Genome Way, Huntsville, AL, 35801, USA. Electronic address: asreedasyam@hudsonalpha.org.
⁵ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: alipzen@lbl.gov.
⁶ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: mwang@lbl.gov.
⁷ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: vng@lbl.gov.
⁸ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: cgdaum@lbl.gov.
⁹ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: kkeymanesh@lbl.gov.
¹⁰ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: liu01049@umn.edu.
¹¹ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: haiweilu@cccneb.edu.
¹² Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: ranjanp@ornl.gov.
¹³ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: chenj@ornl.gov.
¹⁴ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: mucherow@ornl.gov.
¹⁵ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: tschaplinstj@ornl.gov.
¹⁶ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: tuskanga@ornl.gov.
¹⁷ HudsonAlpha Institute for Biotechnology, 601 Genome Way, Huntsville, AL, 35801, USA; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: jschmutz@hudsonalpha.org.
¹⁸ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: yangx@ornl.gov.

PMID: 36027837
DOI: 10.1016/j.jplph.2022.153791

Free article

Comparative genomics analysis of drought response between obligate CAM and C₃ photosynthesis plants

Rongbin Hu et al. J Plant Physiol. 2022 Oct.

Free article

. 2022 Oct:277:153791.

doi: 10.1016/j.jplph.2022.153791. Epub 2022 Aug 8.

Authors

Affiliations

¹ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: rongbin.hu@ucr.edu.
² The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, 311300, China. Electronic address: zhangj@zafu.edu.cn.
³ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: jawdys@ornl.gov.
⁴ HudsonAlpha Institute for Biotechnology, 601 Genome Way, Huntsville, AL, 35801, USA. Electronic address: asreedasyam@hudsonalpha.org.
⁵ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: alipzen@lbl.gov.
⁶ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: mwang@lbl.gov.
⁷ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: vng@lbl.gov.
⁸ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: cgdaum@lbl.gov.
⁹ Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: kkeymanesh@lbl.gov.
¹⁰ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: liu01049@umn.edu.
¹¹ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: haiweilu@cccneb.edu.
¹² Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: ranjanp@ornl.gov.
¹³ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: chenj@ornl.gov.
¹⁴ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: mucherow@ornl.gov.
¹⁵ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: tschaplinstj@ornl.gov.
¹⁶ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: tuskanga@ornl.gov.
¹⁷ HudsonAlpha Institute for Biotechnology, 601 Genome Way, Huntsville, AL, 35801, USA; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94589, USA. Electronic address: jschmutz@hudsonalpha.org.
¹⁸ Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA; The Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA. Electronic address: yangx@ornl.gov.

PMID: 36027837
DOI: 10.1016/j.jplph.2022.153791

Abstract

Crassulacean acid metabolism (CAM) plants exhibit elevated drought and heat tolerance compared to C₃ and C₄ plants through an inverted pattern of day/night stomatal closure and opening for CO₂ assimilation. However, the molecular responses to water-deficit conditions remain unclear in obligate CAM species. In this study, we presented genome-wide transcription sequencing analysis using leaf samples of an obligate CAM species Kalanchoë fedtschenkoi under moderate and severe drought treatments at two-time points of dawn (2-h before the start of light period) and dusk (2-h before the dark period). Differentially expressed genes were identified in response to environmental drought stress and a whole genome wide co-expression network was created as well. We found that the expression of CAM-related genes was not regulated by drought stimuli in K. fedtschenkoi. Our comparative analysis revealed that CAM species (K. fedtschenkoi) and C₃ species (Arabidopsis thaliana, Populus deltoides 'WV94') share some common transcriptional changes in genes involved in multiple biological processes in response to drought stress, including ABA signaling and biosynthesis of secondary metabolites.

Keywords: Abscisic acid; Crassulacean acid metabolism; Drought stress; Kalanchoë fedtschenkoi; RNA-Seq; Secondary metabolism.

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Declaration of competing interest The authors declare that they have no competing interests.

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Comparative genomics analysis of drought response between obligate CAM and C₃ photosynthesis plants

Affiliations

Comparative genomics analysis of drought response between obligate CAM and C₃ photosynthesis plants

Authors

Affiliations

Abstract

Conflict of interest statement

MeSH terms

Substances

LinkOut - more resources

Full Text Sources

Miscellaneous