SalmelaPCE2016Sunrise 2

Recent publications

Research Articles

Salmela, M.J., K. Greenham, P. Lou, C.R. McClung, B.E. Ewers & C. Weinig. 2016. Variation in circadian rhythms is maintained among and within populations in Boechera stricta in Wyoming.  Plant Cell Environ. 39: 1293-1303 [Full Text]

Yarkhunova,, Y., C.E. Edwards, B.E. Ewers, R.L. Baker, T.L. Aston, C.R. McClung, P. Lou & C. Weinig. 2016. Selection during crop diversification involves correlated evolution of the circadian clock and ecophysiological traits in Brassica rapa.  New Phytol. 210: 133-144 [Full Text]

Greenham, K., P. Lou, H. Farid, S.E. Remsen & C.R. McClung. 2015. TRiP: Tracking Rhythms in Plants, an automated leaf movement analysis program for circadian period estimation.  Plant Methods 11: 33 [Full Text]

Xie, Q., P. Lou, V. Hermand, R. Aman, H.J. Park, D.-J Yun, W.Y. Kim, M.J. Salmela, B.E. Ewers, C. Weinig, S.L. Khan, D.L.P. Schaible, & C.R. McClung. 2015. Allelic polymorphism of GIGANTEA is responsible for naturally occurring variation in circadian period in Brassica rapa.  Proc. Natl. Acad. Sci. USA 112: 3829-3834 [Full Text]

Xie, Q., P. Wang, X. Liu, L. Yuan, L. Wang, Y. Li, H. Xing, L. Zhi, Z. Yue, C. Zhao, C.R. McClung, & X. Xu. 2014. LNK1 and LNK2 are transcriptional coactivators in the Arabidopsis circadian oscillator.  Plant Cell 26:2843-2857 [Full Text]

Ng, D.W.-K., M. Miller, H.H. Yu, T.-Y. Huang, E.-D. Kim, J. Lu, Q. Xie, C.R. McClung, & Z.J. Chen. 2014. A role for CHH methylation in the parent-of-origin effect on altered circadian rhythms and biomass heterosis in Arabidopsis intraspecific hybrids.  Plant Cell 26: 2430-2440 [Full Text]

Rosas, U., Mei, Y., Xie, Q., Banta, J., Zhou, R.W., Seufferheld, G., Gerard-Martinez, S., Chou, L., Bhambhra, N., Flowers, J., McClung, C.R., Hanzawa, Y., Purugganan, M.D. 2014. Life history diversity in Arabidopsis controlled by cis-regulatory variation in CONSTANSNature Communications: 5:3561. [Full Text]

Review Articles

McClung, C.R., P. Lou, V. Hermand, & JA Kim. 2016. The importance of ambient temperature to growth and the induction of flowering. Front. Plant Sci. 7: 1266 doi 10.3389/fpls.2016.01266. [Download Full Text]

McClung, C.R. 2015. Who knows where the time goes. Nature Plants 1: 15163 doi 10.1038/NPLANTS.2015.172. [Download Full Text]

Greenham, K. & C.R. McClung. 2015. Integrating circadian dynamics with physiological processes in plants. Nature Reviews Genetics 17: doi 10.1038/nrg3976. [Download Full Text]

Gehan, M.A, K. Greenham,  T.C. Mockler & C.R. McClung. 2015. Transcriptional networks – crops, clocks, and abiotic stress. Curr. Opin. Plant Biol. 24: 39-46.  [Download Full Text]

McClung, C.R. 2014. Making Hunger Yield. Science 344: 699-700 [Download Full Text]

Greenham, K. & C.R. McClung. 2014. Temperature and the circadian clock. pp. 131-161, In: “Temperature and Plant Development,” K.A. Franklin & P. Wigge, eds. Wiley-Blackwell, Oxford, UK. [Download Full Text]

McClung, C.R. 2014. Wheels within wheels: new transcriptional feedback loops in the Arabidopsis circadian clock. F1000Prime Rep. 6: 2. [Download Full Text]

McClung, C.R. & Q. Xie. 2014. Measurement of luciferase rhythms. pp. 1-11, In: Plant Circadian Networks: Methods and Protocols, Methods Mol. Biol. 1158,” D. Staiger, ed. Springer, New York. [Full Text]

Other selected publications

Research Articles


Zhang, C., Q. Xie, R.G. Anderson, G. Ng, N.C. Seitz, T. Peterson, C.R. McClung, J.M. McDowell, D. Kong, J.M. Kwak & H. Lu. 2013. Crosstalk between the circadian clock and innate immunity in Arabidopsis. PLoS Pathogens. 9:e1003370. [Abstract] [Full Text]

Hong, S, S.A. Kim, M.L. Guerinot & C.R. McClung. 2013.Reciprocal interaction of the circadian clock with the Fe homeostasis network in Arabidopsis thalianaPlant Physiol. 161:893-903. [Abstract] [Full Text] [On The Inside]

Wang, X., F. Wu, Q. Xie, H. Wang, Y. Wang, Y. Yue, O. Gahura, S. Ma, L. Liu, Y. Cao, Y. Jiao, F. Puta, C.R. McClung, X. Xu, & L. Ma, 2012. SKIP is a component of the spliceosome linking alternative splicing and the circadian clock in ArabidopsisPlant Cell24:3278-3295. [Abstract] [Download Full Text]

Lou, P., J. Wu, F. Cheng, L.G. Cressman, X. Wang & C.R. McClung, 2012. Preferential retention of circadian clock genes during diploidization following whole genome triplication in Brassica rapaPlant Cell 24: 2415-2426. [Abstract] [Download Full Text] [In Brief]

Edwards, C.E., B.E. Ewers, C.R. McClung, P. Lou & C. Weinig, 2012. Quantitative variation in water-use efficiency across water regimes and its relationship with circadian, vegetative, reproductive, and leaf gas-exchange traits. Mol. Plant 5: 653-668. [Abstract] [Full Text]

Edwards, C.E., B.E. Ewers, D.G. Williams, Q. Xie, P. Lou, X. Xu, C.R. McClung & C. Weinig, 2011. The genetic architecture of ecophysiological and circadian traits in Brassica rapaGenetics 189: 375-390. [Abstract] [Full Text] [Supporting Online Material]

Jannat, R., M. Uraji, M. Morofuji, M.M. Islam, R.E. Bloom, Y. Nakamura & C.R. McClung, 2011. Roles of intracellular hydrogen peroxide accumulation in abscisic acid signaling in Arabidopsis guard cells. J. Plant Physiol. 168: 1919-1926. [Abstract] [Full Text][Supporting Online Material]

Lou, P., Q. Xie, X. Xu, C.E. Edwards, M.T. Brock, C. Weinig & C.R. McClung, 2011. Genetic architecture of the Brassica rapa circadian clock and flowering time. Theor. Appl. Genet.123: 397-409. [Download Full Text]

Salomé, P.A., D. Weigel & C.R. McClung. 2010. The role of the Arabidopsis morning loop componenets CCA1, LHY, PRR7, and PRR9 in temperature compensation. Plant Cell 22: 3650-3661. [Abstract] [Full Text] [Supporting Online Material]

Hong, S, H.-R. Song, K. Lutz, R.A. Kerstetter, T.P. Michael & C.R. McClung. 2010.Type II protein arginine methyltransferase 5 (PRMT5) is required for circadian period determination in Arabidopsis thalianaProc. Natl. Acad. Sci. USA. 107: 21211-21216.[Abstract] [Full Text] [Supporting Online Material]

Xu, X., Q. Xie & C.R. McClung.  2010. Robust circadian rhythms of gene expression in Brassica rapa tissue culture. Plant Physiol. 153: 841-850 [Full Text]


Jamai, A., P.A. Salomé, S.H. Schilling, A.P.M. Weber & C.R. McClung.  2009. Arabidopsis photorespiratory serine hydroxymethyltransferase activity requires the mitochondrial accumulation of ferredoxin-dependent glutamate synthase. Plant Cell 21: 595-606. [Abstract][Full Text] [Supplemental Data]

Fujiwara, S., L. Wang, L. Han, S.S. Suh, P.A. Salomé, C.R. McClung & D.E. Somers.  2008. Post-translational regulation of the circadian clock through selective proteolysis and phosphorylation of pseudo-response regulator proteins. J. Biol. Chem. 283: 23073-23083.[Abstract] [Full Text] [Supplemental Data]

Salomé, P.A., Q. Xie & C.R. McClung.  2008. Circadian timekeeping during early Arabidopsis development. Plant Physiol. 147: 1110-1125[Abstract] [Full Text] [Supporting Online Material]

Gutiérrez, R.A., T.L. Stokes, K. Thum, X. Xu, M. Obertello, M.S. Katari, M. Tanurdzic, A. Dean, D.C. Nero, C.R. McClung & G.M. Coruzzi. 2008. Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1Proc. Natl. Acad. Sci. USA. 105: 4939-4944. [Abstract] [Full Text] [Supporting Online Material]

Salomé, P.A., J.P.C. To, J.J. Kieber & C.R. McClung. 2006. Arabidopsis response regulators ARR3 and ARR4 play cytokinin-independent roles in the control of circadian period. Plant Cell 18: 55-69. [Abstract] [Full Text] [Supporting Online Material]

Voll, L.M., A. Jamai, P. Renné, H. Voll, C.R. McClung & A.P.M. Weber. 2006. The photorespiratory Arabidopsis shm1 mutant is deficient in SHM1Plant Physiol. 140: 59-66. [Abstract] [Full Text] [Supporting Online Material] [In This Issue]

Lidder, P., R.A. Gutiérrez, P.A. Salomé, C.R. McClung & P.J. Green. 2005. Circadian control of mRNA stability: association with DST-mediated mRNA decay. Plant Physiol. 138: 2374-2385. [Abstract] [Full Text] [Supporting Online Material]

Salomé, P.A. & C.R. McClung. 2005. PSEUDO-RESPONSE REGULATOR 7 and 9 are partially redundant genes essential for the temperature responsiveness of the Arabidopsis circadian clock. Plant Cell 17:791-803. [Abstract] [Full Text] [In This Issue]


Tseng, T.-S., P.A. Salomé, C.R. McClung & N.E. Olszewski. 2004. SPINDLY and GIGANTEA interact and act in Arabidopsis thaliana pathways involved in light responses, flowering and rhythms in leaf movements. Plant Cell 16:1550-1563. [Abstract] [Full Text]

Michael, T.P., P.A. Salomé, H.J. Yu, T.R. Spencer, E.L. Sharp, J.M. Alonso, J.R. Ecker & C.R. McClung. 2003. Enhanced fitness conferred by naturally occurring variation in the circadian clock. Science 302: 1049-1053. [Abstract] [Full Text] [Supporting Online Material]

Michael, T.P., P.A. Salomé & C.R. McClung. 2003. Two Arabidopsis circadian oscillators can be distinguished by differential temperature sensitivity. Proc. Natl. Acad. Sci. USA. 100: 6878-6883. [Abstract] [Full Text] [Supporting Figure]

Michael, T.P. & C.R. McClung. 2003. Enhancer trapping reveals widespread circadian clock transcriptional control in Arabidopsis thalianaPlant Physiol. 132: 629-639. [Abstract] [Full Text] [Supplementary Data] [On The Inside]

Langmead, C.J., A.K. Yan, C.R. McClung & B. R. Donald. 2003. Phase-Independent Rhythmic Analysis of Genome-Wide Expression Patterns. J. Comput. Biol. 10:521-536. [Download PDF] [Download Software]

Salomé, P.A., T.P. Michael, E.V. Kearns, A.G. Fett-Neto, R.A. Sharrock, & C.R. McClung. 2002. The out of phase 1 (oop1) mutant defines a role for PHYB in circadian phase control in Arabidopsis. Plant Physiol. 129: 1674-1685. [Abstract] [Full Text] [On The Inside]

Michael, T.P. & C.R. McClung. 2002. Phase-specific circadian clock regulatory elements in Arabidopsis thalianaPlant Physiol. 130:627-638. [Abstract] [Full Text]


McClung, C.R., Hsu, M., Painter, J.E., Gagne, J.M. Karlsberg, S.D. & P.A. Salomé. 2000. Integrated temporal regulation of the photorespiratory pathway: circadian regulation of two Arabidopsis genes encoding serine hydroxymethyltransferase. Plant Physiol. 123: 381-391. [Abstract] [Full Text]


Frugoli, J.A., M.A. McPeek, T.L. Thomas & C.R. McClung. 1998. Intron loss and gain during evolution of the catalase gene family in Angiosperms. Genetics 148: 355-365. [Abstract] [Full Text]

Zhong, H.H., J.E. Painter, P.A. Salome, M. Straume & C.R. McClung. 1998. Imbibition, but not release from stratification, sets the circadian clock in Arabidopsis seedlings. Plant Cell 10: 2005-2017. [Abstract] [Full Text]

Zhong, H.H., A.S. Resnick, M. Straume & C.R. McClung. 1997. Effects of synergistic signaling by Phytochrome A and Cryptochrome 1 on circadian clock-regulated catalase expression. Plant Cell 9:947-955. [Abstract] [Full Text]

Frugoli, J.A., H.H. Zhong, M.L. Nuccio, P. McCourt, M.A. McPeek, T.L. Thomas & C.R. McClung. 1996. Catalase is encoded by a multi-gene family in Arabidopsis thaliana (L.) Heynh. Plant Physiol. 112:327-336. [Abstract] [Full Text]

Liu, Z., C.C. Taub & C.R. McClung. 1996. Identification of an Arabidopsis Rubisco Activase (RCA) minimal promoter regulated by light and the circadian clock. Plant Physiol. 112:43-51[Abstract] [Full Text]

Zhong, H.H., & C.R. McClung. 1996. The circadian clock gates expression of two Arabidopsis catalase genes to distinct and opposite circadian phases. Mol. Gen. Genet. 251:196-203. [Abstract] [Full Text]

Zhong, H.H., J.C. Young, E.A. Pease, R.P. Hangarter & C.R. McClung. 1994. Interactions between light and the circadian clock in the regulation of CAT2 expression in ArabidopsisPlant Physiol. 104:889-898. [Abstract] [Full Text]

Pilgrim, M.L., & C.R. McClung. 1993. Differential involvement of the circadian clock in the expression of genes required for ribulose-1,5-bisphosphate carboxylase/oxygenase synthesis, assembly, and activation in Arabidopsis thalianaPlant Physiol. 103:553-564.[Abstract] [Full Text]

Pilgrim, M.L., T. Caspar, P.H. Quail & C.R. McClung. 1993. Circadian and light regulated expression of nitrate reductase in ArabidopsisPlant Mol. Biol. 23:349-364. [Abstract]

McClung, C.R., B.A. Fox & J.C. Dunlap. 1989. The Neurospora clock gene frequency shares a sequence element with the Drosophila clock gene periodNature 339:558-562. Click here to view a Nice Image.

Review Articles


McClung, C.R. 2013. Beyond Arabidopsis: The circadian clock in non-model plant species. Sem. Cell Dev. Biol. 24: 430-436. [Download Full Text]

McClung, C.R. 2011. The genetics of plant clocks. Adv. Genet. 74: 105-139. [Download Full Text]

McClung, C.R. & S.J. Davis. 2010. Ambient thermometers in plants: From physiological outputs towards mechanisms of thermal sensing. Curr. Biol. 20: R1086-R1092. [Download Full Text]

McClung, C.R. & R.A. Gutierrez. 2010. Network news: prime time for systems biology of the plant circadian clock. Curr. Opin. Genet. Dev. 20: 588-598. [Download Full Text]

McClung, C.R. 2010. A modern circadian clock in the common angiosperm ancestor of monocots and eudicots. BMC Biology 8: 55. [Abstract] [Full Text]

Kim, W.-Y., P.A. Salomé, S. Fujiwara, D.E. Somers & C.R. McClung. 2010. Characterization of Pseudo-Response Regulators in plants. Meth. Enzymol. 471: 359-380. [Full Text]


McClung, C.R. 2009. Linking the loops. Science 323: 1440-1441. [Summary] [Full Text]

McClung, C.R. 2008. Comes a time. Curr. Opin. Plant Biol. 11: 514-520. [Download Full Text]


McClung, C.R. 2006. Plant circadian rhythms. Plant Cell 18: 792-803. [Full Text]

Salomé, P.A. & C.R. McClung. 2005. What makes Arabidopsis tick: light and temperature entrainment of the circadian clock. Plant Cell Environ. 28:21-38. [Download PDF]


Salomé, P.A. & C.R. McClung. 2004. The Arabidopsis thaliana clock. J. Biol. Rhythms 19:425-435. [Download PDF]

McClung, C.R., Salomé, P.A., & T.P. Michael. 2002. The Arabidopsis Circadian System. In: The Arabidopsis Book, eds. C.R. Somerville and E.M. Meyerowitz, American Society of Plant Biologists, Rockville, MD, DOI/10.1199/tab.0044 [Full Text]

McClung, C.R. 2001. Circadian rhythms in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 52:139-162. [Download PDF]

McClung, C.R. 2000. Plant circadian clocks: a millennial view. Physiol. Plant. 109: 359-371. [Download PDF]


McClung, C.R. 1998. It’s about time: putative components of an Arabidopsis circadian clock. Trends Plant Sci. 3: 454-456. [Download PDF]

McClung, C.R. 1997. The regulation of catalase in Arabidopsis. Free Radical Biology & Medicine 23:489-496. [Download PDF]

McClung, C.R., & S.A. Kay. 1994. Circadian rhythms in the higher plant, Arabidopsis thaliana. In: C.R. Somerville & E. Meyerowitz, eds, Arabidopsis thaliana, pp. 615-637. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.

McClung, C. R. 1993. The higher plant, Arabidopsis thaliana, as a model system for the molecular analysis of circadian rhythms. In: M. Young, ed., The molecular genetics of biological rhythms, pp. 1-35. Marcel Dekker, New York.