User:Matthew A. Jones

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Matt Jones

Contact Info

Harmer Lab,

1002 Life Sciences Addition,

UC Davis,

One Shields Avenue,

Davis, CA 95616


Research interests

The circadian clock acts to optimise the cellular behaviour of an organism so that it corresponds with the predictable environmental variation induced by the diurnal cycle. Whilst extensive genetic analyses have identified multiple genes involved in the plant circadian clock the precise mechanism by which these factors interact remains unclear. My current work involves characterisation of additional components of the plant circadian clock which will provide further insight into the workings of the central oscillator.


Some of the feedback loops that form the Arabidopsis circadian clock. See [1] for more detail


Thesis text

My graduate studies focused upon the plant blue light photoreceptor phototropin. Phototropin light sensitivity is derived from the action of two highly conserved regions known as LOV domains which upon light absorption induce activity of an integral serine/threonine kinase. My project examined the mechanism by which the LOV domains regulate kinase activity. I was able to show that the introduction of a point mutation within the second LOV domain was sufficient to mitigate light-mediated phototropin kinase activation.

Awards and Scholarships


  1. Rawat R, Takahashi N, Hsu PY, Jones MA, Schwartz J, Salemi MR, Phinney BS, Harmer SL (2011)REVEILLE8 and PSEUDO-REPONSE REGULATOR5 Form a Negative Feedback Loop within the Arabidopsis Circadian Clock. PLoS Genet 7(3): e1001350 [2]
  2. Jones MA, Harmer SL (2011) JMJD5 Functions in Concert with TOC1 in the Arabidopsis Circadian System. Plant Signal Behav 6(3):445-448[3]
  3. Jones MA, Covington MF, Ditacchio L, Vollmers C, Panda S, Harmer SL (2010) Jumonji Domain Protein JMJD5 Functions in Both the Plant and Human Circadian Systems. PNAS 107(50):21623-21628 [4]
  4. Kaiserli E, Sullivan S, Jones MA, Feeney KA, Christie JM (2009) Domain Swapping to Assess the Mechanistic Basis of Arabidopsis Phototropin 1 Receptor Kinase Activation and Endocytosis by Blue Light. Plant Cell 21:3226-3244 [5]
  5. Rawat R, Schwartz J, Jones MA, Sairanen I, Cheng Y, Andersson CR, Zhao Y, Ljung K, Harmer SL (2009) REVEILLE1, a Myb-like transcription factor, integrates the circadian clock and auxin pathways. PNAS 106 (39):16883-16888 [6]
  6. Jones MA (2009). Entrainment of the Arabidopsis Circadian Clock. J Plant Biol 52(3): 202-209 [7]
  7. Sullivan S, Thomson CE, Lamont DJ, Jones MA, Christie JM (2008) In vivo phosphorylation site mapping and functional characterization of Arabidopsis phototropin 1. Mol Plant 1(1):178–194 [8]
  8. Jones MA, Christie JM (2008) Phototropin receptor kinase activation by blue light. Plant Signal Behav 3(1):44‐46 [9]
  9. Jones MA, Feeney KA, Kelly SM, Christie JM (2007) Mutational analysis of phototropin 1 provides insights into the mechanism underlying LOV2 signal transmission J Biol Chem 282(9):6405-14 [10]