John J. Harada

John Harada

Position Title

Department of Plant Biology, College of Biological Sciences

2163 Life Sciences Addition

Research Interests

Genomic, molecular, genetic, and biochemical, dissection of embryogenesis and seed development in plants.

Grad Group Affiliations

  • Biochemistry, Molecular, Cellular and Developmental Biology
  • Integrative Genetics and Genomics
  • Plant Biology

Specialties / Focus

  • Cell and Developmental Biology
  • Developmental Biology
  • Gene Regulation
  • Genomics, Proteomics and Metabolomics
  • Model Plants
  • Molecular Biology, Biochemistry and Genomics
  • Molecular Genetics
  • Plant Molecular Biology


  • PLB 112 Plant Growth and Development, Winter
  • PLB 113 Molecular and Cellular Biology of Plants, Spring
  • SAS 70A Genetic Engineering in Medicine, Agriculture, and Law (distance learning with UCLA and Tuskegee University), Winter
  • PBI 292 NAIST - UC Davis Graduate Journal Club (distance learning with Japanese University), Winter

Honors and Awards

  • Elected Fellow, American Association for the Advancement of Science
  • Academic Senate Distinguished Award for Undergraduate Teaching, UC Davis
  • Fellow, American Society of Plant Biologists
  • Honorary Professor, Nara Institute of Science and Technology

    Professional Societies

    • American Association for the Advancement of Science
    • American Society for Plant Biologists
    • International Association of Sexual Plant Reproduction Research
    • Society for the Advancement of Chicanos and Native Americans in Science


    • 1975 BS Biochemistry University of California, Los Angeles
    • 1981 PhD Biochemistry University of Washington


    Pelletier, J.M. Kwong, R.W., Park, S., Le, B.H., Baden, R., Cagliaria, A., Hashimoto, M., Munoz, M.D., Fischer, R.L., Goldberg, R.B., and Harada, J.J. (2017).  LEC1 sequentially regulates the transcription of genes involved in diverse developmental processes during seed development.  Proc. Natl. Acad. Sci. USA 114: E6710

    Douglass, S., Hsu, S.H., Cokus, S., Goldberg, R.B., Harada, J.J., and Pellegrini, M. (2016).  A naive Bayesian classifier for identifying plant miRNAs.  Plant J. 86: 481-492

    Danzer, J. Mellott, E., Bui, A.Q., Le, B.H., Martin, P., Hashimoto, M., Perez-Lesher, J. Chen, M., Pelletier, J.M., Somers, D.A., Goldberg, R.B., and Harada, J.J. (2015).  Downregulating the expression of 53 soybean transcription factor genes uncovers a role for SPEECHLESS in initiating stomatal cell lineages during embryo development.  Plant Physiol. 168: 1025-1035.

    Khan, D., Millar, J.L., Girard, I.J., Chan, A., Kirkbride, R.C., Pelletier, JM.., Kost, S., Becker, M.G., Yeung, E.C. Stasolla, C., Goldberg, R.B., Harada, J.J., Belmonte, M.F. (2015).  Transcriptome atlas of the Arabidopsis funiculus - a study of maternal seed subregions.  Plant J. 82: 41-53.

    Becker, M.G., Hsu, S.-W., Harada, J.J., and Belmonte, M.F. (2014).  Genomic dissection of the seed.  Front. Plant Sci., in press

    Hsu, Y.F., Chen, Y.C., Hsiao, Y.C., Wang, B.J., Lin, S.Y., Cheng, W.H., Jauh, G.Y., Harada, J. and Wang, C.S. (2013).   AtRH57, a DEAD-box RNA helicase, is involved in feedback inhibition of glucose-mediated abscisic acid accumulation during seedling development and additively affects pre-ribosomal RNA processing with high glucose.  Plant J. 77: 119-135.

    Kirkbride, R.C., Fischer, R.L., and Harada, J.J. (2013). LEAFY COTYLEDON1, a Key Regulator of Seed Development, Is Expressed in Vegetative and Sexual Propagules of Selaginella moellendorffii. PloS One 8:e67971

    Belmonte, M.F., Kirkbride, R.C., Stone, S.L., Pelletier, J.M., Bui, A.Q., Yeung, E.C., Hashimoto, M., Fei, J., Harada, C.M., Munoz, M.D., Le, B.H., Drews, G.N., Brady, S.M., Goldberg, R.B., and Harada, J.J. (2013). Comprehensive developmental profiles of gene activity in regions and subregions of the Arabidopsis seed. Proc. Natl. Acad. Sci. USA 110: E435-E444

    Harada, J.J. and Pelletier, J.M. (2012). Genome-wide analyses of gene activity during seed development. Seed Sci. Res. 22: S15-S22

    Tang, X.R., Lim, M.H., Pelletier, J. Tang, M.J., Nguyen, V. Keller, W.A., Tsang, E.W.T., Wang, A.M., Rothstein, S.J. Harada, J.J., and Cui, Y.H. (2012).  Synergistic repression of the embryonic programme by SET DOMAIN GROUP 8 and EMBRYONIC FLOWER 2 in Arabidopsis seedlings.  J. Exp. Bot. 63: 1391-1404.

    Hsieh, T.F., Shin, J., Uzawa, R., Silva, P., Cohen, S., Bauer, M.J., Hashimoto, M., Kirkbride, R.C., Harada, J.J., Zilberman, D. and Fischer, R.L. (2011). Regulation of imprinted gene expression in Arabidopsis endosperm. Proc. Natl. Acad. Sci. USA 108: 1755-1762.

    Le, B.H., Cheng, C., Bui, A.Q., Wameister, J.A., Henry, K.F., Pelletier, J., Kwong, L., Belmonte, M., Kirkbride, R., Horvath, S., Drews, G.N., Fischer, R.L., Okamuro, J.K., Harada, J.J., and Goldberg, R.B. (2010). Global analysis of gene activity during Arabidopsis seed development and identification of seed-specific transcription factors. Proc. Natl. Acad. Sci. USA. 107: 8063-8070.

    Hsu, S.C., Belmonte, M.F., Harada, J.J., and Inoue, K. Indispensable roles of plastids in Arabidopsis thaliana embryogenesis. (2010).  Curr. Genomics, 11: 338-349.
    Harada, J.J; Belmonte, M.F.;and Kwong, R.W. (2010).  Plant Embryogenesis (Zygotic and Somatic). Encyclopedia of Life Sciences DOI: 10.1002/9780470.
    Bradford, K.J. and Harada, J.J. (2010).  Introduction to translational seed biology: from model systems to crop improvement. Plant Science, 179: 553-553.

    Ohto, M.-A., Floyd, S.K., Fischer, R.L., Goldberg, R.B. and Harada, J.J. (2009). Effects of APETALA2 on embryo, endosperm, and seed coat development determine seed size in Arabidopsis. Sex Plant Reprod 22: 277-289.

    Walia H, Josefsson C, Dilkes B, Kirkbride R, Harada J, Comai L. (2009).  Dosage dependent deregulation of an AGAMOUS-LIKE gene cluster contributes to interspecific incompatibility. Curr Biol, 19(13): 1128-32
    Tang X, Hou A, Babu M, Nguyen V, Hurtado L, Lu Q, Reyes JC, Wang A, Keller WA, Harada JJ, Tsang EW, Cui Y. (2008).  The Arabidopsis BRAHMA chromatin-remodeling ATPase is involved in repression of seed maturation genes in leaves.  Plant Physiol, 147(3): 1143-57.

    Braybrook, S.A. and Harada, J.J. (2008). LECs go crazy in embryo development. Trends Plant Sci. 13: 624-630.

    Stone, S. L., Braybrook, S. A., Paula, S. L., Kwong, L. W., Meuser, J., Pelletier, J., Hsieh, T. F., Fischer, R. L., Goldberg, R. B., and Harada, J. J. (2008). Arabidopsis LEAFY COTYLEDON2 induces maturation traits and auxin activity: Implications for somatic embryogenesis. Proc. Natl. Acad. Sci. USA 105: 3151-3156.

    Park, S. and Harada, J.J. (2007). Arabidopsis Embryogenesis. In: Methods in Plant Embryogenesis (M.F.Suarez Marin and P. Bozhkov, eds). Humana Press, Totowa, pp. 3-16.

    Garcês, H., Champagne, C., Townsley, B., Park, S., Malho, R.M., Pedroso, M., Harada, J., and Sinha, N. (2007). Evolution of asexual reproduction in leaves of the genus Kalanchoë. Proc. Natl. Acad. Sci. USA 104: 15578-15583.