Selected Publications

Hirose, Y., Rockwell, N.C., Martin, S.S., Narikawa, R., Inomata, K., Lagarias, J.C. and Ikeuchi, M. (2013) Green/red cyanobacteriochromes regulate complementary chromatic acclimation via a protochromic photocycle. Proceedings of the National Academy of Sciences (USA) 110, 4974-4979. [abstract]

Duanmu, D., Casero, D., Dent, R.M., Gallaher, S., Yang, W., Rockwell, N.C., Martin, S.S., Pellegrini, M., Niyogi, K.K., Merchant, S.S., Grossman, A.R. and Lagarias, J.C. (2013) Retrograde bilin signaling enables Chlamydomonas greening and phototrophic survival. Proceedings of the National Academy of Sciences (USA) 110, 3621-3626. [abstract]

Hu, W., Franklin, K.A., Sharrock, R.A., Jones, M.A., Harmer, S. L. and Lagarias, J.C. (2013) Unanticipated regulatory roles for Arabidopsis phytochromes revealed by null mutant analysis. Proceedings of the National Academy of Sciences (USA) 110, 1542-1547. [abstract]

Kim, P.W., Pan, J., Rockwell, N.C., Chang, C-W., Taylor, K.C., Lagarias, J.C. and Larsen, D.S. (2012) Ultrafast E to Z Photoisomerization Dynamics of Phytochrome Cph1. Chemical Physics Letters 549, 86-92. [abstract]

Park, E., Park, J., Kim, J., Nagatani, A., Lagarias, J.C. and Choi, G (2012) Phytochrome inhibits binding of Phytochrome-Interacting Factors to their target promoters. Plant Journal 72, 537-546. [abstract]

Freer, L.H., Kim, P.W., Corley, S.C., Rockwell, N.C., Zhao, L., Thibert, A.J., Lagarias, J.C. and Larsen, D.S. (2012) Chemical Inhomogeneity in the Ultrafast Dynamics of the DXCF Cyanobacteriochrome Tlr0924. Journal of Physical Chemistry 116, 10571-81. [abstract]

Rockwell, N.C., Martin, S.S., and Lagarias, J.C. (2012) Mechanistic Insight into the Photosensory Versatility of DXCF Cyanobacteriochromes, Biochemistry 51, 3576-3585. [abstract]

Rockwell, N.C., Martin, S.S., Gulevich, A.G. and Lagarias, J.C. (2012) Phycoviolobilin formation and spectral tuning in DXCF cyanobacteriochromes, Biochemistry, 51, 1449-1463. [abstract]

Kim, P.W., Freer, L.H. Rockwell, N.C., Martin, S.S., Lagarias, J.C. and Larsen, D.S. (2012) Second-Chance Forward Isomerization Dynamics of the Red/Green Cyanobacteriochrome NpR6012g4 from Nostoc punctiforme. J. Am. Chem. Soc. 134, 130-133. [abstract]

Rockwell, N.C, Martin, S.S., Feoktistova, K. and Lagarias, J.C. (2011) Diverse two-cysteine photocycles in phytochromes and cyanobacteriochromes Proc. Natl. Acad. Sci. (USA) 108, 11854-11859. [abstract]

Song, J-Y., Cho, H.S., Cho, J-I., Jeon, J.S., Lagarias, J.C. and Park, Y-I. (2011) A Near Ultraviolet Cyanobacteriochrome Signaling System Elicits Negative Phototaxis in the Cyanobacterium Synechocystis sp. PCC 6803 Proc. Natl. Acad. Sci. (USA) 108, 10780-10785. [abstract]

Shang, L., Rockwell, N.C., Martin S.S. and Lagarias, J.C. (2010) Biliverdin amides reveal roles for propionate side chains in bilin reductase recognition and in holophytochrome assembly and photoconversion. Biochemistry 49, 6070-6082. [abstract]

Kohler, A.C., Gae, D.D., Richley, M.A., Stoll, S., Gunn, A., Lim, S., Martin, S.S., Doukov, T.I., Britt, R.D., Ames, J.B., Lagarias, J.C. and Fisher, A.J. (2010) Structural basis for hydration dynamics in radical stabilization of bilin reductase mutants. Biochemistry 49, 6206-6218. [abstract]

Rockwell, N.C. and Lagarias, J.C. (2010) A brief history of phytochromes. ChemPhysChem 11, DOI: 10.1002/cphc.200900894. [abstract]

Hagiwara, Y., Sugishima, M., Khawn, H., Kinoshita, H., Inomata, K., Shang, L., Lagarias, J.C., Takahashi, Y., and Fukuyama, K. (2010) Structural insights into vinyl reduction regiospecificity of phycocyanobilin:ferredoxin oxidoreductase (PcyA). J. Biol. Chem. 285, 1000-1007. [abstract]

Spillane, K.M., Dasgupta, J., Lagarias, J.C. and Richard A. Mathies (2009) Homogeneity of phytochrome Cph1 vibronic absorption revealed by resonance Raman intensity analysis. J. Am. Chem. Soc. 131, 13946-13948. [abstract]

Rockwell, N.C, Shang, L., Martin, S.S. and Lagarias, J.C. (2009) J.C. Distinct classes of red/far-red photochemistry within the phytochrome superfamily. Proc. Natl. Acad. Sci. (USA) 106, 6123-6127. [abstract]

Stoll, S., Gunn, A., Brynda, M., Sughrue, W., Kohler, A., Ozarowski, A., Fisher, A., Lagarias, J.C. and Britt, R.D. (2009) The structure of the biliverdin radical intermediate in phycocyanobilin:ferredoxin oxidoreductase identified by high-field EPR and DFT. J. Am. Chem. Soc. 131, 1986-1995. [abstract]

Dasgupta, J., Frontiera, R.R., Taylor, K.C., Lagarias, J.C. and Mathies, R. A. (2009) Ultrafast Excited state isomerization in phytochrome revealed by femtosecond stimulated Raman spectroscopy. Proc. Natl. Acad. Sci. (USA) 106, 1784-1789 [abstract]

Hu, W., Su, Y-S. and Lagarias, J.C. (2009) A light-independent allele of phytochrome B faithfully recapitulates photomorphogenic transcriptional networks. Molecular Plant, 2, 166-182; doi:10.1093/mp/ssn086 [abstract]

Stoll, S., Gunn, A., Brynda, M., Sughrue, W., Kohler, A., Ozarowski, A., Fisher, A., Lagarias, JC.; and Britt, R. D. (2009) The structure of the biliverdin radical intermediate in phycocyanobilin:ferredoxin oxidoreductase identified by high-field EPR and DFT. J. Am. Chem. Soc. 131, 1986-1995. [abstract]

Rockwell, N.C., Njuguna, S.L., Dwojak, S., Castillo, E., Roberts, L., Parson, V.L, Lagarias, J.C, and Spiller, S.S. (2008) A second conserved GAF domain cysteine is required for the blue/green photoreversibility of cyanobacteriochrome Tlr0924 from Thermosynechococcus elongatus. Biochemistry, 47, 7304-7316. [abstract]

Su, Y-S. and Lagarias, J.C. (2007) Light independent phytochrome signaling mediated by dominant GAF-domain tyrosine mutants of Arabidopsis phytochromes in transgenic plants, Plant Cell (USA) 19, 2124–2139. [abstract]

Rockwell, N. C., and Lagarias, J.C. (2007) HOMOLMAPPER: Visualizing homology on a known protein structure. BMC Bioinformatics, 8:123, doi:10.1186/1471-2105-8-123. [abstract]

Rockwell, N. C., Su, Y-S., and Lagarias, J.C. (2006) Phytochrome structure and signaling mechanisms, Annual Review of Plant Biology 57, 837-858. [abstract]

Miller, A.E., Fischer, A.J., Laurence, T.A., Hollars, C.W., Saykally, R.J., Lagarias, J.C. and Huser,T. (2006) Single molecule dynamics of phytochrome-bound fluorophores probed by fluorescence correlation spectroscopy. Proc. Natl. Acad. Sci. (USA) 103, 11136-11141. [abstract]

Rockwell, N. C., and Lagarias, J.C. (2006) The structure of phytochrome. A picture is worth a thousand spectra. Plant Cell 18, 4-14. [abstract]

Tu, S-L., Sughrue, W. L., Britt, R.D. and Lagarias, J.C. (2006) A conserved histidine-aspartate pair is required for exovinyl reduction of biliverdin by a cyanobacterial phycocyanobilin:ferredoxin oxidoreductase. J. Biol. Chem. 281, 3127-3136. [abstract]

Fischer, A.J., Rockwell, N.C., Jang, A., Ernst, L., Waggoner, A., Duan, Y., Lei, H-X. and Lagarias, J.C. (2005) Multiple roles of a conserved GAF domain tyrosine residue in cyanobacterial and plant phytochromes. Biochemistry 44, 15203-15215. [abstract]

Fischer, A.J. and Lagarias, J.C. (2004) Harnessing Phytochrome's Glowing Potential. Proc. Natl. Acad. Sci (USA) 101, 17334-17339. [abstract]

Tu, S-L., Gunn, A., Toney, M.D., Britt, R.D. and Lagarias, J.C. (2004) Biliverdin reduction by cyanobacterial phycocyanobilin:ferredoxin oxidoreductase (PcyA) proceeds via linear tetrapyrrole radical intermediates. J. Am. Chem. Soc. 126, 8682-8693. [abstract]

Kami, C., Mukougawa, K., Muramoto, T., Yokota, A., Shinomura, T., Lagarias, J.C. and Kohchi, T. (2004) Complementation of Phytochrome Chromophore-Deficient Arabidopsis by Expression of Phycocyanobilin:Ferredoxin Oxidoreductase Proc. Natl. Acad. Sci (USA) 101, 1099-1104. [abstract]

Terauchi, K., Montgomery, B.L., Grossman, A.R., Lagarias, J.C., and Kehoe, D.M. (2004) RcaE is a Complementary Chromatic Adaptation Photoreceptor Required for Green and Red Light Responsiveness Molecular Microbiology 51, 567-577. [abstract]

Franklin, K.A., Linley, P.J., Montgomery, B.L., Lagarias, J.C., Thomas, B., Jackson, S.D. and Terry, M.J. (2003) Misregulation of the tetrapyrrole biosynthesis in transgenic tobacco expressing mammalian biliverdin reductase. Plant Journal 35, 717-728. [abstract]

Frankenberg, N. and Lagarias J.C. (2003) Phycocyanobilin:ferredoxin oxidoreductase (PcyA) of Anabaena sp. PCC 7120. Biochemical and spectroscopic characterization. J. Biol. Chem. 278, 9219-9226. [abstract]

Montgomery, B.L. and Lagarias, J.C. (2002) Phytochrome ancestry: Sensors of bilins and light. Trends in Plant Sciences 7, 357-66. [abstract]

Frankenberg, N., Mukougawa, K., Kohchi, T., and Lagarias J.C. (2001) Functional Genomic Analysis of the HY2 Family of Ferredoxin-Dependent Bilin Reductases from Oxygenic Photosynthetic Organisms Plant Cell 13, 965-978. [abstract]

McDowell, M.T. and J.C. Lagarias (2001) Purification and biochemical properties of phytochromobilin synthase (Biliverdin:Ferredoxin 2,3-oxidoreductase) from etiolated oat seedlings. Plant Physiol.126, 1546-1554.
[abstract]

Gambetta, G.A., and Lagarias, J.C. (2001) Genetic engineering of phytochrome biosynthesis in bacteria. Proc. Natl. Acad. Sci. 98, 10566-10571. [abstract]

Kohchi, T., Mukougawa, K., Frankenberg, N., Masuda, M., Yokota, A., and Lagarias, J.C. (2001) The Arabidopsis HY2 gene encodes phytochromobilin synthase, a ferredoxin-dependent biliverdin reductase. Plant Cell 13, 425-436. [abstract]

Montgomery, B.L., K. A. Franklin, M.J. Terry, B. Thomas, S. Jackson, M.W. Crepeau, and J.C. Lagarias (2001) Biliverdin reductase induced phytochrome chromophore-deficiency in transgenic Nicotiana tabacum cv. Maryland Mammoth. Plant Physiol. 125, 266-277. [abstract]

Andel, F. III, J.T. Murphy, J. A. Haas, M.T. McDowell, I.van der Hoef, J. Lugtenburg, J.C. Lagarias and R.A. Mathies (2000) Probing the photoreaction mechanism of phytochrome through analysis of resonance Raman vibrational spectra of recombinant analogs. Biochemistry 39, 2667-2676. [abstract]

Wu, S-H. and J.C. Lagarias. (2000) Defining the bilin lyase domain: Lessons from the extended phytochrome superfamily, Biochemistry 39, 13487-13495. [abstract]

Montgomery, B.L., K-C. Yeh, M.W. Crepeau, and J.C. Lagarias (1999) Modification of distinct aspects of photomorphogenesis via targeted expression of mammalian biliverdin reductase in transgenic Arabidopsis plants. Plant Physiol. 121, 629-639. [abstract]

Fankhauser, C., K.-C. Yeh, J. C. Lagarias, H. Zhang, T. D. Elich and J. Chory (1999) PKS1, a substrate phosphorylated by phytochrome that modulates light signaling in Arabidopsis.Science 284, 1539-1541. [abstract]

Nozue, K., T. Kanegae, T. Imaizumi, S. Fukuda, H. Okamoto, K-C.Yeh, J.C.Lagarias and M. Wada (1998) A novel phytochrome from the fern Adiatum with features of NPH1. Proc. Natl. Acad. Sci (USA) 95, 15826-15830. [abstract]

Yeh, K.-C., and Lagarias, J. C. (1998) Eukaryotic Phytochromes: Light-Regulated Serine/Threonine Protein Kinases with Histidine Kinase Ancestry. Proc. Natl. Acad. Sci. USA 95, 13976-13981. [abstract]

Lagarias, D.M., M.W. Crepeau, M.D. Maines and J.C. Lagarias (1997) Regulation of photomorphogenesis by expression of mammalian biliverdin reductase in transgenic Arabidopsis plants. Plant Cell 9, 675-788. [abstract]

Murphy, J.T. and J.C. Lagarias (1997) The Phytofluors: A New Class of Fluorescent Protein Probes. Current Biology 7: 870-876. [abstract]

Murphy, J.T. and J.C. Lagarias (1997) Purification and characterization of recombinant affinity peptide-tagged oat phytochrome A. Photochemistry and Photobiology 65, 750-758. [abstract]

Wu, S-H. , M.T. McDowell and J.C. Lagarias (1997) Phycocyanobilin is the natural chromophore precursor of phytochrome in the green alga Mesotaenium caldariorum. J. Biol. Chem. 272, 25700-25705. [abstract]

Yeh, K-C., S-H. Wu, J. T. Murphy and J. C. Lagarias (1997) A cyanobacterial phytochrome two-component light sensory system. Science 277, 1505-1508. [abstract]