Publication

Kim K, Choi G (2025) FAR1-RELATED SEQUENCE 5 prevents photobleaching under short days by balancing chlorophyll biosynthetic gene expression. Plant Physiol. doi: 10.1093/plphys/kiaf475

Jeong J., Lee Y. & Choi G (2025) Both phytochrome A and phyB interact with PHYTOCHROME-INTERACTING FACTORs through an evolutionary conserved phyOPM-APA interaction. Nat Commun 16, 3946. doi: 10.1038/s41467-025-59327-8 

Cho S, Choi G (2025) Phytochrome B regulates cortical microtubule arrangement to control cotyledon polar expansion by repressing LONGIFOLIAs. Plant Physiol. doi: 10.1093/plphys/kiaf162

Kim H*, Lee N*, Kim Y, Choi G (2024) The phytochrome-interacting factor genes PIF1 and PIF4 are functionally diversified due to divergence of promoters and proteins. Plant Cell. doi: 10.1093/plcell/koae110 (*Contributed equally)

Kwon Y, Kim C, Choi G (2024) Phytochrome B photobody components. New Phytol. doi: 10.1111/nph.19675

Hur YS, Oh J, Kim N, Kim S, Son O, Kim J, Um JH, Ji Z, Kim MH, Ko JH, Ohme-Takagi M, Choi G, Cheon CI (2024) Arabidopsis transcription factor TCP13 promotes shade avoidance syndrome-like responses by directly targeting a subset of shade-responsive gene promoters. J Exp Bot. doi: 10.1093/jxb/erad402

Jeon J, Rahman MM, Yang HW, Kim J, Gam HJ, Song JY, Jeong SW, Kim JI, Choi MG, Shin DH, Choi G, Shim D, Jung JH, Lee IJ, Jeon JS, Park YI (2023) Modulation of warm temperature-sensitive growth using a phytochrome B dark reversion variant, phyB[G515E], in Arabidopsis and rice. J Adv Res. doi: 10.1016/j.jare.2023.11.001

Kim C*, Kwon Y*, Jeong J, Kang M, Lee GS, Moon JH, Lee HJ, Park YI, Choi G (2023) Phytochrome B photobodies are comprised of phytochrome B and its primary and secondary interacting proteins. Nat Commun. 14(1):1708. doi: 10.1038/s41467-023-37421-z. (*Contributed equally)

Kim N, Jeong J, Kim J, Oh J, Choi G (2023) Shade represses photosynthetic genes by disrupting the DNA binding of GOLDEN2-LIKE1. Plant Physiol. doi: 10.1093/plphys/kiad029  

 Kim H, Kim J, Choi G (2023) Epidermal phyB requires RRC1 to promote light responses by activating the circadian rhythm. New Phytol. doi: 10.1111/nph.18746

 Costigliolo Rojas C, Bianchimano L, Oh J, Romero Montepaone S, Tarkowská D, Minguet EG, Schön J, García Hourquet M, Flugel T, Blázquez MA, Choi G, Strnad M, Mora-García S, Alabadi D, Zurbriggen MD, Casal JJ (2022) Organ-specific COP1 control of BES1 stability adjusts plant growth patterns under shade or warmth. Dev Cell. 57(16):2009-2025. doi: 10.1016/j.devcel.2022.07.003   

 Kim DH, Lee SW, Moon H, Choi D, Kim S, Kang H, Kim J, Choi G, Huq E (2022) ABI3- and PIF1-mediated regulation of GIG1 enhances seed germination by detoxification of methylglyoxal in Arabidopsis. Plant J. 110(6):1578-1591. doi: 10.1111/tpj.15755

 Le DD, Kim W, Lim S, Kim SC, Choi G (2021) Identification of three groups of ginsenoside biosynthetic UDP-glycosyltransferases from Gynostemma pentaphyllum. Plant Sci. doi: 10.1016/j.plantsci.2021.111069

 Song K, Lee DW, Kim J, Kim J, Guim H, Kim K, Jeon JS*, Choi G* (2021) EARLY STARVATION 1 Is a Functionally Conserved Protein Promoting Gravitropic Responses in Plants by Forming Starch Granules. Front Plant Sci. doi: 10.3389/fpls.2021.628948

 Kim C, Kim SJ, Jeong J, Park E, Oh E, Park YI, Lim PO, Choi G (2020) High Ambient Temperature Accelerates Leaf Senescence via PHYTOCHROME-INTERACTING FACTOR 4 and 5 in Arabidopsis. Mol Cells. 43(7):645-661. doi: 10.14348/molcells.2020.0117 

Kim S, Hwnag G, Kim S, Thi TN, Kim H, Jeong H, Kim J, Choi G, Oh E. (2020) The epidermis coordinates thermoresponsive growth through the phyB-PIF4-auxin pathway. Nature Commun., doi: 10.1038/s41467-020-14905-w 

Oh J*, Park E*, Song K, Bae G, Choi G (2019) PHYTOCHROME INTERACTING FACTOR 8 inhibits phytochrome A-mediated far-red light responses in Arabidopsis.  Plant Cell, doi: 10.1105/tpc.19.00515 (*contributed equally)

Song K and Choi G (2019) Phytochrome regulation of seed germination. Methods Mol Biol, 2026:149-156

Rahimi S, Kim J, Mijakovic I, Jung KH, Choi G, Kim SC, Kim YJ (2019) Triterpenoid-biosynthetic UDP-glycosyltransferases from plants. Biotechnol Adv, 37(7):107394

Park E*, Kim Y*, Choi G (2018) Phytochrome B Requires PIF Degradation and Sequestration to Induce Light Responses Across a Wide Range of Light Conditions. Plant Cell, doi: 10.1105/tpc.17.00913 (*contributed equally)

Lee YK, Rhee JY, Lee SH, Chung GC, Park SJ, Segami S, Maeshima M, Choi G (2018) Functionally redundant LNG3 and LNG4 genes regulate turgor-driven polar cell elongation through activation of XTH17 and XTH24. Plant Mol Biol, 97(1-2):23-36  

Sakuraba Y, Bülbül S, Piao W, Choi G, Paek NC (2017) Arabidopsis EARLY FLOWERING3 increases salt tolerance by suppressing salt stress response pathways. Plant J, 92(6):1106-1120 

Park YH, Lee N, Choi G, Park JK (2017) Plant array chip for the germination and growth screening of Arabidopsis thaliana. Lab Chip, 17(18):3071-3077

Park J, Oh DH, Dassanayake M, Nguyen KT, Ogas J, Choi G, Sun TP (2017) Gibberellin Signaling Requires Chromatin Remodeler PICKLE to Promote Vegetative Growth and Phase Transitions. Plant Physiol, 173(2):1463-14743

Lee N, Choi G (2017) Phytochrome-Interacting Factor from Arabidopsis to liverwort. Curr Opin Plant Biol. 35, 54-60. doi: 10.1016/j.pbi.2016.11.004

 Kim J, Song K, Park E, Kim K, Bae G, Choi G (2016) Epidermal phytochrome B non-cell autonomously inhibits hypocotyl negative gravitropism in Arabidopsis. Plant Cell. 28(11):2770-2785. doi: 10.​1105/​tpc.​16.​00487

 Kim K, Jeong J, Kim J, Lee N, Kim ME, Lee S, Chang Kim S, Choi G (2016) PIF1 regulates plastid development by repressing photosynthetic genes in the endodermis. Mol Plant. 9(10):1415-1427. doi: 10.1016/j.molp.2016.08.007

 Jeong J, Kim K, Kim ME, Kim HG, Heo GS, Park OK, Park YI, Choi G*, Oh E* (2016) Phytochrome and Ethylene Signaling Integration in Arabidopsis oOcurs via the Transcriptional Regulation of Genes Co-targeted by PIFs and EIN3. Front Plant Sci. doi: 10.3389/fpls.2016.01055 (*co-corresponding author)

 Kim J*, Kang H*, Park J, Kim W, Yoo J, Lee N, Kim J, Yoon TY, Choi G (2016) PIF1-Interacting Transcription Factors and their Binding Sequence Elements Determine the in Vivo Targeting sites of PIF1. Plant Cell. 8 28(6):1388-405. doi: 10.1105/tpc.16.00125 (*contributed equally)

 Nguyen KT*, Park J*, Park E, Lee I, Choi G (2015) The Arabidopsis RING-domain protein BOI inhibits flowering via CO-dependent and CO-independent mechanisms. Mol Plant. 8(12):1725-36. doi: 10.1016/j.molp.2015.08.005 (*contributed equally)

 Lee N, Park J, Kim K, Choi G (2015) The transcriptional co-regulator LEUNIG HOMOLOG inhibits light-dependent seed germination. Plant Cell. 27(8):2301-13. doi: 10.1105/tpc.15.00444

 Jung SC, Kim W, Park SC, Jeong J, Park MK, Lim S, Lee Y, Im WT, Lee JH, Choi G*, Kim SC* (2014) Two Ginseng UDP-Glycosyltransferases Synthesize Ginsenoside Rg3 and Rd. Plant Cell Physiol. 55, 2177-2188, doi:10.1093/pcp/pcu147 (*co-corresponding author)

 Sakuraba Y*, Jeong J*, Kang MY, Kim J, Paek NC*, Choi G* (2014) Phytochrome-interacting factors PIF4 and PIF5 induce leaf senescence in Arabidopsis. Nature Commun. doi:10.1038/ncomms5636. (*contributed equally & co-corresponding)

 Lee N, Kang H, Lee D, Choi G (2014) A histone methyltransferase inhibits seed germination by increasing PIF1 mRNA in imbibed seeds. Plant J. 78, 282-293. doi: 10.1111/tpj.12467

 Lim S, Park J, Lee N, Jeong J, Toh S, Watanabe A, Kim J, Kang H, Kim DH, Kawakami N, Choi G (2013) ABA-INSENSITIVE3, ABA-INSENSITIVE5, and DELLAs Interact to Activate the Expression of SOMNUS and Other High-Temperature-Inducible Genes in Imbibed Seeds in Arabidopsis. Plant Cell, 25, 4863-4878. doi: 10.1105/tpc.113.118604 (*contributed equally)

 Vaistij FE, Gan Y, Penfield S, Gilday AD, Dave A, He Z, Josse EM, Choi G, Halliday KJ, Graham IA (2013) Differential control of seed primary dormancy in Arabidopsis seed ecotypes by the transcription factor SPATULA. PNAS, 110, 10866-10871. doi: 10.1073/pnas.1301647110 

Shin DH, Choi M, Kim K, Bang G, Cho M, Choi SB, Choi G, Park YI (2013) HY5 regulates anthocyanin biosynthesis by inducing the transcriptional activation of the MYB75/PAP1 transcription factor in Arabidopsis. FEBS Lett. 587, 1543-1547

 Jeong J, Choi G (2013) Phytochrome-Interacting Factors have both shared and distinct biological roles. Mol Cells. 35, 371-380 

Park J*, Nguyen KT*, Park E, Jeon JS, Choi G (2013) DELLA proteins andtheir interacting RING finger proteins repress GA responses by binding to the promoters of a subset of GA-responsive genes. Plant Cell. 25, 927-43. (*contributed equally)

 Kim W, Lee Y, Park J, Lee N, Choi G (2013) HONSU, a protein phosphatase 2C, Regulates Seed Dormancy by Inhibiting Abscisic Acid Signaling in Arabidopsis. Plant Cell and Physiol. 54, 555-572 

Shin, D.H., Choi, M.-G., Lee, H.K., Cho, M., Choi, S.-B., Choi, G., and Park, Y.-I. (2013) Calcium dependent sucrose uptake links sugar signaling to anthocyanin biosynthesis in Arabidopsis. BBRC 430, 634-639

Das, P.K., Shin, D.H., Choi, S.B., Yoo, S.-D., Choi, G., and Park Y.-I. (2012) Cytokinins enhance sugar-induced anthocyanin biosynthesis in Arabidopsis. Mol Cells 34, 93-101

Heo, Y., Oh, E., Choi, G., Liang, Z., and Wang, Z. (2012) Interactions between HLH and bHLH factors modulate light-regulated plant development. Mol Plant 5, 688-697

Park, E., Park, J., Nagatani, A., Lagarias, J.C., and Choi, G. (2012) Phytochrome B inhibits binding of phytochrome-interacting factors to their target promoters. Plant J. 72, 537-46

Paik, I., Yang, S., and Choi, G. (2012) Phytochrome regulates translation of mRNA in the cytosol. PNAS, 109, 1335-1340

Park, J.*, Lee, N.*, Kim, W., Lim, S., and Choi, G. (2011) ABI3 and PIL5 collaboratively activate the expression of SOMNUS by directly binding to its promoter in imbibed Arabidopsis seeds. Plant Cell, 23, 1404-1415 (*contributed equally)

Kim, K., Shin, J. Lee, S.-H., Kweon, H.-S., Maloof, J.N., and Choi, G. (2011) Phytochromes inhibit hypocotyl negative gravitropism by regulating the development of endodermal amyloplasts through PIFs. PNAS, 108, 1729-1734 

Jeong, S.-W., Das, P.K., Jeoung, S.C., Song, J.-Y., Lee, H.K., Kim, Y.-K., Kim, W.J., Park, Y.I., Yoo, S.-D., Choi, S.-B., Choi, G., and Park, Y.-I. (2010) Ethylene suppression of sugar-induced anthocyanin pigmentation in arabidopsis. Plant Physiol., 154, 1514-1531

Kang, H., Oh, E., Choi, G., and Lee D. (2010) Genome-wide DNA-binding specificity of PIL5, an Arabidopsis basic Helix-Loop-Helix (bHLH) transcription factor. Int J Data Min Bioinform, 4, 588-599.

Kwon, C.S., Lee, D., Choi, G., and Chung W.I. (2009) Histone occupancy-dependent and -independent removal of H3K27 trimethylation at cold-responsive genes in Arabidopsis. Plant J., 60, 112-121

Shin, J.*, Kim, K.*, Kang, H., Zulfugarov, I., Bae, G., Lee, C.H., Lee, D., and Choi, G. (2009) Phytochromes promote seedling light responses by inhibiting four negatively acting phytochrome-interacting factors. PNAS, 106, 7660-7665 (*contributed equally)

Oh, E.*, Kang, H.*, Yamaguchi, S*. Park, J., Lee, D. Kamiya, Y., and Choi, G. (2009) Genome-wide analysis of PIL5 direct target genes in phytochrome-mediated seed germination. Plant Cell, 21, 403-419 (*contributed equally)

Seo, M., Nambara, E., Choi, G., and Yamaguchi, S. (2009) Interaction of light and hormone signals in germinating seeds. Plant Mol. Biol., 69, 463-472

Kim, D. Yamaguchi, S. Lim, S., Oh, E., Park, J., Hanada, A., Kamiya, Y., and Choi, G. (2008) SOMNUS, a CCCH-type Zinc Finger Protein in Arabidopsis, Negatively Regulates Light-Dependent Seed Germination Downstream of PIL5. Plant Cell, 20, 1260-1277

Bae, G. and Choi, G. (2008) Decoding of light signals by plant phytochromes and their interacting proteins. Ann. Rev. Plant Biol. 59, 281-311

Chang, C.S., Li, Y.H., Chen, L.T., Chen, W.C., Hsieh, W.P., Shin, J., Jane, W.N., Chou, S.J., Choi, G., Hu, J.M., Sommerville, S., and Wu, S.H. (2008) LZF1, a HY5-regulated transcription factor, functions in Arabidopsis deetiolation. Plant J. 54, 205-219

Hanumappa, H., Choi, G., Ryu, S., and Choi, G. (2007) Modulation of Flower color by rationally designed dominant-negative chalcone synthase. J. Exp. Bot. 58, 2471-2478

Oh, E., Yamaguchi, S., Hu, J., Yusuke, J., Jung, B., Paik, I., Lee, H.-S., Sun, T.-p, Kamiya, Y., and Choi, G. (2007) PIL5, a phytochrome-interacting bHLH protein, regulates gibberellin responsiveness by directly binding to the GAI and RGA promoters in Arabidopsis seeds. Plant Cell, 19, 1192-1208

Yoon, M.-K., Kim, H.-M., Choi, G., Lee, J.-O., and Choi, B. (2007) Structural basis for the conformational integrity of the Arabidopsis thaliana HY5 leucine zipper homodimer. J. Biol. Chem. 282, 12989-13002

Shin, J., Park, E., and Choi, G. (2007) PIF3 regulates anthocyanin biosynthesis in a HY5-dependent manner with both factors directly binding to anthocyanin biosynthetic gene promoters in Arabidopsis. Plant J. 49, 981-994

Lee, Y.K., Kim, I.-J., Kim, G.-T., Park, J., Kwak, S.-S., Choi, G.*, Chung, W.-I.* (2006) LONGIFOLIA1 and LONGIFOLIA2, two homologous genes, regulate longitudinal cell elongation in Arabidopsis. Development 133, 4305-4314 (* Choi, G. and Chung, W.-I. are co-corresponding authors)

Yoon, M.-K., Shin, J., Choi, G., Choi, B.-S. (2006) The N-terminal domain of bZIP transcription factor HY5 is intrinsically unstructured. Proteins 65, 856-866

Oh, E., Yamaguchi, S., Kamiya, Y., Bae, G., Chung, W.-I., Choi, G. (2006) Light activates the degradation of PIL5 protein to promote seed germination through gibberellin in Arabidopsis. Plant J. 47, 124-139

Mandaokar, A., Thines, B., Shin, B., Lange, B.M., Choi, G., Koo, Y.J., Yoo, Y.J., Choi, Y.D., Choi, G.*, and Browse, J.* (2006) Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling. Plant J. 46, 984-1008 (*Choi, G. and Browse, J. are co-corresponding authors. With cover page photo)

Lee, Y. Yoon, H.R., Paik, Y.S., Liu, J.R., Chung, W.-I., and Choi, G. (2005) Reciprocal regulation of UGT78D2 and BANYULS is critical for regulation of the metabolic flux of anthocyanidins to condenssed tannins in developing seed coat. J. Plant Biol. 48, 356-370

Choi, G., Kim, J.-I., Hong, S.-W., Shin, B., Choi, G., Blakeslee, J.J., Murphy, A.S., Seo, Y.W., Kim, K., Koh, E.-J., Song, P.S., and Lee, H. (2005) A possible role for NDPK2 in the regulation of auxin-mediated responses for plant growth and development . Plant Cell Physiol. 46, 1246-1254

Oh, E., Kim, J., Park, E., Kim, J-I, Kang, C., and Choi, G. (2004) PIL5, a phytochrome interacting basic helic-loop-helix protein, is a key negative regulator of seed germination in Arabidopsis. Plant Cell 16, 3045-3058

Park, E., Kim, J., Lee, Y., Shin, J., Oh, E., Chung, W.-I., Liu, J.R., and Choi, G. (2004) Degradation of phytochrome interacting factor 3 in phytochrome-mediated light signaling. Plant Cell Physiol. 45, 968-975

Kim, J., Yi, H., Choi, G., Shin, B., Song, P., and Choi, G. (2003) Functional characterization of PIF3 in phytochrome-mediated light signal transduction. Plant Cell 15, 2399-2407 

Moon, H., Lee, B., Choi, G., Shin, D., Prasad, D.T., Lee, O., Kwak, S.S., Kim, D.H., Nam, J., Bahk, J., Hong, J.C., Lee, S.Y., Cho, M.J., Lim, C.O., and Yun, D.J. (2003) NDP kinase 2 interacts with two oxidative stress-activated MAPKs to regulate cellular redox state and enhances multiple stress tolerance in transgenic plants. Proc. Natl. Acad. Sci. 100, 358-363

Shin, B., Choi, G., Yi, H., Yang, S., Cho, I., Kim, J., Lee, S., Paek, N.-C., Kim, J.-H., Song, P.-S., and Choi, G. (2002) AtMYB21, a gene encoding a flower specific transcription factor, is regulated by COP1. Plant J. 30, 23-32  

Johnson, E.T., Ryu, S., Yi, H., Shin, B., Cheong, H., and Choi, G. (2001) Alteration of a single amino acid changes the substrate specificity of dihydroflavonol 4-reducatase. Plant J. 25, 325-333  

Choi, G., Yi, H., Lee, J. Kwon, Y.-K., Soh, M.S., Shin, B., Luka, Z., Hahn, T.-R., and Song, P.-S. (1999) Phytochrome signaling is mediated through nucleoside diphosphate kinase 2. Nature 401, 610-613  

Johnson, E.T., Yi, H., Shin, B., Oh, J., Cheong, H., and Choi, G. (1999) Cymbidium hybrida dihydroflavonol 4-reductase does not efficiently reduce dihydrokaempferol to produce pelargonidin-type orange anthocyanins. Plant J. 19, 81-86 

Choi, G., Przybylska, M., and Straus D. (1996) Three germ line specific transcripts in Volvox carteri encode photosynthetic proteins. Curr. Genet., 30, 347-355

Patents

Choi, G., Kim, D.H. (2012) SOMNUS 또는 이와 기능적 동등물의 세포내 수준을 조절하여 식물의 종자의 발아를 변화시키는 방법. 10-1131865 (Korea)

Choi, G., Chung, W.-I., Lee, Y.K. (2008) Method for modifying the morphology of plants by controlling the level of LNG2 in cell. 10-0803330 (Korea)

Choi, G., Chung, W.-I., Lee, Y.K. (2008) Method for modifying the morphology of plants by controlling the level of LNG1 or functional equivalents thereof in cell. 10-0803320 (Korea)

Choi, G., Hanumappa, M., and Choi, G. (2006) Genetic sequences encoding dominant-negatice chalcone synthase and uses therefore. 7,049,427 (USA)

Choi, G., Johnson, E.T., Yi, H., and Shin, B. (2003) Genetic sequences encoding substrate specific dihdroflavonol 4-reductase and uses therefore. 6,465,630; 6,555,734; 6,660,908 (USA)