top of page


          Nat. Commun. 14, 8009. (2023)

          Jiang H-W, Wu H-Y, Wang C-H, Yang C-H, Ko J-T, Ho H-C, Tsai M-D, Bryant DA, Li F-W, Ho M-C#, Ho M-Y# (#co-corresponding author)

          Ko, J.-T.,  Li, Y.-Y.,  Chen, P.-Y.,  Liu, P.-Y., &  Ho, M.-Y. 

          Plant, Cell and Environment 46, 2507-2522. (2023) ​

          Tseng, B.-S., Huang, C.-C., King , Y.-C., Wu, M.-T., Hsieh, C.-H., Hsieh, K,-T., Hsing, Y.-I., Jeng., S,-T,*  

          Plant Science, 329: 111598. (2023)

          Tsai, W.-A., Sung, P.-H., Kuo, Y.-W., Chen, M.-C., Jeng, S.-T.*, Lin, J.-S.*

       PLOS Genetics 19(5): e1010779. (2023) 

          Jiang HW, Peng KC, Hsu TY, Chiou YC, Hsieh HL*

       Frontiers in Plant Science 14: 1093472. (2023)  

       Silamparasan D., Chang I.F., and Jinn T.L.*

          ACS Synth. Biol.accepted.  (2023)

          Liu T-S*, Wu K-F*, Jiang H-W, Chen K-W, Nien T-S, Bryant DA, Ho M-Y.  (*co-first author)

          Appl. Environ. Microbiol. 88, e00562-22. (2022)

          Nien T-S, Bryant DA, Ho M-Y 

  • Arabidopsis histone H3 lysine 9 methyltransferases KYP/SU

  • VH5/6 are involved in leaf development by interacting with AS1-AS2 to repress KNAT1 and KNAT2. 

          Commun. Biol., 6:219. (2023) 

          Hung, F.Y., Feng, Y.R., Hsin, K.T., Shih, Y.H., Chang, C.H., Zhong, W., Lai, Y.C., Xu, Y., Yang, S., Sugimoto, K., Cheng, Y.S., Wu, K.*

          Plant Physiology.(2023)

          Kai-Chun Peng, Wei Siao and Hsu-Liang Hsieh*

          Genome Biology. (2023) 

          Chia-Chun Tung, Shang-Che Kuo, Chia-Ling Yang, Jhong-He Yu, Chia-En Huang, Pin-Chien Liou, Ying-Hsuan Sun, Peng Shuai,

          Jung-Chen Su, Chuan Ku & Ying-Chung Jimmy Lin.

  • Allopatric Lineage Divergence of the East Asian Endemic Herb Conandron ramondioides Inferred from Low-Copy Nuclear and Plastid Markers. 

          Int. J. Mol. Sci. 23:14932. (2022) 

         Hsin, K.T., Kuo, H.C., Kokubugata, G., Möller, M., Wang, C.N.*, Cheng, Y.S.* 

          Frontiers in Plant Science (2022)

          Hsieh C, Chen YH, Chang KC and Yang SY*​

       Environmental and Experimental Botany (22 October 2022).

         Chen, Y.-J., Cheah, B.H., Lin, C.-Y., Ku, Y.-T., Kuo, C.-H., Zhang, Y.-Y., Chen, B.-R., Nean, O., Hsieh, C.-H., Yeh, P.-M., Yeo, F.K.S.,              Ling, Y.-P., Chuang, W.-P., Lee, C.-R., Ting, H.-M.*

  • Arbuscular mycorrhizal symbiosis enhances tomato lateral root formation by modulating CEP2 peptide expression.

New Phytol. 31 March 2022.

Hsieh, Y.-H., Wei, Y.-H., Lo, J.-C., Pan, H.-Y. and Yang, S.-Y.*

  • Insight into the Phylogeny and Binding Ability of WRKY Transcription Factors.

Int. J. Mol. Sci. 7 March 2022.

Hsin, K.T., Hsieh, M.C., Lee, Y.H., Lin, K.C., Cheng, Y.S.*

  • Impacts of Mn, Fe, and Oxidative Stressors on MnSOD Activation by AtMTM1 and AtMTM2 in Arabidopsis.

Plants. 24 February 2022.

Hu S.-H. Hu and Jinn T.-L.*

  • Guard Cell-Specific Pectin METHYLESTERASE53 Is Required for Abscisic Acid-Mediated Stomatal Function and Heat Response in Arabidopsis.

Front. Plant Sci., 21 February 2022.

Wu H.-C., Yu S.-Y., Wang Y.-D. and Jinn T.-L.*

  • Screening Three Single-copy Nuclear Markers to Infer Population Divergence in Conandron ramondioides (Gesneriaceae).

Journal of the National Taiwan Museum. December 2021.

Hsin, K.T., Wang, C.N., Cheng, Y.S.*

  • CFM6 is an Essential CRM Protein Required for the Splicing of nad5 Transcript in Arabidopsis Mitochondria.

Plant and Cell Physiology, pcab161, 10 November 2021.

Lin, W.-C., Chen, Y.-H., Gu, S.-Y., Shen, H.-L., Huang, K.-C., Lin, W.-D., Chang, M.-C., Chang, I.-F.* , Hong, C.-Y., Cheng, W.-H.


  • Arabidopsis glutamate receptor GLR3.7 is involved in abscisic acid response.

Plant Signal Behav. 2021 Nov 12:1997513.

Chen P.Y., Hsu C.Y., Lee C.E., Chang I.F.*

  • Significance of AtMTM1 and AtMTM2 for Mitochondrial MnSOD Activation in Arabidopsis.

Front. Plant Sci., 06 August 2021

Hu, S.-H., Lin, S.-F., Huang, Y.-C., Huang, C.-H., Kuo, W.-Y. and Jinn, T.-L.*

  • Ecological factors influence balancing selection on leaf chemical profiles of a wildflower.

Nat. Ecol. Evol. 17 June 2021

Carley, L.N., Mojica, J.P., Wang, B., Chen, C.-Y., Lin, Y.-P., Prasad, K.V.S.K., Chan, E., Hsu, C.-W., Keith, R., Nuñez, C.L., Olson-Manning, C.F., Rushworth, C.A., Wagner, M.R., Wang, J., Yeh, P.-M., Reichelt, M., Ghattas, K., Gershenzon, J., Lee, C.-R.*, and Mitchell-Olds, T.

  • Phylogenetic and Structural Analysis of NIN-Like Proteins With a Type I/II PB1 Domain That Regulates Oligomerization for Nitrate Response.

Front. Plant Sci. 12:672035. 31 May 2021​

Hsin, K.T., Yang, T.J., Lee, Y.H. and Cheng, Y.S.*

  • A novel thylakoid-less isolate fills a billion-year gap in the evolution of Cyanobacteria.

Curr. Biol. 13 May 2021

Rahmatpour N. , Hauser D.A. , Nelson J.M. , Chen P.Y. , Villarreal A. J. C. , Ho M.-Y.*, Li F.-W.

  • Inhibitor development of MTH1 via high-throughput screening with fragment based library and MTH1 substrate binding cavity.

Bioorg. Chem. Volume 110, May 2021, 104813

Peng Cheng, Li Y.-H., Yu C.W., Cheng Z.-H., Liu J.-R., Hsu J.-L., Hsin L.-W., Huang C.-T., Juan H.-F., Chern J.-W., Cheng Y.-S.*


  • An effective computational‐screening strategy for simultaneously improving both catalytic activity and thermostability of α‐l‐rhamnosidase.

Biotechnol. Bioeng. 20 March 2021

Li Lijun, Li Wenjing, Gong Jianye, Xu Yanyan, Wu Zheyu, Jiang Zedong, Cheng Y.‐S., Li Qingbiao, Ni Hui


  • The Arabidopsis histone demethylase JMJ28 regulates CONSTANS by interacting with FBH transcription factors.

Plant Cell, koab014, 25 January 2021

Hung F.Y., Lai Y.C., Wang J., Feng Y.R., Shih Y.H., Chen J.H., Sun H.C., Yang S.*, Li C.*, Wu K.*

  • Sensitive and Specific Cadmium Biosensor Developed by Reconfiguring Metal Transport and Leveraging Natural Gene Repositories.

ACS Sens. 6:995-1002. January 14, 2021

He M.-Y., Lin Y.-J., Kao Y.-L.,Kuo P.,Grauffel C., Lim C.,Cheng Y.-S., Chou H.-H. David*

  • Elucidation of enzymes involved in the biosynthetic pathway of bioactive polyacetylenes in Bidens pilosa using integrated omics approaches.

J. Exp. Bot. eraa457, 16 October 2020​.

Chung, H.-H.#, Ting, H.-M.#, Wang, W.-H., Chao, Y.-T., Hsieh, C.-H., Apaya, M.K., Sung, Y.-C., Lin, S.-S., Hwu, F.-Y., and Shyur, L.-F. (# Co-first author).

  • The expression of long non-coding RNAs is associated with H3Ac and H3K4me2 changes regulated by the HDA6-LDL1/2 histone modification complex in Arabidopsis.

NAR Genom. Bioinform., Vol. 2, Issue 3, September 2020.

Hung F.-Y. , Chen C., Yen M.-R., Hsieh J.-W. A., Li C., Shih Y.-H., Chen F.-F., Chen P.-Y., Cui Y., Wu K.*

  • Structure of Arabidopsis HISTONE DEACETYLASE15.

Plant Physiol​. Sep 2020.

Chen, C.-Y., Tu, Y.-T., Hsu, J.-C., Hung, H.-C., Liu, T.-C., Lee, Y.-H., Chou, C.-C., Cheng, Y.-S.*, and Wu, K.*

  • Structural insights into Arabidopsis ethylene response factor 96 with an extended N-terminal binding to GCC box.

Plant Mol Biol. Aug 2020.

Chen, C.-Y., Lin, P.-H., Chen, K.-H. Cheng, Y.-S.*

  • HDA6 dependent chromatin deacetylation orchestrates mRNA polyadenylation.

Genome Res. Aug 2020.​

Lin, J., Hung, F.-Y., Ye, C., Hong, L., Shih, Y.-H., Wu, K.*, and Li, Q.Q.

  • Regulation of micoRNA2111 and its target IbFBK in sweet potato on wounding

Plant Sci. March 2020, 110391

Weng S.-T., Kuo Y.-W., King Y.-C., Lin H.-H., Tu P.-Y., Tung K.-S., Jeng S.-T.*

  • Long-read bitter gourd (Momordica charantia) genome and the genomic architecture of nonclassic domestication.

P.N.A.S. Jun 2020, 117 (25) 14543-14551. Matsumura H., Hsiao M.-C., Lin Y.-P., Toyoda A., Taniai N., Tarora K., Urasaki N., Anand S. S. , Dhillon N. P. S. , Schafleitner R., Lee C.-R.*

  • Glucosinolate Transporter1 involves in salt-induced jasmonate signaling and alleviates the repression of lateral root growth by salt in Arabidopsis.

Plant Sci. 2020 August.​ Kuo H-Y, Kang F-C, Wang Y-Y.*

  • STRESS INDUCED FACTOR 2 Regulates Arabidopsis Stomatal Immunity Through Phosphorylation of the Anion Channel SLAC1.

Plant Cell. [published online ahead of print, 2020 Apr 23]. Chan C., Panzeri D., Okuma E., Tõldsepp K., Wang Y.-Y, Louh G.-Y., Chin T.-C., Yeh Y.-H., Yeh H.-L., Yekondi S., Huang Y.-H., Huang T.-Y., Chiou T.-J., Murata Y., Kollist H., Zimmerli L.


  • Arabidopsis JMJ29 is involved in trichome development by regulating the core trichome initiation gene GLABRA3.

Plant J. 2020 May 23. Hung FY, Chen JH, Feng YR, Lai YC, Yang S, Wu K.*

  • Histone demethylase SlJMJ6 promotes fruit ripening by removing H3K27 methylation of ripening‐related genes in tomato.

New Phytol. 07 April 2020.

Li, Z., Jiang, G., Liu, X., Ding, X., Zhang, D., Wang, X., Zhou, Y., Yan, H., Li, T., Wu, K.*, Jiang, Y. and Duan, X.


  • The Role of a Glucosinolate-Derived Nitrile in Plant Immune Responses.

Front. Plant Sci., 10 March 2020

Ting, H.M.*, Cheah, B.H., Chen, Y.C., Yeh, P.M., Cheng, C.P., Yeo, F.K.S., Vie, A.K., Rohloff, J., Winge, P., Bones, A.M., and Kissen, R.

  • SWI3B and HDA6 interact and are required for transposon silencing in Arabidopsis.

Plant J. 2019 December 27. Yang J., L. Yuan, M.‐R. Yen, F. Zheng, R. Ji, T. Peng, D. Gu, S. Yang, Y. Cui, P.‐Y. Chen, K. Wu*, X. Liu


  • The Glutamate Receptor-Like Protein GLR3.7 Interacts With 14-3-3ω and Participates in Salt Stress Response in Arabidopsis thaliana.

Front. Plant Sci. September 2019. Wang, P.H., Lee, C.E., Lin, Y.S., Lee, M.H., Chen, P.Y., Chang, H.C., Chang, I.F.*


  • Regulation of ABI5 expression by ABF3 during salt stress responses in Arabidopsis thaliana.

Bot Stud. August 2019. Chang, H.C., Tsai, M.C., Wu, S.S., Chang, I.F.*

  • Temperature Stress and Redox Homeostasis: The Synergistic Network of Redox and Chaperone System in Response to Stress in Plants.

Heat Shock Proteins. 2019

Wu HC., Vignols F., Jinn TL.*

  • MicroR408 regulates defense response upon wounding in sweet potato.

J. Exp. Bot. 2019

Kuo, Y.W., Lin, J.S., Li, Y.C., Jhu M.Y., King, Y.C., Jeng, S.T.*

  • The p38-like MAP kinase modulated H2O2 accumulation in wounding signaling pathways of sweet potato.

Plant Sci. 2019

Lin, H.H., King Y.C., Li, Y.C., Lin, C.C., Chen, Y.C., Lin, J.S., Jeng, S.T.*

  • Volatile DMNT systemically induces jasmonate-independent direct anti-herbivore defense in leaves of sweet potato (Ipomoea batatas) plants.

Sci. Rep.​ 2019. Meents, A. K., Chen, S. P., Reichelt, M., Lu, H. H., Bartram, S., Yeh, K. W.*, Mithofer, A.

  • Plant Cytosolic Ascorbate Peroxidase with Dual Catalytic Activity Modulates Abiotic Stress Tolerances​.

iScience. 2019. Chin, D. C., Senthilkumar R., Suen, C. S., Chien, C. Y., Hwang, M. J., Hsu, C. H., Xuhan, X., Lai, Z. X., Yeh, K. W.​*


  • Environmental biosafety assessment on transgenic  Oncidium orchid modified by RNA interference  of Phytoene Synthase genes.

Plant Biotechnol. 2019. Ko, S. S., Liu, Y. C., Chung, M. C., Shih, M. C., Mohammadmehdi H., Oguchi T., Watanabe K. N., Yeh K. W.*

  • Piriformospora indica-induced phytohormone changes and root colonization strategies are highly host-specific.

Plant Signal Behav. 2019. Liu, H., Senthilkumar, R,, Ma, G., Zou, Q., Zhu, K., Shen, X., Tian, D., Hua, M. S., Oelmüller, R., Yeh, K. W.*

  • Growth promotion and disease resistance induced in Anthurium colonized by the beneficial root endophyte Piriformospora indica.

BMC Plant Biol. 2019. Lin, H. F., Xiong, J., Zhou, H. M., Chen, C. M., Lin, F. Z., Xu, X. M., Oelmüller, R., Xu, W. F., Yeh, K. W.*


  • Petal‐specific RNAi‐mediated silencing of the phytoene synthase gene reduces xanthophyll levels to generate new Oncidium orchid varieties with white‐colour blooms.

Plant Biotechnol. J. 2019. Liu, Y. C., Yeh, C. W., Chung, J. D., Tsai, C. Y., Chiou, C. Y., Yeh, K. W.*

  • A novel synthetic-genetic-array based yeast one-hybrid system for high discovery rate and short processing time.

Genome Research. 2019 Chung-Shu Yeh, Zhifeng Wang, Fang Miao, Hongyan Ma, Chung-Ting Kao, Tzu-Shu Hsu, Jhong-He Yu, Er-Tsi Hung, Chia-Chang Lin, Chen-Yu Kuan, Ni-Chiao Tsai, Chenguang Zhou, Guan-Zheng Qu, Jing Jiang, Guifeng Liu, Jack P Wang, Wei Li, Vincent L Chiang, Tien-Hsien Chang and Ying-Chung Lin*. (5-yr IF: 11.638; R/C: 3.8% in GENOME RESEARCH).


  • Histone Acetylation Cooperating with AREB1 Transcription Factor Regulates Drought Response and Tolerance in Populus trichocarpa.

The Plant Cell 2018. DOI:
Shuang Li, Ying-Chung Jimmy Lin* (co-first author), Pengyu Wang, Baofeng Zhang, Meng Li, Su Chen, Rui SHI, Sermsawat Tunlaya-Anukit, Xinying Liu, Zhifeng Wang, Xiufang Dai, Jing Yu, Chenguang Zhou, Baoguang Liu, Jack P. Wang, Vincent L. Chiang, Wei Li.

  • NINJA-Associated ERF19 Negatively Regulates Arabidopsis Pattern-Triggered Immunity.

J Exp Bot. 2018 Nov 21. doi: 10.1093/jxb/ery414.

Huang PY, Zhang J, Jiang B, Chan C, Yu JH, Lu YP, Chung K, Zimmerli L.*

  • Pectin methylesterases: cell wall remodeling proteins are required for plant response to heat stress.

Frontiers in Plant Science, 06 November 2018, doi: 10.3389/fpls.2018.01612

Wu H.C., Bulgakov V.P. and Jinn T.L.*

  • MicroR408 regulates defense response in sweet potato upon wounding.

JExB. 2018. ery381-ery381. doi:10.1093/jxb/ery381.

Kuo, Y.-W., J.-S. Lin, Y.-C. Li, M.-Y. Jhu, Y.-C. King, S.-T. Jeng.*

  • Comparative leaf proteomic profiling of salt-treated natural variants of Imperata cylindrica

Taiwania. 2018 June; 63: 171-182.

  • The Arabidopsis LDL1/2-HDA6 histone modification complex is functionally associated with CCA1/LHY in regulation of circadian clock genes.

Nucleic Acids Res. 2018 August; gky749-gky49. doi:10.1093/nar/gky749.

F.-Y. Hung, F.-F. Chen, C. Li, C. Chen, Y.-C. Lai, J.-H. Chen, Y. Cui, K.Wu*.

  • Nonredundant functions of Arabidopsis LecRK-V.2 and LecRK-VII.1 in controlling stomatal immunity and jasmonate-mediated stomatal closure.

New Phytol. 2018 Apr; 218 (1) :253-268. doi: 10.1111/nph.14953. Epub 2017 Dec 18.

Yekondi S, Liang FC, Okuma E, Radziejwoski A, Mai HW, Swain S, Singh P, Gauthier M, Chien HC, Murata Y, Zimmerli L.


  • Nitrate transport, signaling and use efficiency.

Annu. Rev. Plant Biol. 69:85-122. (Co-first author)

Y.-Y. Wang, Y.-H. Cheng, K.-E. Chen, and Y.-F. Tsay* (2018)

  • FIN219/JAR1 and cryptochrome1 antagonize each other to modulate photomorphogenesis under blue light in Arabidopsis.

PLOS Genetics. March 21, 2018

Huai-Ju Chen, Tsu-Yu Fu, Shao-Li Yang, Hsu-Liang Hsieh* (2018)​

  • FAR-RED INSENSITIVE 219/JAR1 contributes to shade avoidance responses of Arabidopsis seedlings by modulating key shade signaling components.

​Frontiers in Plant Science.2017 Nov 02; 8:1901. 
Swain S, Jiang HW and Hsieh HL*

  • Using Silicon Polymer Impression Technique and Scanning Electron Microscopy to Measure Stomatal Aperture, Morphology, and Density.

Bio-protocol. 2017 Aug 20;7: e2449. doi: 10.21769/BioProtoc.2449.
Wu HC, Huang YC, Liu CH, Jinn TL*

  • ISTONE DEACETYLASE6 Acts in Concert with Histone Methyltransferases SUVH4, SUVH5, and SUVH6 to Regulate Transposon Silencing.

Plant Cell. 2017 Aug 4. pii: tpc.00570.2016. doi: 10.1105/tpc.16.00570. [Epub ahead of print]
Yu CW, Tai R, Wang SC, Yang P, Luo M, Yang S, Cheng K, Wang WC, Cheng YS, Wu K*

  • Pectin methylesterase is required for guard cell function in response to heat.

Plant Signal Behav. 2017 Jun 3. 12(6):e1338227. doi: 10.1080/15592324
Wu HC, Huang YC, Stracovsky L.,Jinn TL*​

  • Identification of HDA15-PIF1 as a key repression module directing the transcriptional network of seed germination in the dark.

Nucleic Acids Res. 2017 Apr 21. doi: 10.1093/nar/gkx283. [Epub ahead of print]
Gu D, Chen CY, Zhao M, Zhao L, Duan X, Duan J*, Wu K*, Liu X*

  • Metabolomic compounds identified in Piriformospora indica-colonized Chinese cabbage roots delineate symbiotic functions of the interaction.

Sci Rep 7, 9291.
​Hua, M.D., Senthil Kumar, R., Shyur, L.F., Cheng, Y.B., Tian, Z., Oelmuller, R., and Yeh, K.W. (2017)

  • PECTIN METHYLESTERASE34 contributes to Heat tolerance through its role in promoting stomatal movement.

Plant Physiol. 2017 Apr 5. 174(2):748-763. doi: 10.1104/pp.17.00335.
Huang YC, Wu HC, Wang YD, Liu CH, Lin CC, Luo DL, Jinn TL*

  • Young inversion with multiple linked QTLs under selection in a hybrid zone.

Nature Ecology & Evolution. 2017 April 3.
Lee CR*, Wang B, Mojica JP, Mandakova T, Prasad KVSK, Goicoechea JL, Perera N, Hellsten U, Hundley HN, Johnson J, Grimwood J, Barry K, Fairclough S, Jenkins JW, Yu Y, Kudrna D, Zhang J, Talag J, Golser W, Ghattas K, Schranz ME, Wing R, Lysak MA, Schmutz J, Rokhsar DS and Mitchell-Olds T*

  • Structural basis of jasmonate-amido synthetase FIN219 in complex with glutathione S-transferase FIP1 during the JA signal regulation.

Proc Natl Acad Sci USA. 2017 Mar 7;114(10):E1815-E1824. doi: 10.1073/pnas.1609980114. Epub 2017 Feb 21.
​Chen CY, Ho SS, Kuo TY, Hsieh HL, Cheng YS*

  • On the post-glacial spread of human commensal Arabidopsis thaliana.

Nat Commun. 2017 Feb 9;8:14458. doi: 10.1038/ncomms14458.
Lee CR*, Svardal H, Farlow A, Exposito-Alonso M, Ding W, Novikova P, Alonso-Blanco C, Weigel D, Nordborg M*


  • UBC18 mediates ERF1 degradation under light-dark cycles.

New Phytol. 2017 Feb;213(3):1156-1167.
Cheng MC, Kuo WC, Wang YM, Chen HY, Lin TP*

  • Nitric oxide participates in plant flowering repression by ascorbate.

Sci Rep 6, 35246.
​Senthil Kumar, R., Shen, C.H., Wu, P.Y., Suresh Kumar, S., Hua, M.S., and Yeh, K.W.(2016)


bottom of page