Publications

Preprints:

1. Yen MJ#., Lin KH#., Thalimaraw L#., Yang SR#., Boonyaves K., Cheng CY., and Wu TY*. Evolutionarily Conserved Heat-Induced Chromatin Dynamics Drive Heat Stress Responses in Plants. 2025, bioRxiv.

2. Yen MJ#., Cheng CY., Wu TY*., and Liu MJ*. “TISCalling: Levering Machine Learning to Identify Translational Initiation Sites in Plants and Viruses”. 2025, bioRxiv.

3. Thalimaraw L#., Pan KC., Yen MJ#., Eo H#., Cheng CY., Liu MJ., and Wu TY*. PREDICT: Advancing Accurate Gene Expression Prediction and Motif Identification in Plant Stress Responses. bioRxiv.  

#: Lab members from TYW lab.

Research articles:

1. Krishnamoorthi S., Tan G., Dong Y., Leong R., Wu TY and Urano D. WRKY10 predefines foliar pigmentation patterns in Marchantia polymorpha. Cell Reports.

2. Wu TY*, Li YR, Chang KJ, Urano D and Liu MJ*. Modeling alternative translation sites in plants reveals evolutionarily conserved cis-regulatory codes in eukaryotes. Genome Research (accepted). *Co-corresponding author

3. Leong R., Tan JJ., Koh S., Wu TY., Ishizaki K. and Urano D. G protein signaling and metabolic pathways as evolutionarily conserved mechanisms to combat calcium deficiency (2023). New Phytologist, 237: 615-630.

4. Wu TY.*, Krishnamoorthi S., Boonyaves K., Al-Darabsah I., Richalynn L., Jones A.M., Ishizaki K., Liao KL*. And Urano D*. G protein controls stress readiness by modulating transcriptional and metabolic homeostasis in Arabidopsis thaliana and Marchantia polymorpha (2022). Molecular Plant, 15, 1889-1907. *Co-corresponding author

5. Wu TY*, Hor KL, Boonyaves K, Krishnamoorthi S and Urano D.  Diversification of heat shock transcription factors expanded thermal stress responses during early plant evolution (2022). The Plant Cell, 34 (10), 3557-3576. *Corresponding author

6. Boonyaves K, Wu TY, Dong YT and Urano D.  Interplay between ARABIDOPSIS Gβ and WRKY transcription factors differentiate environmental stress responses (2022). Plant Physiology, 190(1):813-827.

7. Akshaya K. Biswal, Ting-Ying Wu, Urano Daisuke, Pélissier Rémi, Jean-Benoit Morel, Alan M. Jones and Ajaya K. Biswal. Novel mutant alleles reveal a role of the extra-large G protein in rice grain filling, panicle architecture, plant growth, and disease resistance (2022). Frontier in Plant Science, 12:782960.

8. Wu TY*, Goh HZ, Azodi C, Krishnamoorthi S, Liu MJ, and Urano D*. Evolutionarily conserved hierarchical gene regulatory networks for plant salt stress response (2021). Nature Plants, 7:787-799. *Co-corresponding author

9. Wu TY, Mular M, Gruissem W and Bhullar N.K. Genome Wide Analysis of the Transcriptional Profiles in Different Regions of the Developing Rice Grains (2020). Rice. 13, Article number: 62.

10. Wu TY*., Krishnamoorthi S., Richalynn L., Urano D. Transcriptional crosstalk between heterotrimeric G protein and nutrient stresses regulates plant adaptation to suboptimal micronutrient conditions (2020). Journal of Experimental Botany 71 (10), 3227-3239.

11. Richalynn L., Wu TY., Jones A., Urano D., Quantitative morphological phenomics of rice and Arabidopsis G protein mutants are not consistent with a direct regulatory role in development. (2019), Developmental Biology, 457 (1), 83-90.

12. Mangel N, Fudge JB, Li KT, Wu TY, Tohge T, Fernie AR, Szurek B, Fitzpatrick TB, Gruissem W, Vanderschuren H. Enhancement of vitamin B6 levels in rice expressing Arabidopsis vitamin B6 biosynthesis de novo genes (2019). The Plant Journal., 99(6):1047-1065.

13. Shih YJ, Chang HC, Tsai MC, Wu TY, Wu TC, Kao P, Kao WY and Chang IF. Comparative leaf proteomic profiling of salt-treated natural variants of Imperata cylindrica (2018). Taiwania, vol.63 no.2 pp.171-18.

14. Wu TY, Gruissem W, and Bhullar N.K. Targeting intracellular transport combined with efficient uptake and storage significantly increases grain iron and zinc levels in rice (2019). Plant Biotechnology Journal, 17 (1), 9-20.

15. Wu TY, Gruissem W, and Bhullar N.K. Facilitated citrate-dependent iron translocation increases rice endosperm iron and zinc concentrations (2018). Plant Science. 270, 13–22.

16. Boonyaves K., Wu TY, Gruissem W, and Bhullar N.K. Enhanced grain iron levels in rice expressing an IRON-REGULATED METAL TRANSPORTER, NICOTIANAMINE SYNTHASE and FERRITIN gene cassette (2017). Frontier in Plant Science. 8:130.

17. Wu, T.Y., Kao, P., Chang, C.L., Hsu, P.H., Chou, C.H., Chang, I.F. (2015). Phosphoproteomic profiling of microsomal fractions in leaves of Cogon grass (Imperata cylindrica). Plant OMICS. 8(6):595-603.

18. Wu TY1, Juan YT1, Hsu YH, Wu SH, Liao HT, Fung RW, Charng YY. Interplay between Heat Shock Proteins HSP101 and HSA32 Prolongs Heat Acclimation Memory Posttranscriptionally in Arabidopsis (2013). Plant Physiology 161: 2075-2084. 1Co-first author.

Review and commentary articles:

19. Dong Y., Wu TY and Urano D. Heterotrimeric G proteins in crop improvement (2023). Molecular Plant (accepted).

20. Wu TY* and Urano D. Genetic and systematic approaches toward G protein-coupled abiotic stress signaling in plants (2018). Frontier in Plant Science, 9.

Book Chapter:

21. Ping Kao, Ting-Ying Wu and Ing-Feng Chang. Decreasing of Population Size of Imperata cylindrica Mangrove Ecotype and Sea-Level Rising (2011). Global Warming Impacts- Case Studies on the Economy, Human Health and on Urban and National Environments, Chapter 12, ISBN: 978-953-307-785-7.