Publications
(*: Corresponding author; (g): graduate student; (u): undergraduate student; (v): visiting scholar)
Total publications:
Publications
(*: Corresponding author; (g): graduate student; (u): undergraduate student; (v): visiting scholar)
Total publications:
Hua, Z.* (2025). Rapid and cost-effective digital quantification of RNA editing and maturation in organelle transcripts by Oxford Nanopore target-indexed-PCR (TIP) sequencing. Plant Direct 9, e70111.
Li, Y.(g), Yu, P.(g), and Hua, Z.* (2025). Biotinylation interferes with protein ubiquitylation and turnover in Arabidopsis—a cautionary insight for proximity labeling in ubiquitylation proteome studies. International Journal of Molecular Sciences 26, 8248.
Tang, Q., Xu, D., Lenzen, B., Brachmann, A., Yapa, M.M., Doroodian, D., Schmitz-Linneweber, C., Masuda, T., Hua, Z., Leister, D., and Kleine, T. (2024). GENOMES UNCOUPLED PROTEIN1 binds to plastid RNAs and promotes their maturation. Plant Communications 5, 101069.
Yu, P., Gao, Z., and Hua, Z.* (2024). Contrasting impacts of ubiquitin overexpression on Arabidopsis growth and development. Plants 13, 1485.
Hua, Z.* (2023). Deciphering the protein ubiquitylation system in plants. J Exp Bot 74, 6487–6504
Hua, Z.* (2023). The ubiquitin-26S proteasome system – a versatile player worthy of close attention in plants. Int J Mol Sci 24, 8185
Yapa, M.M., Doroodian, P., Gao, Z., Yu, P., and Hua, Z.* (2023). MORF2-mediated plastidial retrograde signaling is involved in stress response and skotomorphogenesis beyond RNA editing. Front Plant Sci 14, 1146922
Yu, P. and Hua, Z.* (2023). To kill or to be killed: how does the battle between the UPS and autophagy maintain the intracellular homeostasis in eukaryotes? Int J Mol Sci 24, 2221
Yu, P. and Hua, Z.* (2022). The ubiquitin-26S proteasome system and autophagy relay proteome homeostasis regulation during silique development. Plant J 111, 1324–1339
Li, Y., Yapa, M.M., and Hua, Z.* (2021). A machine learning approach to prioritizing functionally active F-box members in Arabidopsis thaliana. Front Plant Sci 12, 639253.
Doroodian, P. and Hua, Z.* (2021). The ubiquitin switch in plant stress response. Plants 10, 246
Hua, Z.* (2021). Diverse evolution in 111 plant genomes reveals purifying and dosage balancing selection models for F-box genes. Int J Mol Sci, 22, 871
Chen, J., Jiang, J., Liu, J., Qian, S., Song, J., Kabara, R., Delo, I., Serino, G., Liu, F., Hua, Z., Zhong, X. (2020). F-box protein CFK1 interacts with and degrades de novo DNA methyltransferase in Arabidopsis. New Phytol 229, 3303–3317
Yapa, M.M., Yu, P., Liao, F., Moore, A.G., and Hua, Z.* (2020). Generation of a fertile ask1 mutant uncovers a comprehensive set of SCF-mediated intracellular functions. Plant J 104, 493–509
Hua, Z.* and Yu, P. (2019). Diversifying evolution of the ubiquitin-26s proteasome system in Brassicaceae and Poaceae. Int J Mol Sci 20, 3226
Hua, Z.*, and Early, M.J. (2019). Closing Target Trimming and CTTdocker programs for discovering hidden superfamily loci in genomes. PLoS ONE 14, e0209468
Marshall, R.S., Hua, Z., Mali, S., McLoughlin, F., and Vierstra, R.D. (2019). ATG8-Binding UIM proteins define a new class of autophagy adaptors and receptors. Cell 177, 766–781
Hua, Z.*, and Gao, Z. (2019). Adaptive and degenerative evolution of the S-Phase Kinase-Associated Protein 1-Like family in Arabidopsis thaliana. PeerJ 7, e6740
Ruan, B.^, Hua, Z.^, Zhao, J.^, Zhang, B., Ren, D., Liu, C., Yang, S., Zhang, A., Jiang, H., Yu, H., et al. (2019). OsACL-A2 negatively regulates cell death and disease resistance in rice. Plant Biotechnol J 17, 1344–1356 (^co-first authors)
Zhang, G., and Hua, Z.* (2018). Genome comparison implies the role of Wsm2 in membrane trafficking and protein degradation. PeerJ 6, e4678
Hua, Z.*, Doroodian, P., and Vu, W. (2018). Contrasting duplication patterns reflect functional diversities of ubiquitin and ubiquitin-like protein modifiers in plants. Plant J 95, 296–311
Haak, D.C., Fukao, T., Grene, R., Hua, Z., Ivanov, R., Perrella, G., and Li, S. (2017). Multilevel regulation of abiotic stress responses in plants. Front Plant Sci 8, 1564
Hua, Z., and Vierstra, R.D. (2016). Ubiquitin goes green. Trends Cell Biol 26, 3–5
Hua, Z., Pool, J.E., Schmitz, R.J., Schultz, M.D., Shiu, S.H., Ecker, J.R., and Vierstra, R.D. (2013). Epigenomic programming contributes to the genomic drift evolution of the F-box protein superfamily in Arabidopsis. Proceedings of the National Academy of Sciences USA 110, 16927–16932.
Christians, M.J., Gingerich, D.J., Hua, Z., Lauer, T.D., and Vierstra, R.D. (2012). The light-response BTB1 and BTB2 proteins assemble nuclear ubiquitin ligases that modify phytochrome B and D signaling in Arabidopsis. Plant Physiology 160, 118–134.
Hua, Z., Zou, C., Shiu, S.H., and Vierstra, R.D. (2011). Phylogenetic comparison of F-Box (FBX) gene superfamily within the plant kingdom reveals divergent evolutionary histories indicative of genomic drift. PLoS One 6, e16219.
Hua, Z., and Vierstra, R.D. (2011). The cullin-RING ubiquitin-protein ligases. Annu Rev Plant Biol 62, 299–334.
Miller, M.J., Barrett-Wilt, G.A., Hua, Z., and Vierstra, R.D. (2010). Proteomic analyses identify a diverse array of nuclear processes affected by small ubiquitin-like modifier conjugation in Arabidopsis. Proc Natl Acad Sci USA 107, 16512–16517.
International Brachypodium, I. (2010). Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463, 763–768.
Meng, X., Hua, Z., Sun, P., and Kao, T.H. (2011). The amino terminal F-box domain of Petunia inflata S-locus F-box protein is involved in the S-RNase-based self-incompatibility mechanism. AoB Plants 2011, plr016..
Kubo, K., Entani, T., Takara, A., Wang, N., Fields, A.M., Hua, Z., Toyoda, M., Kawashima, S., Ando, T., Isogai, A., et al. (2010). Collaborative non-self recognition system in S-RNase-based self-incompatibility. Science 330, 796–799.
Fields, A.M., Wang, N., Hua, Z., Meng, X., and Kao, T.H. (2010). Functional characterization of two chimeric proteins between a Petunia inflata S-locus F-box protein, PiSLF2, and a PiSLF-like protein, PiSLFLb-S2. Plant Mol Biol 74, 279–292.
Meng, X.^, Hua, Z.^, Wang, N., Fields, A.M., Dowd, P.E., and Kao, T.H. (2009). Ectopic expression of S-RNase of Petunia inflata in pollen results in its sequestration and non-cytotoxic function. Sex Plant Reprod 22, 263–275.(^co-first authors)
Hua, Z., Fields, A., and Kao, T.H. (2008). Biochemical models for S-RNase-based self-incompatibility. Mol Plant 1, 575–585.
Hua, Z., and Kao, T.H. (2008). Identification of major lysine residues of S3-RNase of Petunia inflata involved in ubiquitin-26S proteasome-mediated degradation in vitro. Plant J 54, 1094–1104.
Hua, Z., Meng, X., and Kao, T.H. (2007). Comparison of Petunia inflata S-Locus F-box protein (Pi SLF) with Pi SLF like proteins reveals its unique function in S-RNase based self-incompatibility. Plant Cell 19, 3593–3609.
Hua, Z., and Kao, T.H. (2006). Identification and characterization of components of a putative petunia S-locus F-box-containing E3 ligase complex involved in S-RNase-based self-incompatibility. Plant Cell 18, 2531–2553.
Most publications in this section were published in Chinese journals.
Zhang, G., Dali, Z., Guo, L., Liu, H., Hu, J., Gao, Z., Hua, Z., and Qian, Q. (2007). Nutrition-functional rice created by polymerizing ADP-glucose pyrophosphorylase (AGP) and giant embryo (ge) genes. Chinese Journal of Rice Science 21, 567–572.
Xue, D.W., Ma, L., Jiang, H., Hua, Z., Guo, L.B., Huang, D., and Qian, Q. (2005). Safety assessment of herbicide-tolerant transgenic rice. Journal of Agricultural Biotechnology 13, 723–727.
Lu, D., Wang, H., Hua, Z., Yan, M., Qian, Q., and Huang, D. (2004). Production and salt-tolerant research of transgenic rice with betaine aldehyde dehydrogenase gene. Bulletin of Science and Technology 19, 179–182.
La, H., Wang, H., Huang, D., Hua, Z., Yan, M., Gao, Z., and Feng, X. (2003). Transformation of anti-herbicide gene into upland rice (Oryza sativa) cultivars. Journal of Agricultural Biotechnology 11, 227–232.
Hua, Z., Zhu, X., Wu, M., Yu, Y., Zhao, Y., Gao, Z., Yan, M., Qian, Q., and Huang, D. (2003). Inheritance of exo-genes integrated in the rice genome. Acta Agronomica Sinica 29, 44–48.
Wu, M., Hua, Z., Lin, J., and Huang, D. (2002). Genetic mode of bar gene in transgenic rice. Chinese Journal of Rice Science 16, 111–114.
Lin, H.^, Hua, Z.^, Li, N., Gao, Y., Lu, D., Yan, M., Qian, Q., Hua, Z.T., Shao, G., and Okita, T.W. (2002). Transformation of glgC-TM gene into rice mediated by Agrobacterium. Chinese Journal of Rice Science 16, 129–133. (^co-first authors)
Wang, H., Lu, D., Yan, M., Chen, S., Peng, X., Hua, Z., Gao, Z., Qian, Q., and Huang, D. (2001). Production and identification of salt-tolerant transgenic rice plants. Rice Science 9, 14–15.
Lin, H., Hua, Z., Lu, D., Gao, Z., Yan, M., Qian, Q., and Huang, D. (2001). Comparative study on selective marker genes used in rice transformation by particle bombardment. Acta Agriculturae Shanghai 17, 9–12.
Zhang, X., Hua, Z., Chen, G., and Huang, D. (2001). Research progress of stress tolerant transgenic rice. Progress in Biotechnology 21, 15–19.
Hua, Z., Zhu, X., Lin, H., Gao, Z., Qian, Q., Yan, M., and Huang, D. (2001). Studies of the integration and expression of exogenes in transgenic rice obtained via particle bombardment transformation. Journal of Genetics and Genomics 28, 1012–1018.
Wang, H., Hua, Z., Gao, Z., Yan, M., Qian, Q., and Huang, D. (2000). Studies on high-frequency plant regeneration from indica rice immature embryos and its transformation using biolistic method. Journal of Zhejiang University 27, 469–472.
Wang, H., Hua, Z., Gao, Z., Yan, M., Qian, Q., and Huang, D. (2000). Regeneration of transgenic indica rice plants with a cecropin B gene and a bar gene. Chinese Journal of Rice Science 14, 129–132.
Wu, M., Lin, J., Hua, Z., Yan, M., and Huang, D. (2000). Application of bar gene in direct seeding rice. Acta Agriculturae Zhejiangensis 12, 290–293.
Gao, Z., Hua, Z., Xue, R., Wang, X., and Huang, D. (1999). Effects of subculture time and explant physiological characteristics on callus formation and plant regeneration in Minghui63. Rice Science 7, 3–4.
Hua, Z., and Huang, D. (1999). Research and countermeasure against plant transgene silence. Chinese Bulletin of Life Sciences 11, 51–53, 96.
Wu, M., Huang, D., Lin, J., Wang, X., Hua, Z., Zhang, S., and Xue, R. (1999). Establishment and genetic analysis of a stable herbicide-resistant transgenic rice line TR4. Chinese Journal of Rice Science 13, 173–175.
Hua, Z., Wang, X., Xue, R., Gao, Z., and Huang, D. (1999). Resistance of cecropin B gene transformed rice (Oryza sativa) and its progenies to bacterial blight (Xanthomonas oryzae pv. oryzae). Chinese Journal of Rice Science 13, 114–116.
Hua, Z., and Huang, D. (1999). Genetic mode of exogenes in transgenic plants. Journal of Integrative Plant Biology 41, 1–5.
Hua, Z., Huang, D., Xue, R., Wang, X., and Gao, Z. (1998). Preliminary study on the resistance to bacterial blight (Xanthomonas oryzae pv. oryzae) in cecropin B gene transformed rice. Rice Science 6, 3–4.
Huang, D., Zhang, S., Xue, R., Hua, Z., Xie, X., and Wang, X. (1998). A new method to identify and improve the purity of hybrid rice with herbicide-resistant gene. Rice Science 6, 1.
Xue, R., Cao, S., Yang, W., Tian, W., Hua, Z., Huang, D., and Li, L. (1998). Factors involved in microprojectile-mediated transformation of indica rice. Chinese Journal of Rice Science 12, 21–26.
Huang, D., Li, J., Zhang, S., Xue, R., Yang, W., Hua, Z., Xie, X., and Wang, X. (1998). New technology to examine and improve the purity of hybrid rice with herbicide-resistant gene. Chinese Science Bulletin 43, 67–70.
Zhang, S., Tong, H., Xue, R., Hua, Z., Wang, X., Huang, D., and Xie, X. (1998). Test on improving purity in hybrid rice seed production by introducing bar gene to restorers. Scientia Agricultura Sinica 31, 33–37.
Huang, D., Li, J., Xiao, H., Zhang, S., Xue, R., Wang, X., Yang, W., Hua, Z., and Xie, X. (1997). Studies on the inheritance of transgenic rice with bar gene. Rice Science 5, 2–3.
Li, T., Xu, R., Cai, T., Shen, B., and Hua, Z. (1994). Dynamic model of rice cold resistance. Chinese Journal of Rice Science 8, 157–161.
