Song, Y., He, J., Guo, J., Xie, Y., Ma, Z., Liu, Z., Niu, C., Li, X., Chu, B., Tahir, M.,M., Xu, J., Ma, F., and Guan, Q. (2024). The chromatin remodeller MdRAD5B enhances drought tolerance by coupling MdLHP1-mediated H3K27me3 in apple. Plant Biotechnol J. 22: 617–634.

Li, X., Ma, Z., Song, Y., Shen, W., Yue, Q., Khan, A., Tahir, M.,M., Wang, X., Malnoy, M., Ma, F., Bus, V., Zhou, S., and Guan, Q. (2023). Insights into the molecular mechanisms underlying responses of apple trees to abiotic stresses. Hortic. Res. 10: uhad144.

Xu, J., He, J., Hu, B., Hou, N., Guo, J., Wang, C., Li, X., Li, Z., Zhai, J., Zhang, T., Ma, C., Ma, F., and Guan, Q. (2023). Global hypermethylation of the N6-methyladenosine RNA modification associated with apple heterografting. Plant Physiol. 193: 2513–2537.

Li, W., Deng, M., Wang, S., Wang, C., Guo, M., Song, Y., Guo, J., Yan, J., Ma, F., Guan, Q., and Xu, J. (2023). HISTONE DEACETYLASE 6 interaction with ABSCISIC ACID-INSENSITIVE 5 decreases apple drought tolerance. Plant Physiol. 193: 2711–2733.

Shen, X., Song, Y., Ping, Y., He, J., Xie, Y., Ma, F., Li, X., and Guan, Q. (2023). The RNA binding protein MdHYL1 modulates cold tolerance and disease resistance in apple. Plant Physiol. 192: 2143–2160.

Zhang, D., He, J., Cheng, P., Zhang, Y., Khan, A., Wang, S., Li, Z., Zhao, S., Zhan, X., Ma, F., Li, X., and Guan, Q. (2023). 4-methylumbelliferone (4-MU) enhances drought tolerance of apple by regulating rhizosphere microbial diversity and root architecture. Hortic. Res. 10: uhad099.

Shen X, Ping Y, Bao C, Liu C, Tahir MM, Li X, Song Y, Xu W, Ma F, and Guan Q. (2023). Mdm-miR160-MdARF17-MdWRKY33 module mediates freezing tolerance in apple. Plant J. 114: 262–278.

Niu, C., Jiang, L., Cao, F., Liu, C., Guo, J., Zhang, Z., Yue, Q., Hou, N., Liu, Z., Li, X., Tahir, M. M., He, J., Li, Z., Li, C., Ma, F., and Guan, Q. (2022). Methylation of a MITE insertion in MdRFNR1-1 promoter is positively associated with its allelic expression in response to drought and drought tolerance. Plant Cell. 34: 3983–4006.

Bao, C., Qin, G., Cao, F., He, J., Shen, X., Chen, P., Niu, C., Zhang, D., Ren, T., Zhi, F., Ma, L., Ma, F., and Guan, Q. (2022). MdZAT5 regulates drought tolerance via mediating accumulation of drought-responsive miRNAs and mRNAs in apple. New Phytol. 236: 2131–2150.

Jiang L, Shen W, Liu C, Li X, Zhou S, Ma F, and Guan Q. (2022). Engineering drought-tolerant apple by knocking down six GH3 genes and potential application of the transgenic apple as a rootstock. Hortic Res. 9: uhac122.

Li, Z., Wang, L., He, J., Li, X., Hou, N., Guo, J., Niu, C., Li, C., Liu, S., Xu, J., Xie, Y., Zhang, D., Shen, X., Lu, L., Geng, D., Chen, P., Jiang, L., Wang, L., Li, H., Malnoy, M., Deng, C., Zou, Y., Li, C., Zhan, X., Dong, Y., Notaguchi, M., Ma, F., Xu, Q., and Guan, Q. (2022). A Chromosome-Scale Reference Genome Provides Insights into the Genetic Origin and Grafting-Mediated Stress Tolerance of Malus prunifolia. Plant Biotechnol. J. 20: 1015–1017.

Hou, N., Li, C., He, J., Liu, Y., Yu, S., Malnoy, M., Mobeen Tahir, M., Xu, L., Ma, F., and Guan, Q. (2022). MdMTA-mediated m6A modification enhances drought tolerance by promoting mRNA stability and translation efficiency of genes involved in lignin deposition and oxidative stress. New Phytol. 234:1294–1314.

Li, X., Zhou, S., Liu, Z., Lu, L., Dang, H., Li, H., Chu, B., Chen, P., Ma, Z., Zhao, S., Li, Z., van Nocker, S., Ma, F., and Guan, Q. (2022). Fine-tuning of SUMOylation modulates drought tolerance of apple. Plant Biotechnol. J. 20: 903–919.

Jiang, L., Zhang, D., Liu, C., Shen, W., He, J., Yue, Q., Niu, C., Yang, F., Li, X., Shen, X., Hou, N., Chen, P., Ma, F., and Guan, Q (2022) MdGH3.6 is targeted by MdMYB94 and plays a negative role in apple water-deficit stress tolerance. Plant J. 109: 1271–1289

Shen, X., He, J., Ping, Y., Guo, J., Hou, N., Cao, F., Li, X., Geng, D., Wang, S., Chen, P., Qin, G., Ma, F., and Guan, Q. (2022). The positive feedback regulatory loop of miR160-Auxin Response Factor 17- HYPONASTIC LEAVES 1 mediates drought tolerance in apple trees. Plant Physiol. 188: 1686–1708.

Chen P, Zhi F, Li X, Shen W, Yan M, He J, Bao C, Fan T, Zhou S, Ma F, and Guan Q. (2021). Zinc-finger protein MdBBX7/MdCOL9, a target of MdMIEL1 E3 ligase, confers drought tolerance in apple. Plant Physiol. 188: 540–559.

Chen, P., Li, Z., Zhang, D., Shen, W., Xie, Y., Zhang, J., Jiang, L., Li, X., Shen, X., Geng, D., Wang, L., Niu, C., Bao, C., Yan, M., Li, H., Li, C., Yan, Y., Zou, Y., Micheletti, D., Koot, E., Ma, F., and Guan, Q. (2021). Insights into the effect of human civilization on Malus evolution and domestication. Plant Biotechnol. J. 19: 2206–2220.

Zhang, D., Yang, K., Kan, Z., Dang, H., Feng, S., Yang, Y., Li, L., Hou, N., Xu, L., Wang, X., Malnoy, M., Ma, F., Hao, Y., and Guan, Q. (2021). The regulatory module MdBT2–MdMYB88/MdMYB124–MdNRTs regulates nitrogen usage in Apple. Plant Physiol. 185: 1924–1942.

Liu, X., Zhao, C., Gao, Y., Xu, Y., Wang, S., Li, C., Xie, Y., Chen, P., Yang, P., Yuan, L., Wang, X., Huang, L., Ma, F., Feng, H., and Guan, Q. (2021). A multifaceted module of MdBES1-MdMYB88 in plant growth and stress tolerance. Plant Physiol. 185: 1903–1923.

Chen, P., Yan, M., Li, L., He, J., Zhou, S., Li, Z., Niu, C., Bao, C., Zhi, F., Ma, F., and Guan, Q. (2020). The apple DNA-binding one zinc-finger protein MdDof54 promotes drought resistance. Hortic. Res. 7: 195.

Xie, Y., Bao, C., Chen, P., Cao, F., Liu, X., Geng, D., Li, Z., Li, X., Hou, N., Zhi, F., Niu, C., Zhou, S., Zhan, X., Ma, F., and Guan, Q. (2021). ABA homeostasis is mediated by a feedback regulation of MdMYB88 and MdMYB124. J. Exp. Bot. 72: 592–607.

Li, X., Chen, P., Xie, Y., Yan, Y., Wang, L., Dang, H., Zhang, J., Xu, L., Ma, F., and Guan, Q. (2020). Apple SERRATE negatively mediates drought resistance by regulating MdMYB88 and MdMYB124 and microRNA biogenesis. Hortic. Res. 7: 98.

Geng, D., Shen, X., Xie, Y., Yang, Y., Bian, R., Gao, Y., Li, P., Sun, L., Feng, H., Ma, F., and Guan, Q. (2020). Regulation of phenylpropanoid biosynthesis by MdMYB88 and MdMYB124 contributes to pathogen and drought resistance in apple. Hortic. Res. 7: 102.

Zhao, C., Liu, X., He, J., Xie, Y., Xu, Y., Ma, F., and Guan, Q. (2021). Apple TIME FOR COFFEE contributes to freezing tolerance by promoting unsaturation of fatty acids. Plant Sci. 302: 110695.

Niu, C., Li, H., Jiang, L., Yan, M., Li, C., Geng, D., Xie, Y., Yan, Y., Shen, X., Chen, P., Dong, J., Ma, F., and Guan, Q. (2019). Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies. Hortic Res. 6: 75.

Geng, D., Chen, P., Shen, X., Zhang, Y., Li, X., Jiang, L., Xie, Y., Niu, C., Zhang, J., Huang, X., Ma, F., and Guan, Q. (2018). MdMYB88 and MdMYB124 Enhance Drought Tolerance by Modulating Root Vessel and Cell Wall in Apple. Plant Physiol. 178: 1296–1309.

Xie, Y., Chen, P., Yan, Y., Bao, C., Li, X., Wang, L., Shen, X., Li, H., Liu, X., Niu, C., Zhu, C., Fang, N., Shao, Y., Zhao, T., Yu, J., Zhu, J., Xu, L., van Nocker, S., Ma, F., and Guan, Q. (2018). An Atypical R2R3 MYB Transcription Factor Increases Cold Hardiness by CBF-Dependent and CBF-Independent Pathways in Apple. New Phytol. 218: 201–218.

Xu, J., Zhou, S., Gong, X., Song, Y., van Nocker, S., Ma, F., and Guan, Q. (2018). Single-base methylome analysis reveals dynamic epigenomic differences associated with water deficit in apple. Plant Biotechnol. J. 16: 672–687.

Guan, Q., Yue, X., Zeng, H., and Zhu, J. (2014). The protein phosphatase and its interacting partner NAC019 are required for heat stress-responsive gene regulation and thermotolerance in Arabidopsis. Plant Cell 26: 438–453.

Guan, Q., Wu, J., Yue, X., Zhang, Y., and Zhu, J. (2013). A nuclear calcium-sensing pathway is critical for gene regulation and salt stress tolerance in Arabidopsis. PLoS Genet. 9: e1003755.

Guan, Q., Wu, J., Zhang, Y., Jiang, C., Liu, R., Chai, C., and Zhu, J. (2013). A DEAD box RNA helicase is critical for pre-mRNA splicing, cold-responsive gene regulation, and cold tolerance in Arabidopsis. Plant Cell 25: 342–356.

Guan, Q., Lu, X., Zeng, H., Zhang, Y., and Zhu, J. (2013). Heat stress induction of miR398 triggers a regulatory loop that is critical for thermotolerance in Arabidopsis. Plant J. 74: 840–851.

Guan, Q., Wen, C., Zeng, H., and Zhu, J. (2013). A KH domain-containing putative RNA-binding protein is critical for heat stress-responsive gene regulation and thermotolerance in Arabidopsis. Mol. Plant 6: 386–395.

Li, W., Guan, Q., Wang, Z.-Y., Wang, Y., and Zhu, J. (2013). A bi-functional xyloglucan galactosyltransferase is an indispensable salt stress tolerance determinant in Arabidopsis. Mol. Plant 6: 1344–1354.