PUBLICATION

2025

  1. Yan Xue*, Xiaofeng Cao*, Xiangsong Chen*, Xian Deng*, Xing Wang Deng*, Yong Ding*, Aiwu Dong*, Cheng-Guo Duan*, Xiaofeng Fang*, Lei Gong*, Zhizhong Gong*, Xiaofeng Gu*, Chongsheng He*, Hang He*, Shengbo He*, Xin-Jian He*, Yan He*, Yuehui He*, Guifang Jia*, Danhua Jiang*, Jianjun Jiang*, Jinsheng Lai*, Zhaobo Lang*, Chenlong Li*, Qing Li*, Xingwang Li*, Bao Liu*, Bing Liu*, Xiao Luo*, Yijun Qi*, Weiqiang Qian*, Guodong Ren*, Qingxin Song*, Xianwei Song*, Zhixi Tian*, Jia-Wei Wang*, Yuan Wang*, Liang Wu*, Zhe Wu*, Rui Xia*, Jun Xiao*, Lin Xu*, Zheng-Yi Xu*, Wenhao Yan*, Hongchun Yang*, Jixian Zhai*, Yijing Zhang*, Yusheng Zhao*, Xuehua Zhong*, Dao-Xiu Zhou*, Ming Zhou*, Yue Zhou*, Bo Zhu*, Jian-Kang Zhu* & Qikun Liu*. Epigenetics in the modern era of crop improvements. Epigenetics in the modern era of crop improvements. Sci China Life Sci, https://doi.org/10.1007/s11427-024-2784-3

2024

  1. Jun Chun†, Min Wan†, Hongwei Guo†, Qingpei Zhang, Yan Feng, Yunchuan Tang, Bo Zhu, Youshun Sang, Shenglin Jing, Tao Chen *& Zixian Zeng*. Cytokinin-mediated enhancement of potato growth and yield by Verticillium Dahliae effector VDAL under low temperature stress. BMC Plant Biology 24, 1115 (2024). https://doi.org/10.1186/s12870-024-05840-9
  2. Min Wan†, Handan Xie†, Hongwei Guo, Shenglin Jing, Deying Zeng, Bing Li, Bo Zhu & Zixian Zeng*.Developing a pipeline for identification, characterization and molecular editing of cis-regulatory elements: a case study in potato. aBIOTECH (2024). https://doi.org/10.1007/s42994-024-00185-1
  3. Wang H†, Yin C†, Zhang GY, Yang M, Zhu B*, Jiang JM*, Zeng ZX*. Cold-induced deposition of bivalent H3K4me3-H3K27me3 modification and nucleosome depletion in Arabidopsis.The Plant Journal, 2024, 118(2): 549-564.
  4. Zhu XB†*, Chen AR†, Butler NM†, Zeng ZX, Xin HY, Wang LX, Lv ZY, Eshel D, Douches DS, Jiang JM*, Molecular dissection of an intronic enhancer governing cold-induced expression of the vacuolar invertase gene in potato, The Plant Cell, https://doi.org/10.1093/plcell/koae050.
  5. Xiaomeng Sun, Enshuang Wang, Liu Yu, Shengxuan Liu, Tiantian Liu, Jun Qin, Peng Jiang, Shuangshuang He, Xingkui Cai, Shenglin Jing*, Botao Song*.TCP transcription factor StAST1 represses potato tuberization by regulating tuberigen complex activity, Plant Physiology, 2024, 195(2)

2023

  1. 唐珂, 严彩虹, 朱博, 曾子贤. 马铃薯淀粉代谢相关基因及其顺式调控元件的分子研究进展. 农业生物技术学报, 2023, 31(04): 833-843.
  2. Guo HW†, Zhou M†, Zhang GY†, He L†, Yan CY, Wan M, Hu JJ, He W, Zeng DY, Zhu B*, Zeng ZX*. Development of homozygous tetraploid potato and whole genome doubling-induced the enrichment of H3K27ac and potentially enhanced resistance to cold-induced sweetening in tubers. Horticulture Research, 2023, 10(3): uhad017.
  3. Li XC†, Wang JB†, Yu YN†, Li G, Wang JP, Li CP, Zeng ZX, Li N, Zhang ZB, Dong QL, Yu YY, Wang XF, Wang TY, Corrinne E. Grover, Wang B, Liu B*, Jonathan F. Wendel*, Gong L*. Genomic rearrangements and evolutionary changes in 3D chromatin topologies in the cotton tribe (Gossypieae). BMC biology, 2023, 21(1): 56.
  4. Guo HW, Zhang GY, Zhou M, Wan M, Zhu B, Yang ZJ, Zeng DY*, Zeng ZX*. Whole genome doubling-induced the enrichment of H3K27me3 in genes carrying specific TEs in Aegilops tauschii. Frontiers in Genetics, 2023, 14: 1241201.

2022

  1. Wang JB†, Li XC†, Dong QL†, Li CP, Li JZ, Li N, Ding BX, Wang XF, Yu YN, Wang TY, Zhang ZB, Yu YY, Lang M, Zeng ZX*, Liu B*, Gong L*.Chromatin architectural alterations due to null mutation of a major CG methylase in rice. Journal of Integrative Plant Biology, 2022, 64(12): 2396-2410.

2021

  1. Meng F, Zhao H, Zhu B, Zhang T, Yang M, Li Y, Han Y, Jiang J. Genomic editing of intronic enhancers unveils their role in fine-tuning tissue-specific gene expression in Arabidopsis thaliana. The Plant Cell, 2021, 33(6): 1997-2014.

2020

  1. Yao PF, Huang YJ, Dong QX, Wan M, Wang AH, Chen YW, Li CL, Wu Q, Chen H, Zhao HX. FtMYB6, a Light-Induced SG7 R2R3-MYB Transcription Factor, Promotes Flavonol Biosynthesis in Tartary Buckwheat (Fagopyrum tataricum). Journal of Agricultural and Food Chemistry, 2020, 68(47): 13685-13696.
  2. Dong QX, Zhao HX, Huang YJ, Chen Y, Wan M, Zeng ZX, Yao PF, Li CL, Wang XL, Chen H, Wu Q. FtMYB18 acts as a negative regulator of anthocyanin/proanthocyanidin biosynthesis in Tartary buckwheat. Plant Molecular Biology, 2020, 104(3): 309-325.

2019

  1.  Zeng ZX, Zhang WL, Marand AP, Zhu B, Buell CR, Jiang JM. Cold stress induces enhanced chromatin accessibility and bivalent histone modifications H3K4me3 and H3K27me3 of active genes in potato. Genome Biology , 2019, 20: 123.​
  2. Marand AP, Zhao HN, Zhang WL, Zeng ZX, Fang C,  Jiang JM. Historical meiotic crossover hotspots fueled patterns of evolutionary divergence in rice. The Plant Cell, 2019, 31(3): 645–662.
  3. Lin Y, Meng FL, Fang C, Zhu B, Jiang JM. Rapid validation of transcriptional enhancers using agrobacterium-mediated transient assay. Plant Method, 2019, 15: 21.

2018

  1. Yang X, Zhao H, Zhang T, Zeng ZX, Zhang P, Zhu B, Han Y, G.T. Braz, M.D. Casler, J. Schmutz, Jiang JM. Amplification and adaptation of centromeric repeats in poly`ploid switchgrass species. New phytologist, 2018, 218(4): 1645-1657.

Selected publication-Bo Zhu

  1. Zhu B†, Zhang W†, Zhang T†, Liu B, Jiang J. Genome-Wide Prediction and Validation of Intergenic Enhancers in Arabidopsis Using Open Chromatin Signatures. The Plant Cell, 2015, 27(9): 2415-2426.
  2. Zhang HK†, Zhu B†, Qi B†, Gou XW, Dong YZ, Xu CM, Zhang BJ, Huang W, Liu C, Wang XT, Yang CW, Zhou H, Khalil Kashkush, Moshe Feldman, Jonathan F. Wendel, Liu B. Evolution of the BBAA component of bread wheat during its history at the allohexaploid level. The Plant Cell, 2014, 26(7): 2761-2776.
  3. Marand A P, Zhang T, Zhu B, Jiang JM. Towards genome-wide prediction and characterization of enhancers in plants. Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms, 2017, 1860(1): 131-139.
  4. Zhao N†, Zhu B†, Li M., Wang L., Xu L, Zhang H, Liu B. Extensive and heritable epigenetic remodeling and genetic stability accompany allohexaploidization of wheat. Genetics, 2011, 188(3): 499-510.
  5. Liu C, Yang X, Zhang H, Wang X, Zhang Z, Bian Y, Zhu B, Dong Y, Liu B. Genetic and epigenetic modifications to the BBAA component of common wheat during its evolutionary history at the hexaploid level. Plant Molecular Biology, 2015, 88(1-2): 53-64.
  6. Zhang H, Bian Y, Gou X, Zhu B, Xu C, Qi B, Liu B. Persistent whole-chromosome aneuploidy is generally associated with nascent allohexaploid wheat. PNAS,2013, 110(9): 3447-3452.
  7. Qi B, Huang W, Zhong X, Guo J, Zhao N, Liu B. Global transgenerational gene expression dynamics in two newly synthesized allohexaploid wheat (Triticum aestivum) lines. BMC Biology, 2012, 10(1): 3.
  8. Zhao N†, Xu L†, Zhu B, Li M, Zhang H, Qi B, Liu B. Chromosomal and genome-wide molecular changes associated with initial stages of allohexaploidization in wheat can be transit and incidental. Genome, 2011, 54(8): 692-699.
  9. Qi B†, Zhong X†, Zhu B, Zhao N, Xu L, Zhang H, Liu B. Generality and characteristics of genetic and epigenetic changes in newly synthesized allotetraploid wheat lines. Journal of Genetics and Genomics, 2010, 37(11): 737-748. 

Selected publication-Zixian Zeng

  1. Yang XM†, Zhao HN†, Zhang T, Zeng ZX, Zhang PD, Zhu B, Han YH, GT Braz, MD Casler, J. Schmutz*, Jiang JM*. Amplification and adaptation of centromeric repeats in polyploid switchgrass species. New Phytologist, 2018, 218(4): 1645-1657.
  2. Zeng ZX, Jiang JM. Purification of Barley Centromeric Proteins Using PICh Technique. Journal of proteome research, 2016, 15(6): 1875-1882.
  3. Zeng ZX, Zhang T, Li GG, Liu C, Yang ZJ. Phenotypic and Epigenetic Changes Occurred during the Autopolyploidization of Aegilops tauschii. Cereal Research Communications, 2012, 40(4): 476-485.
  4. Zeng ZX, Yang ZJ, Liu C, Hu LJ, Ren ZL. Isolation, mapping and application of a repetitive DNA sequence in wheat (Triticum aestivum) A and B genomes. Chinese Journal of Agricultural Biotechnology, 2008, 6(3): 221-226.
  5. Zhao HN, Zeng ZX, Dal-Hoe Koo, Bikram S Gill, James A Birchler*, Jiang JM*. Recurrent Establishment of de novo centromeres in the pericentromeric regions of maize chromosome 3. Chromosome Research, 2017, 25: 299-311.
  6. Alexandre P. Marand, Zhao HN, Courtney Leisner, Zhu XB, Zeng ZX, Emily Crisovan, Linsey Newton, Shelley H Jansky, Andy J Hamernik, C Robin Buell, Jiang JM. 2017. Meiotic recombination breakpoints are associated with open chromatin and enriched with TcMar-Stowaway transposons in potato. Genome Biology, 2017, 18: 203.
  7. Michael Hardigan, Emily Crisovan, John Hamilton, Jeongwoon Kim, Parker Laimbeer, Norma C Manrique-Carpintero, Linsey Newton, Gina Pham, Brieanne Vaillancourt, Zeng ZX, David S Douches, Jiang JM, Richard Veilleux, C Robin Buell. Genomic reduction reveals large dispensable genome and adaptive role for copy number variation in diploid potato. The Plant Cell., 2015
  8. Zhu XB, Gong HL, He QY, Zeng ZX, James S Busse, Paul C. Bethke, Jiang JM. Silencing of Vacuolar Invertase and Asparagine Synthetase Genes Suppresses Acrylamide Formation in Potato. Plant Biotechnology Journal, 2015, 14: 709-718.
  9. Wang LS, Zeng ZX, Zhang WL, Jiang JM. Three Potato Centromeres Are Associated with Distinct Haplotypes with or Without Megabase-Sized Satellite Repeat Arrays. Genetics, 2014, 196: 397-401.
  10. Hu LJ, Zeng ZX, Liu C, Li GG, Yang ZJ. Isolation and Chromosomal Localization of New MITE-like Sequences from Secale. Biologia, 2012, 67(1): 126-131.
  11. Hu LJ, Liu C, Zeng ZX, Li GG, Song XJ, Yang ZJ. 2012. Genomic Rearrangement between Wheat and Thinopyrum elongatum Revealed by Mapped Functional Molecular Markers. Genes&Genomics. 34: 67-75.
  12. Zhang WL, Wu YF, James C Schnable, Zeng ZX, Michael Freeling, Gregory E Crawford, Jiang JM. High-resolution Mapping of Open Chromatin in the Rice Genome. Genome Research, 2012, 22(1): 151-162.
  13. Hu LJ, Li GG, Zeng ZX, Chang ZJ, Liu C, Yang ZJ. Molecular Characterization of A Wheat-Thinopyrum ponticum Partial Amphiploid and Its Derived Substitution Line for Resistance to Stripe Rust. J. Appl. Genetics, 2011, 52(3): 279-285.

Selected Publication-Shenglin Jing

  1. Jing SL, Sun XM, Yu L, Wang ES, Cheng ZN, Liu HM, Jiang P, Qin J, Shahnewaz Begum, Song BT. Transcription factor StABI5-like 1 binding to the FLOWERING LOCUS T homologs promotes early maturity in potato. Plant Physiology, 2022, 189: 1677–1693.
  2. Jing SL, Jiang P, Sun XM, Yu L, Wang ES, Qin J, Zhang F, Salomé Prat, Song BT. Long-distance control of potato storage organ formation by SELF PRUNING 3D and FLOWERING LOCUS T-like 1. Plant Communications, 2023, 4(3): 100547.
  3. Jing SL, Shahnewaz Begum, Yu L, Md Abu Kawochar, Wang ES, Chen Y, Zhao J, Song BT. StJAZ1-like mediated root architecture plays critical roles in drought susceptibility in potato. Environmental and Experimental Botany, 2022, 202: 105008.
  4. Begum Shahnewaz†, Jing S†, Liu Y, Sun XM, Wang ES, Kawochar Md Abu, Qin J, Liu J, Song BT. Modulation of JA signalling reveals the influence of StJAZ1-like on tuber initiation and tuber bulking in potato. The Plant journal, 2022, 109: 952-964.
  5. Ai YJ, Jing SL, Cheng ZN, Song BT, Xie CH, Liu J*, Zhou J*. DNA methylation affects photoperiodic tuberization in potato (Solanum tuberosum L.) by mediating the expression of genes related to the photoperiod and GA pathways. Horticulture Research, Volume 8, 2021, 181.
  6. Zhou TT, Song BT, Liu TF, Shen YL, Dong LP, Jing SL, Xie CH, Liu J. Phytochrome F plays critical roles in potato photoperiodic tuberization. The Plant Journal, 2019, 98(1): 42-54.
  7. Wang ES, Zhou TT, Jing SL, Dong LP, Sun XM, Fan YJ, Shen YL, Liu TF*, Song BT*. The Plant Journal, 2022, 113(2): 402-415.
  8. Liu TF†, Md Abu Kawochar†, Shahnewaz Begum, Wang ES, Zhou TT, Jing SL, Liu TT, Yu L, Nie BH*, Song BT*. Potato tonoplast sugar transporter 1 controls tuber sugar accumulation during postharvest cold storage. Horticulture Research, 2023.