PUBLICATION

2024

  1. 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
  2. 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. Plant Journal, https://doi.org/10.1111/tpj.16624.
  3. Zeng DY†, Ford B, Doležel J, Karafiátová M, Hayden MJ, Rathjen TM, George TS, Brown LK, Ryan PR, Pettolino FA, Mathesius U, Delhaize E. A conditional mutation in a wheat (Triticum aestivum L.) gene regulating root morphology. Theoretical and Applied Genetics, 2024, 137(48).
  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. Zeng DY, Guan JT, Luo JT, Zhao LB, Li YZ, Chen WS, Zhang LQ, Ning SZ, Yuan ZG, Li AL, Zheng YL, Mao L, Liu DC, Hao M. A transcriptomic view of the ability of nascent hexaploid wheat to tolerate aneuploidy. BMC Plant Biology, 2020, 20: 97.​
  2. 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.
  3. 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-Deying Zeng

  1. Zeng DY, Guan JT, Luo JT, Zhao LB, Li YZ, Chen WS, Zhang LQ, Ning SZ, Yuan ZW, Li AL, Zheng YL, Mao L, Liu DC, Hao M. A transcriptomic view of the ability of nascent hexaploid wheat to tolerate aneuploidy. BMC Plant Biology, 2020: 20:97.
  2. Hao M, Li AL, Shi TW, Luo JT, Zhang LQ, Zhang XC, Ning SZ, Yuan ZW, Zeng DY, Kong XC, Li XL, Lan XJ, Zhang HF, Zheng YL, Mao L*, Liu DC*. The abundance of homoeologue transcripts is distupted by hybridization and is partially restored by genome doubling in synthetic hexaploid wheat. BMC Genomics, 2017: 18: 149.
  3. Zeng DY, Luo JT, Li ZL, Chen G, Zhang LQ, Ning SZ, Yuan ZW, Zheng YL, Hao M*, Liu DC*. High transferability of homoeolog-specific markers between bread and newly synthesized hexaploid wheat lines. Plos one, 2016: 11(9): e0162847.
  4. Zeng DY, Hao M, Luo JT, Zhang LQ, Yuan ZW, Ning SZ, Zheng YL, Liu DC. Amphitelic arientation of centromeres at metaphaseⅠis an important feature for univalent-dependent meiotic nonreduction, Journal of Genetics, 2014, 93(2): 531-534.
  5. Hao M, Luo JT, Zeng DY, Zhang L, Ning SZ, Yuan ZW, Yan ZH, Zhang HG, Zheng YL, Catherine Feuillet, Frédéric Choulet, Yen Y, Zhang LQ, Liu DC. QTug-sau-3B is a major quantitative trait locus for wheat hexaploidization. G3: Genes, Genomes, Genetics, 2014, 15(4): 1943-1953.

Selected Publication-Ping Wu

  1. Wu P, Xu C, Chen H, Yang J, Zhang SC, Zhou SL. NOVOWrap: an automated solution for plastid genome assembly and structure standardization. Molecular Ecology Resources, 2021, 21(6): 2177-2186.
  2. Niu WN, Wu P, Chen F, Wang J, Shang XY, Xu CL. Discovery of selective cystathionine β-synthase inhibitors by high-throughput screening with a fluorescent thiol probe. MedChemComm, 2017, 8(1): 198-201.
  3. Niu WN, Wang J, Qian J, Wang MY, Wu P, Chen F, Yan SS. Allosteric control of human cystathionine β-synthase activity by a redox active disulfide bond. Journal of Biological Chemistry, 2018, 293(7): 2523-2533.
  4. Zhou SL, Xu C, Liu J, Yu Y, Wu P, Cheng T, Hong DY. Out of the Pan‐Himalaya: Evolutionary history of the Paeoniaceae revealed by phylogenomics. Journal of Systematics and Evolution, 2021, 59(6): 1170-1182.
  5. Xu C, Dong WP, Shi s, Cheng T, Li CH, Liu TL, Wu P, Wu HK, Gao P, Zhou SL. Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques. Molecular Ecology Resources, 2015, 15(6): 1366-1374.
  6. Zhang W, Sun YZ, Liu J, Xu C, Zou XH, Chen X, Liu YL, Wu P, Yang XY*, Zhou SL*. DNA barcoding of Oryza: conventional, specific, and super barcodes. Plant molecular biology, 2021, 105: 215-228.

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.