Publications

2019
  1. Zou C, Li L, Miki D, Li D, Tang Q, Xiao L, Rajput S, Deng P, Peng L, Jia W, Huang R, Zhang M, Sun Y, Hu J, Fu X, Schnable PS, Chang Y, Li F, Zhang H, Feng B, Zhu X, Liu R, Schnable JC, Zhu JK(*), Zhang H(*). The genome of broomcorn millet. Nature Communications, 2019, 10:436. DOI:10.1038/s41467-019-08409-5; PMID:30683860.

  2. Cao M(#), Chen R(#), Li P(#), Yu Y, Zheng R, Ge D, Zheng W, Wang X, Gu Y, Gelová Z, Friml J, Zhang H, Liu R, He J, Xu T(*). TMK1-mediated auxin signalling regulates differential growth of the apical hook. Nature, 2019. DOI:10.1038/s41586-019-1069-7.

  3. Huang H, Liu R, Niu Q, Tang K, Zhang B, Zhang H, Chen K, Zhu JK(*), Lang Z(*). Global increase in DNA methylation during orange fruit development and ripening. Proc Natl Acad Sci U S A 2019, 116(4):1430-1436. DOI:10.1073/pnas.1815441116; PMID:30635417.

  4. Tang T, Zhang Y, Wang Y, Cai Z, Lu Z, Li L, Huang R, Hagelkruys A, Matthias P, Zhang H, Seiser C, Xie Y (*). HDAC1 and HDAC2 Regulate Intermediate Progenitor Positioning to Safeguard Neocortical Development. Neuron, 2019. DOI:10.1016/j.neuron.2019.01.007; PMID:30709655.

  5. Wang X, Liu B, Ma J, Zhang Y, Hu T, Zhang H, Feng Y, Pan H, Xu Z, Liu G, Lin X, Zhu J, Bei Q(*), Xie Z(*). Soil aluminum oxides determine biological nitrogen fixation and diazotrophic communities across major types of paddy soils in China. Soil Biological and Biochemistry, 2019, 131:81-89. DOI:10.1016/j.soilbio.2018.12.028.

2018
  1. Zhang H(*), Li YY, Zhu JK(*). Developing naturally stress-resistant crops for a sustainable agriculture. Nature Plants, 2018, 4:989-996. DOI:10.1038/s41477-018-0309-4; PMID:30478360.

  2. Zhang C, Du X, Tang K, Yang Z, Pan L, Zhu P, Luo J, Jiang Y, Zhang H, Wan H, Wang X, Wu F, Tao WA, He XJ, Zhang H, Bressan RA, Du J(*), Zhu JK(*). Arabidopsis AGDP1 links H3K9me2 to DNA methylation in heterochromatin. Nature Communications, 2018, 9:4547. DOI:10.1038/s41467-018-06965-w; PMID:30382101.

  3. Rosas-Diaz T, Zhang D, Fan P, Wang L, Ding X, Jiang Y, Jimenez-Gongora T, Medina-Puche L, Zhao X, Feng Z, Zhang G, Liu X, Bejarano ER, Tan L, Zhang H, Zhu JK, Xing W, Faulkner C, Nagawa S, Lozano-Duran R(*). A virus-targeted plant receptor-like kinase promotes cell-to-cell spread of RNAi. Proc Natl Acad Sci U S A, 2018.1.23, 115(6): 1388~1393. DOI:10.1073/pnas.1715556115; PMID:29363594.

  4. Böhm J, Messerer M, Müller HM, Scholz-Starke J, Gradogna A, Scherzer S, Maierhofer T, Bazihizina N, Zhang H, Stigloher C, Ache P, Al-Rasheid KAS, Mayer KFX, Shabala S, Carpaneto A, Haberer G(*), Zhu JK(*), Hedrich R(*). Understanding the Molecular Basis of Salt Sequestration in Epidermal Bladder Cells of Chenopodium quinoa. Current Biology, 2018, 28(19):3075-3085. DOI:10.1016/j.cub.2018.08.004; PMID:30245105.

  5. Carter B, Bishop B, Ho KK, Huang R, Jia W, Zhang H, Pascuzzi PE, Deal R, Ogas J(*). The Chromatin Remodelers PKL and PIE1 Act in an Epigenetic Pathway that Determines H3K27me3 Homeostasis in Arabidopsis. Plant Cell, 2018.5.24. DOI:10.1105/tpc.17.00867; PMID:29802212.

  6. Vílchez JI, Tang Q, Kaushal R, Wang W, Lv S, He D, Chu Z, Zhang H, Liu R, Zhang H(*). Genome Sequence of Bacillus megaterium Strain YC4-R4, a Plant Growth-Promoting Rhizobacterium Isolated from a High-Salinity Environment. Genome Announcement, 2018, 6(25):e00527-18. DOI:10.1128/genomeA.00527-18; PMID:29930045.

2017
  1. Zou C, Chen A, Xiao L, Muller HM, Ache P, Haberer G, Zhang M, Jia W, Deng P, Huang R, Lang D, Li F, Zhan D, Wu X, Zhang H, Bohm J, Liu R, Shabala S, Hedrich R(*), Zhu JK(*), Zhang H(*). A high-quality genome assembly of quinoa provides insights into the molecular basis of salt bladder-based salinity tolerance and the exceptional nutritional value. Cell Res, 2017.11, 27(11): 1327~1340. DOI:10.1038/cr.2017.124; PMID:28994416. (* Co-corresponding author).

  2. Yang R, Zheng Z, Chen Q, Yang L, Huang H, Miki D, Wu W, Zeng L, Liu J, Zhou JX, Ogas J Zhu JK, He XJ, Zhang H(*). The developmental regulator PKL is required to maintain correct DNA methylation patterns at RNA-directed DNA methylation loci. Genome Biology, 2017.5.31, 18. DOI:10.1186/s13059-017-1226-y; PMID:28569170.

  3. Xu RH(#)(*), Wei W, Krawczyk M, Wang W, Luo H, Flagg K, Yi S, Shi W, Quan Q, Li K, Zheng L, Zhang H, Caughey BA, Zhao Q, Hou J, Zhang R, Xu Y, Cai H, Li G, Hou R, Zhong Z, Lin D, Fu X, Zhu J, Duan Y, Yu M, Ying B, Zhang W, Wang J, Zhang E, Zhang C, Li O, Guo R, Carter H, Zhu JK, Hao X, Zhang K(*). Circulating tumour DNA methylation markers for diagnosis and prognosis of hepatocellular carcinoma. Nat Mater, 2017.11, 16(11): 1155. DOI:10.1038/nmat4997; PMID:29035356.

  4. Duan CG(*), Wang X, Zhang L, Xiong X, Zhang Z, Tang K, Pan L, Hsu CC, Xu H, Tao WA, Zhang H, Zhu JK(*). A protein complex regulates RNA processing of intronic heterochromatin-containing genes in Arabidopsis. Proc Natl Acad Sci U S A, 2017.8.29, 114(35): E7377~E7384. DOI:10.1073/pnas.1710683114; PMID:28808009.

  5. Hao X(*), Luo H, Krawczyk M, Wei W, Wang W, Wang J, Flagg K, Hou J, Zhang H, Yi S, Jafari M, Lin D, Chung C, Caughey BA, Li G, Dhar D, Shi W, Zheng L, Hou R, Zhu J, Zhao L, Fu X, Zhang E, Zhang C, Zhu JK, Karin M(*), Xu RH(*), Zhang K(*). DNA methylation markers for diagnosis and prognosis of common cancers. Proc Natl Acad Sci U S A, 2017.7.11, 114(28): 7414~7419. DOI:10.1073/pnas.1703577114; PMID:28652331.

  6. Duan CG, Wang X, Xie S, Pan L, Miki D, Tang K, Hsu CC, Lei M, Zhong Y, Hou YJ, Wang Z, Zhang Z, Mangrauthia SK, Xu H, Zhang H, Dilkes B, Tao AW, Zhu JK(*). A pair of transposon-derived proteins function in a histone acetyltransferase complex for active DNA demethylation. Cell Rese, 2017.2, 27(2): 226~240. DOI:10.1038/cr.2016.147; PMID:27934869.

  7. Sun Y, Wang K, Caceres-Moreno C, Jia W, Chen A, Zhang H, Liu R(*), Macho AP(*). Genome sequencing and analysis of Ralstonia solanacearum phylotype I strains FJAT-91, FJAT-452 and FJAT-462 isolated from tomato, eggplant, and chili pepper in China. Stand Genomic Sci, 2017.4.17, 12:29. DOI:10.1186/s40793-017-0241-7; PMID:28428834

2016
  1. Tang K, Lang Z, Zhang H, Zhu JK. The DNA demethylase ROS1 targets genomic regions with distinct chromatin modifications. Nat Plants, 2016.10.31, 2(11): 16169. DOI:10.1038/nplants.2016.169; PMID:27797352.

  2. Zhang, Qingzhu(#)(*); Li, Yanqiang; Xu, Tao; Srivastava, Ashish Kumar; Wang, Dong; Zeng, Liang; Yang, Lan; He, Li; Zhang, Heng; Zheng, Zhimin; Yang, Dong-Lei; Zhao, Cheng; Dong, Juan; Gong, Zhizhong; Liu, Renyi; Zhu, Jian-Kang(*), The chromatin remodeler DDM1 promotes hybrid vigor by regulating salicylic acid metabolism, Cell Discovery, 2016.8.24, 2. DOI:10.1038/celldisc.2016.27; PMID:27551435.

  3. Zhang, Qingzhu(#); Wang, Dong; Lang, Zhaobo; He, Li; Yang, Lan; Zeng, Liang; Li, Yanqiang; Zhao, Cheng; Huang, Huan; Zhang, Heng; Zhang, Huiming; Zhu, Jian-Kang(*), Methylation interactions in Arabidopsis hybrids require RNA-directed DNA methylation and are influenced by genetic variation, Proceedings of the National Academy of Sciences of the United States of America, 2016.7.19, 113(29): E4248~E4256. DOI:10.1073/pnas.1607851113; PMID:27382183.

  4. Carter, Benjamin(#); Henderson, James T.; Svedin, Elisabeth; Fiers, Martijn; McCarthy, Kyle; Smith, Amanda; Guo, Changhua; Bishop, Brett; Zhang, Heng; Riksen, Tjitske; Shockley, Allison; Dilkes, Brian P.; Boutilier, Kim; Ogas, Joe(*), Cross-Talk Between Sporophyte and Gametophyte Generations Is Promoted by CHD3 Chromatin Remodelers in Arabidopsis thaliana, Genetics, 2016.6, 203(2): 817. DOI:10.1534/genetics.115.180141; PMID:27075727.

  5. Yang, Dong-Lei(#); Zhang, Guiping; Tang, Kai; Li, Jingwen; Yang, Lan; Huang, Huan; Zhang, Heng; Zhu, Jian-Kang(*), Dicer-independent RNA-directed DNA methylation in Arabidopsis, Cell Research, 2016.1, 26(1): 66~82. DOI:10.1038/cr.2015.145; PMID:26642813.

2015
  1. Zhang Heng(#)(*); Zhu JianKang, Protecting genes from RNA silencing by destroying aberrant transcripts, Science China-Life Sciences, 2015.6, 58(6): 613~615. DOI:10.1007/s11427-015-4871-y; PMID:25994414.

  2. Zhimin Zheng(#)(*); Hasi Yu; Daisuke Miki; Dan Jin; Qingzhu Zhang; Zhonghai Ren; Zhizhong Gong; Heng Zhang(*); Jian-Kang Zhu, Involvement of Multiple Gene-Silencing Pathways in a Paramutation-like Phenomenon in Arabidopsis, Cell Reports, 2015.5.26, 11(8): 1160~1167. DOI:10.1016/j.celrep.2015.04.034; PMID:25981044.

  3. Shi, Haitao(#); Jiang, Chuan; Ye, Tiantian; Tan, Dun-Xian; Reiter, Russel J.; Zhang, Heng(*); Liu, Renyi(*); Chan, Zhulong(*), Comparative physiological, metabolomic, and transcriptomic analyses reveal mechanisms of improved abiotic stress resistance in bermudagrass [Cynodon dactylon (L). Pers.] by exogenous melatonin, Journal of Experimental Botany, 2015.2, 66(3): 681~694. DOI:10.1093/jxb/eru373; PMID:25225478.

2014
  1. Zhang, Hui(#); Zhang, Jinshan; Wei, Pengliang; Zhang, Botao; Gou, Feng; Feng, Zhengyan; Mao, Yanfei; Yang, Lan; Zhang, Heng; Xu, Nanfei(*); Zhu, Jian-Kang, The CRISPR/Cas9 system produces specific and homozygous targeted gene editing in rice in one generation, Plant Biotechnology Journal, 2014.8, 12(6): 797~807. DOI:10.1111/pbi.12200; PMID:24854982.

  2. Zhang, Huiming(#)(*); Tang, Kai; Qian, Weiqiang; Duan, Cheng-Guo; Wang, Bangshing; Zhang, Heng; Wang, Pengcheng; Zhu, Xiaohong; Lang, Zhaobo; Yang, Yu; Zhu, Jian-Kang, An Rrp6-like Protein Positively Regulates Noncoding RNA Levels and DNA Methylation in Arabidopsis, Molecular Cell, 2014.5.8, 54(3): 418~430. DOI:10.1016/j.molcel.2014.03.019; PMID:24726328.

  3. Lei, Mingguang(#); La, Honggui; Lu, Kun; Wang, Pengcheng; Miki, Daisuke; Ren, Zhizhong; Duan, Cheng-Guo; Wang, Xingang; Tang, Kai; Zeng, Liang; Yang, Lan; Zhang, Heng; Nie, Wenfeng; Liu, Pan; Zhou, Jianping; Liu, Renyi; Zhong, Yingli; Liu, Dong; Zhu, Jian-Kang(*), Arabidopsis EDM2 promotes IBM1 distal polyadenylation and regulates genome DNA methylation patterns, Proceedings of the National Academy of Sciences of the United States of America, 2014.1.7, 111(1): 527~532. DOI:10.1073/pnas.1320106110; PMID:24248388.

2013
  1. Zhang, Heng(#); He, Xinjian; Zhu, Jian-Kang(*), RNA-directed DNA methylation in plants Where to start?, Rna Biology, 2013.10.1, 10(10): 1593~1596. DOI:10.4161/rna.26312; PMID:25003825.

  2. Zhang, Heng(#); Ma, Ze-Yang(#); Zeng, Liang; Tanaka, Kaori; Zhang, Cui-Jun; Ma, Jun; Bai, Ge; Wang, Pengcheng; Zhang, Su-Wei; Liu, Zhang-Wei; Cai, Tao; Tang, Kai; Liu, Renyi; Shi, Xiaobing; He, Xin-Jian(*); Zhu, Jian-Kang(*), DTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV, Proceedings of the National Academy of Sciences of the United States of America, 2013.5.14, 110(20): 8290~8295. DOI:10.1073/pnas.1300585110; PMID:23637343.

  3. Huang, Chao-Feng(#)(*); Miki, Daisuke; Tang, Kai; Zhou, Hao-Ran; Zheng, Zhimin; Chen, Wei; Ma, Ze-Yang; Yang, Lan; Zhang, Heng; Liu, Renyi; He, Xin-Jian; Zhu, Jian-Kang, A Pre-mRNA-Splicing Factor Is Required for RNA-Directed DNA Methylation in Arabidopsis, Plos Genetics, 2013.9, 9(9): e1003779. DOI:10.1371/journal.pgen.1003779; PMID:24068953.

  4. Ho, Kwok Ki(#); Zhang, Heng; Golden, Barbara L.; Ogas, Joe(*), PICKLE is a CHD subfamily II ATP-dependent chromatin remodeling factor, Biochimica ET Biophysica Acta-Gene Regulatory Mechanisms, 2013.2, 1829(2): 199~210. DOI:10.1016/j.bbagrm.2012.10.011; PMID:23128324.

Before 2013
  1. Qian, Weiqiang(#); Miki, Daisuke; Zhang, Heng; Liu, Yunhua; Zhang, Xi; Tang, Kai; Kan, Yunchao; La, Honggui; Li, Xiaojie; Li, Shaofang; Zhu, Xiaohong; Shi, Xiaobing; Zhang, Kangling; Pontes, Olga; Chen, Xuemei; Liu, Renyi; Gong, Zhizhong; Zhu, Jian-Kang(*), A Histone Acetyltransferase Regulates Active DNA Demethylation in Arabidopsis, Science, 2012.6.15, 336(6087): 1445~1448. DOI:10.1126/science.1219416; PMID:22700931.

  2. Zhang, Heng(#); Bishop, Brett; Ringenberg, Whitney; Muir, William M.; Ogas, Joe(*), The CHD3 Remodeler PICKLE Associates with Genes Enriched for Trimethylation of Histone H3 Lysine 27, Plant Physiology, 2012.5, 159(1): 418~432. DOI:10.1104/pp.112.194878; PMID:22452853.

  3. Zhang, Heng(#); Ogas, Joe(*), An Epigenetic Perspective on Developmental Regulation of Seed Genes, Molecular Plant, 2009.7, 2(4): 610~627. DOI:10.1093/mp/ssp027; PMID:19825643.

  4. Zhang, Heng(#); Rider, Stanley Dean, Jr.; Henderson, James T.; Fountain, Matthew; Chuang, King; Kandachar, Vasundhara; Simons, Alexis; Edenberg, Howard J.; Romero-Severson, Jeanne; Muir, William M.; Ogas, Joe(*), The CHD3 remodeler PICKLE promotes trimethylation of histone H3 lysine 27, Journal of Biological Chemistry, 2008.8.15, 283(33): 22637~22648. DOI:10.1074/jbc.M802129200; PMID:18539592.

  5. Li, HC(#); Chuang, K; Henderson, JT; Rider, SD; Bai, Y; Zhang, H; Fountain, M; Gerber, J; Ogas, J(*), PICKLE acts during germination to repress expression of embryonic traits, Plant Journal, 2005.12, 44(6): 1010~1022. DOI:10.1111/j.1365-313X.2005.02602.x; PMID:16359393.