Xuemei Chen's Lab

Paper list

2024

Toll/interleukin-1 receptor (TIR) domain-containing proteins have NAD-RNA decapping activity

Xufeng Wang, Dongli Yu, Jiancheng Yu, Hao Hu, Runlai Hang, Zachary Amador, Qi Chen, Jijie Chai & Xuemei Chen

publications   2024  Nature Communications

miR1432 regulates rice drought stress tolerance by targeting the calmodulin-like gene OsCaML2

Guangyu Luo, Lin Li, Xiaoyu Yang, Yu Yu, Lei Gao, Beixin Mo, Xuemei Chen, and Lin Liu*

publications   2024  Plant Physiology

2023

The N-terminal extension of Arabidopsis ARGONAUTE 1 is essential for microRNA activities

Ye Xu, Yong Zhang, Zhenfang Li, Alyssa Soloria, Savannah Potter, and Xuemei Chen*

publications   2023  Plos Genetics

MicroRNA156 conditions auxin sensitivity to enable growth plasticity in response to environmental changes in Arabidopsis

Qing Sang, Lusheng Fan, Tianxiang Liu, YongjianQiu, Juan Du, Beixin Mo, Meng Chen*, and Xuemei Chen*

publications   2023  Nature Comm.

ID1 functions as an autonomous phosphate (Pi) regulator upstream of the miR399-ZmPHO2 signaling module in maize

Xufeng Wang, Dan Yuan, Yanchun Liu, Yameng Liang, Juan He, Xiaoyu Yang, Runlai Hang, Hong Jia, Beixin Mo, Feng Tian, Xuemei Chen*,and Lin Liu*

publications   2023  Plant Cell

RCD1 promotes salt stress tolerance in Arabidopsis by repressing ANAC017 activity

Jinyuan Tao, Feiyan Wu, Haoming Wen, Xiaoqin Liu, Weigui Luo, Lei Gao, Zhonghao Jiang, Beixin Mo, Xuemei Chen, Wenwen Kong, and Yu Yu.*

publications   2023  Int J Mol Sci

An advanced protocol for profiling RNA-binding proteins in Arabidopsis using plant phase extraction

Yong Zhang, Ye Xu, Todd Skaggs, Jorge Ferreira, Xuemei Chen, and Devinder Sandhu

publications   2023  Biology Methods & Protocols

Focus issue on RNA biology

Nancy A Eckardt, Michael J Axtell, Andrea Barta, Xuemei Chen, Brian D Gregory, Hongwei Guo, Pablo A Manavella, Rebecca A Mosher, and Blake C Meyers

publications   2023  Plant Cell

25 Years of thermomorphogenesis research: milestones and perspectives

Marcel Quint, Carolin Delker, Sureshkumar Balasubramanian, Martin Balcerowicz, Jorge J. Casal, Christian Danve M. Castroverde, Meng Chen, Xuemei Chen, Ive De Smet, Christian Fankhauser, Keara A. Franklin, Karen J. Halliday, Scott Hayes, Danhua Jiang, Jae-Hoon Jung, Eirini Kaiserli, S. Vinod Kumar, Daniel Maag, Eunkyoo Oh, Chung-Mo Park, Steven Penfield, Giorgio Perrella, Salomé Prat, Rodrigo S. Reis, Philip A. Wigge, Björn C. Willige, Martijn van Zanten

publications   2023  Trends in Plant Science

HEN1 SUPPRESSOR1 stabilizes polymerase IV RNAs via uridylation in Arabidopsis

Yongbing Ren, Xuan Ma, Bo Song, Xiaolan Yang, You Chen, Yu Yu, Xuemei Chen, Beixin Mo, and Xiaoyan Wang*

publications   2023  Plant Physiology

The DEAD-box helicase RCF1 plays roles in miRNA biogenesis and RNA splicing in Arabidopsis

Chi Xu, Zhanhui Zhang, Juan He, Yongsheng Bai, Lin Liu, Jihua Tang, Guiliang Tang, Xuemei Chen*, and Beixin Mo*

publications   2023  Plant J.

Arabidopsis HOT3/eIF5B1 constrains rRNA RNAi by facilitating 18S rRNA maturation

Runlai Hang, Ye Xu, Xufeng Wang, Hao Hu, Nora Flynn, Chenjiang You*, and Xuemei Chen*

publications   2023  PNAS

2022

Origin, evolution and diversification of plant ARGONAUTE proteins

Zancong Li, Xuemei Chen, and Lei Gao*

publications   2022  Plant J.

BrpNAC895 and BrpABI449 coregulate the transcription of the afflux-type Cd transporter BrpHMA2 in Brassica parachinensis

Shuai Liu, Limei Li, Yanwu Deng, Yongsheng Bai, Chao Sun, Shili Huang, Jiajie Zhou, Liyu Shi, Xuewei Yang, Ling Li, Xuemei Chen, and Yulin Tang1*

publications   2022  Horticulture Research

RBV, an evolutionarily conserved WD40 repeat protein, promotes microRNA biogenesis and loading into ARGONAUTE1 in Arabidopsis

Chao Liang, Qiang Cai, Shaofang Li, Chenjiang You, Chi Xu, Lei Gao, Dechang Cao, Yu Yu, Beixin Mo*, and Xuemei Chen*

publications   2022  Nature Comm.

Microtubules promote the non-cell autonomous action of microRNAs by inhibiting their cytoplasmic loading onto ARGONAUTE1 in Arabidopsis

Lusheng Fan, Cui Zhang, Yong Zhang, Ethan Stewart, Jakub Jez, Keiji Nakajima, and Xuemei Chen*

publications   2022  Dev. Cell.

NAD+-capped RNAs are widespread in rice (Oryza sativa) and spatiotemporally modulated during development

Haijiao Dong, Xufeng Wang, Cong Tan, Lei Gao, Jie Cui, Lin Liu, Beixin Mo, Yongzhong Xing, Yu Yu*, Xuemei Chen*

publications   2022  Science China Life Sciences

Parallel analysis of RNA ends reveals global microRNA-mediated target RNA cleavage in maize

Juan He, Chi Xu, Chenjiang You, Beixin Mo, Xuemei Chen, Lei Gao, and Lin Liu

publications   2022  Plant J.

A spontaneous thermo-sensitive female sterility mutation in rice endows full mechanized hybrid breeding

Haoxuan Li, Chenjiang You, Manabu Yoshikawa, Xiaoyu Yang, Haiyong Gu, Chuanguo Li, Jie Cui, Xuemei Chen*, Nenghui Ye*, Jianhua Zhang*, Guanqun Wang*

publications   2022  Cell Research

Profiling of single-cell-type-specific microRNAs in Arabidopsis roots by immunoprecipitation of root cell-layer-specific GFP-AGO1

Lusheng Fan*, Bin Gao, and Xuemei Chen

publications   2022  Bio-protocol

Arabidopsis AAR2, a conserved splicing factor in eukaryotes, acts in microRNA biogenesis

Lusheng Fan, Bin Gao, Ye Xu, Nora Flynn, Brandon Le, Chenjiang You, Shaofang Li, Natalia Achkar, Pablo A Manavella, Zhenbiao Yang, and Xuemei Chen*

publications   2022  PNAS

Anterograde signaling controls plastid transcription via sigma factors in parallel with the regulation of nuclear photosynthesis genes

Youra Hwang, Soeun Han, Chan Yul Yoo, Liu Hong, Chenjiang You, Brandon H Le, Hui Shi, Shangwei Zhong, Ute Hoecker, Xuemei Chen, Meng Chen*

publications   2022  Nature Comm.

A novel factor that recruits and excludes Pol IV-mediated DNA methylation in a site-specific manner

Yuan Wang, Brandon H Le, Jianqiang Wang, Chenjiang You, Yonghui Zhao, Mary Galli, Ye Xu, Andrea Gallavotti, Thomas Eulgem, Beixin Mo*, and Xuemei Chen*

publications   2022  Science Advances

An updated nomenclature for plant ribosomal protein genes

M Regina Scarpin, Michael Busche, Ryan E Martinez, Lisa C Harper, Leonore Reiser, Dóra Szakonyi, Catharina Merchante, Ting Lan, Wei Xiong, Beixin Mo, Guiliang Tang, Xuemei Chen, Julia Bailey-Serres, Karen S Browning, Jacob O Brunkard*

publications   2022  Plant Cell

2021

Widespread occurrence of microRNA-mediated target cleavage on membrane-bound polysomes

Xiaoyu Yang, Chenjiang You, Xufeng Wang, Lei Gao, Beixin Mo, Lin Liu* and Xuemei Chen*

publications   2021  Genome Biology

Secrets of the MIR172 family in plant development and flowering unveiled

Bailong Zhang and Xuemei Chen*

publications   2021  Plos Biology

Spatiotemporal control of miR398 biogenesis, via chromatin remodeling and kinase signaling, ensures proper ovule development

Hanyang Cai, Liping Liu, Man Zhang, Mengnan Chai, Youmei Huang, Fangqian Chen, Maokai Yan, Zhenxia Su, Ian Henderson, Ravishankar Palanivelu, Xuemei Chen, and Yuan Qin*

publications   2021  Plant Cell

Use of NAD tagSeq II to identify growth phase-dependent alterations in E

Hailei Zhang, Huan Zhong, Xufeng Wang, Shoudong Zhang, Xiaojian Shao, Hao Hu, Zhiling Yu, Zongwei Cai, Xuemei Chen, and Yiji Xia

publications   2021  coli RNA NAD+ capping. PNAS

SPAAC-NAD-seq, a sensitive and accurate method to profile NAD+-capped transcripts

Hao Hu, Nora Flynn, Hailei Zhang, Chenjiang You, Runlai Hang, Xufeng Wang, Huan Zhong, Zhulong Chan, Yiji Xia*, and Xuemei Chen*

publications   2021  PNAS

PANDORA-seq expands the repertoire of regulatory small RNAs by overcoming RNA modifications

Junchao Shi, Yunfang Zhang, Dongmei Tan, Xudong Zhang, Menghong Yan,Ying Zhang, Reuben Franklin, Marta Shahbazi, Kirsty Mackinlay, Shichao Liu,Bernhard Kuhle, Emma R James, Liwen Zhang, Yongcun Qu, Qiwei Zhai, Wenxin Zhao, Linlin Zhao, Changcheng Zhou, Weifeng Gu, Jernej Murn, Jingtao Guo, Douglas T Carrell, Yinsheng Wang, Xuemei Chen, Bradley R Cairns, Xiang-lei Yang, Paul Schimmel, Magdalena Zernicka-Goetz, Sihem Cheloufi*, Ying Zhang*, Tong Zhou* and Qi Chen

publications   2021  Nature Cell Biology

High resolution RNA-seq profiling of genes encoding ribosomal proteins across different organs and developmental stages in Arabidopsis thaliana

Wei Xiong, Jiancong Zhang, Ting Lan, Wenwen Kong, Xiaoyan Wang, Lin Liu, Xuemei Chen, and Beixin Mo*

publications   2021  Plants Direct

Direct photoresponsive inhibition of a p53-like transcription activation domain in PIF3 by Arabidopsis phytochrome B

Chan Yul Yoo, Qing Sang, Jiangman He, Yongjian Qiu, Lingyun Long, Ruth Jean-Ae Kim, Emily G Chong, Joseph Hahm, Nicholas Morffy, Pei Zhou, Lucia C Strader, Akira Nagatani, Beixin Mo, Xuemei Chen, Meng Chen*

publications   2021  Nature Comm.

TAS3-derived short-interfering RNAs confer cleavage of mRNAs in rice

Linlin Luo, Xiaoyu Yang, Mingxi Guo,Yu Yu, Ting Lan, Beixin Mo, Xuemei Chen, Lei Gao*, and Lin Liu*

publications   2021  Plant Physiology

Discovery, processing, and potential role of noncanonical caps in RNA

Hao Hu, Nora Flynn, and Xuemei Chen*

publications   2021  Epitranscriptomics

Distinct evolutionary profiles and functions of microRNA156 and microRNA529 in land plants

Qi Xie, Xufeng Wang, Juan He, Ting Lan, Jiayu Zheng, Yupeng Li, Jinkang Pan, Ling Lin, Junyi Zhao, Jing Li, Yu Yu, Beixin Mo, Xuemei Chen, Lei Gao* and Lin Liu*

publications   2021  Int. J. Mol. Sci.

Quality control and evaluation of plant epigenomics data

Robert J Schmitz*, Alexandre Pl Marand, Xuan Zhang, Rebecca A Mosher, Franziska Turck, Xuemei Chen, Michael J Axtell, Xuehua Zhong, Siobhan M Brady, Molly Megraw, and Blake C Meyers

publications   2021  Plant Cell

Plant and animal small RNA communications between cells and organisms

Xuemei Chen* and Oded Rechavi*

publications   2021  Nature Rev. Mol. Cell Biol.

Mechanism for the genomic and functional evolution of the miR2118 family in the grass lineage

Ting Lan*, Xiaoyu Yang, Jiwei Chen, Lina Shi, Yu Yu, Lin Liu, Lei Gao, Beixin Mo*, Xuemei Chen*, and Guiliang Tang*

publications   2021  New Phytologist

2020

Global co-transcriptional splicing in Arabidopsis and the correlation with splicing regulation in mature RNAs

Shaofang Li*, Yuan Wang, Yonghui Zhao, Xinjie Zhao, Xuemei Chen, and Zhizhong Gong

publications   2020  Molecular Plant

Linking key steps of microRNA biogenesis by TREX-2 and the nuclear pore complex in Arabidopsis

Bailong Zhang, Chenjiang You, Yong Zhang, Liping Zeng, Jun Hu, Minglei Zhao and Xuemei Chen*

publications   2020  Nature Plants

Regulation of female germline specification via small RNA mobility in Arabidopsis

Zhenxia Su, Nannan Wang, Zhimin Hou, Baiyang Li, Dingning Li, Yanhui Liu, Hanyang Cai, Yuan Qin*, and Xuemei Chen*

publications   2020  Plant Cell

Genome-wide mRNA and small RNA transcriptome profiles uncover cultivar- and tissue-specific changes induced by cadmium in Brassica parachinensis

Yang Liu, Shuai Liu, Yanwu Deng, Chenjiang You, Weixin Zhang, Jiajie Zhou, Xuemei Chen, Lei Gao*, Yulin Tang*

publications   2020  Environmental and Experimental Botany

Arabidopsis paralogous genes RPL23aA and RPL23aB encode functionally equivalent proteins

Wei Xiong, Xiangze Chen, Chengxin Zhu, Jiancong Zhang, Ting Lan, Lin Liu, Beixin Mo*, and Xuemei Chen*

publications   2020  BMC Plant Biology

Protein arginine methyltransferase 3 fine-tunes the assembly/disassembly of pre-ribosome to repress nucleolar stress by interacting with RPS2B in Arabidopsis

Runlai Hang, Zhen Wang, Chao Yang, Lilan Luo, Beixin Mo, Xuemei Chen, Jing Sun*, Chunyan Liu*, Xiaofeng Cao*

publications   2020  Mol. Plant

Regulation of ARGONAUTE10 expression enables temporal and spatial precision in axillary meristem initiation in Arabidopsis

Cui Zhang, Lusheng Fan, Brandon H Le, Peiyi Ye, Beixin Mo and Xuemei Chen*

publications   2020  Dev. Cell

2019

A Phytophthora effector suppresses trans-kingdom RNAi to promote disease susceptibility

Yingnan Hou, Yi Zhai, Li Feng, Hana Z Karimi, Brian D Rutter, Liping Zeng, Du Seok Choi, Bailong Zhang, Weifeng Gu, Xuemei Chen, Wenwu Ye, Roger W Innes, Jixian Zhai, and Wenbo Ma*

publications   2019  Cell Host & Microbe

The protein phosphatase 4 complex promotes transcription and processing of primary microRNAs in Arabidopsis

Suikang Wang, Li Quan, Shaofang Li, Chenjiang You, Lei Gao, Liping Zeng, Lin Liu, Yanhua Qi, Beixin Mo*, and Xuemei Chen*

publications   2019  Plant Cell

Increasing the efficiency of CRISPR/Cas9-based gene editing by suppressing RNAi in plants

Xiaoyan Wang*, Jiayun Lu, Kangwen Lao, Suikang Wang, Xiaowei Mo, Xintong Xu, Xuemei Chen, and Beixin Mo*

publications   2019  Science China Life Sciences

NAD+-capped RNAs are widespread in the Arabidopsis transcriptome and can probably be translated

Yuan Wang, Shaofang Li, Yonghui Zhao, Chenjiang You, Brandon Le, Zhizhong Gong, Beixin Mo, Yiji Xia and Xuemei Chen*

publications   2019  PNAS

NAD tagSeq revealed that NAD+-capped RNAs are produced from a large number of protein-coding genes in Arabidopsis

Hailei Zhang, Huan Zhong, Shoudong Zhang, Xiaojian Shao, Min Ni, Zongwei Cai, Xuemei Chen*, and Yiji Xia*

publications   2019  PNAS

RST1 is a FREE1 suppressor that negatively regulates vacuolar trafficking in Arabidopsis

Qiong Zhao, Jinbo Shen, Caiji Gao, Yong Cui, Yongyi Wang, Jie Cui, Lixin Cheng, Wenhan Cao,Ying Zhu, Shuxian Huang, Qianzi Zhou, Cheuk Ka Leong, King Pong Leung, Xuemei Chen, and Liwen Jiang*

publications   2019  Plant Cell

Plant noncoding RNAs: hidden players in development and stress responses

Yu Yu, Yuchan Zhang, Xuemei Chen* and Yueqin Chen*

publications   2019  Annu. Rev. Cell Dev. Biol.

Hybrid decay: a transgenerational epigenetic decline in vigor and viability triggered in backcross populations of teosinte with maize

Wei Xue, Sarah Anderson, Xufeng Wang, Liyan Yang, Peter Crisp, Qing Li, Jaclyn Noshay, Patrice Albert, James Birchler, Paul Bilinski, Michelle Stitzer, Jeffrey Ross-Ibarra, Xuemei Chen, Nathan Springer, and John Doebley*

publications   2019  Genetics

HSP90 inhibitors stimulate DNAJB4 protein expression through a mechanism involving N6-methyladenosine

Weili Miao, Lin Li, Yonghui Zhao, Xiaoxia Dai, Xuemei Chen and Yinsheng Wang*

publications   2019  Nature Comm.

FIERY1 promotes microRNA accumulation by suppressing rRNA-derived small interfering RNAs in Arabidopsis

Chenjiang You, Wenrong He, Runlai Hang, Cuiju Zhang, Xiaofeng Cao, Hongwei Guo, Xuemei Chen, Jie Cui*, and Beixin Mo*

publications   2019  Nature Comm.

Prevalent cytidylation and uridylation of precursor miRNAs in Arabidopsis

Jianbo Song, Xiaoyan Wang, Bo Song, Lei Gao, Xiaowei Mo, Luming Yue, Haiqi Yang, Jiayun Lu, Guodong Ren, Beixin Mo* and Xuemei Chen*

publications   2019  Nature Plants

YTHDF2 binds to 5-methylcytosine in RNA and modulates the maturation of ribosomal RNA

Xiaoxia Dai, Gwendolyn Gonzalez, Lin Li, Jie Li, Changjun You, Weili, Miao, Junchi Hu, Lijuan Fu; Yonghui Zhao, Ruidong Li, Lichao Li, Xuemei Chen, Yanhui Xu, Weifeng Gu, and Yinsheng Wang

publications   2019  Analytical Chemistry

Arabidopsis DXO1 possesses deNADding and exonuclease activities and its mutation affects defense-related and photosynthetic gene expression

Shuying Pan, Kai-en Li, Wei Huang, Huan Zhong, Huihui Wu, Yuan Wang, He Zhang, Zongwei Cai, Hongwei Guo, Xuemei Chen and Yiji Xia*

publications   2019  JIPB

Arabidopsis DXO1 possesses deNADding and exonuclease activities and its mutation affects defense-related and photosynthetic gene expression

Shuying Pan, Kai-en Li, Wei Huang, Huan Zhong, Huihui Wu, Yuan Wang, He Zhang, Zongwei Cai, Hongwei Guo, Xuemei Chen and Yiji Xia*

publications   2019  JIPB

2018

Transcriptional landscapes of Axolotl (Ambystoma mexicanum)

Juan Caballero-Pérez, Annie Espinal-Centeno, Francisco Falcon, Luis F García-Ortega, Everardo Curiel-Quesada, Andrés Cruz-Hernández, Laszlo Bako, Xuemei Chen, Octavio Martínez, Mario Alberto Arteaga-Vázquez, Luis Herrera-Estrella, Alfredo Cruz-Ramírez

publications   2018  Dev. Biol.

Verification of DNA Motifs in Arabidopsis using CRISPR/Cas9-mediated mutagenesis

Chenlong Li, Chen Chen, Huhui Chen, Suikang Wang, Xuemei Chen, and Yuhai Cui*

publications   2018  Plant Biotech. J.

Structural and biochemical insights into small RNA 3' end trimming by Arabidopsis SDN1

Jiayi Chen, Li Liu, Chenjiang You, Jiaqi Gu, Wenjie Ruan, Lu Zhang, Jianhua Gan, Chunyang Cao, Ying Huang*, Xuemei Chen*, and Jinbiao Ma*

publications   2018  Nature Comms.

Biogenesis of a 22-nt microRNA in Phaseoleae species by precursor-programmed uridylation

Qili Fei, Yu Yu, Li Liu, Yu Zhang, Patricia Baldrich, Qing Dai, Xuemei Chen and Blake Meyers*

publications   2018  PNAS

A Resource for inactivation of microRNAs using Short Tandem Target Mimic technology in model and crop plants

Ting Peng, Mengmeng Qiao, HaipingLiu, SachinTeotia, Zhanhui Zhang, Yafan Zhao, BoboWang, Dongjie Zhao, Lina Shi, Cui Zhang, Brandon Le, Kestrel Rogers, Chathura Gunasekara, Haitang Duan, Yiyou Gu, Lei Tian, Jinfu Nie, Jian Qi, Fanrong Meng, Lan Huang, Qinghui Chen, Zhenlin Wang, Jinshan Tang, Xiaoqing Tang, Ting Lan, Xuemei Chen*, Hairong Wei*, Quanzhi Zhao*, GuiliangTang*

publications   2018  Mol. Plant

Intercellular and systemic trafficking of RNAs in plants

Lin Liu and Xuemei Chen*

publications   2018  Nature Plants

The disease resistance protein SNC1 represses the biogenesis of microRNAs and phased siRNAs

Qiang Cai, Chao Liang, Suikang Wang, Yingnan Hou, Lei Gao, Li Liu, Wenrong He, Wenbo Ma, Beixing Mo*, Xuemei Chen*

publications   2018  Nature Comms.

2017

ARGONAUTE10 promotes the degradation of miR165/6 through the SDN1 and SDN2 exonucleases in Arabidopsis

Yu Yu, Lijuan Ji, Brandon Le, Jixian Zhai, Jiayi Chen, Elizabeth Luscher, Lei Gao, Chunyan Liu, Xiaofeng Cao, Beixin Mo, Jinbiao Ma, Blake C Meyers, and Xuemei Chen*

publications   2017  PLoS Biology

APETALA2 antagonizes the transcriptional activity of AGAMOUS in regulating floral stem cells in Arabidopsis

Zhigang Huang, Ting Shi, Binglian Zheng, Rae Eden Yumul, Xigang Liu, Chenjiang You, Zhihong Gao, Langtao Xiao*, and Xuemei Chen*

publications   2017  New Phytologist

The MBD7 complex promotes expression of methylated transgenes without significantly altering their methylation status

Dongming Li, Ana Marie S Palanca, So Youn Won, Lei Gao, Ying Feng, Ajay A Vashisht, Li Liu, Yuanyuan Zhao, Xigang Liu, Xiuyun Wu, Shaofang Li, Brandon Le, Yun Ju Kim, Guodong Yang, Shengben Li, Jinyuan Liu, James A Wohlschlegel, Hongwei Guo, Beixin Mo, Xuemei Chen*, and Julie A Law*

publications   2017  eLife

The THO complex non-cell autonomously represses female germline specification through the TAS3-ARF3 module

Zhenxia Su, Lihua Zhao, Yuanyuan Zhao, Shaofang Li, So Youn Won, Hanyang Cai, Lulu Wang, Zhenfang Li, Yuan Qin*, and Xuemei Chen*

publications   2017  Current Biology

The evolution of microRNAs in plants

Jie Cui, Chenjiang You, and Xuemei Chen*

publications   2017  Current Opinion in Plant Biology

Conservation and divergence of small RNA pathways and microRNAs in land plants

Chenjiang You, Jie Cui, Hui Wang, Xinping Qi, Li-Yaung Kuo, Hong Ma, Beixin Mo* and Xuemei Chen*

publications   2017  Genome Biology

Arabidopsis MOS4-associated complex promotes microRNA biogenesis and pre-mRNA splicing

Tianran Jia, Bailong Zhang, Chenjiang You, Yong Zhang, Liping Zeng, Shengjun Li, Kaeli CM Johnson, Bin Yu, Xin Li, Xuemei Chen*

publications   2017  Plant Cell

The ‘how’ and ‘where’ of plant microRNAs

Yu Yu, Tianran Jia, and Xuemei Chen*

publications   2017  New Phytologist

KLU suppresses megasporocyte cell fate through SWR1-mediated activation of WRKY28 expression in Arabidopsis

Lihua Zhao, Hanyang Cai, Zhenxia Su, Lulu Wang, Xinyu Huang, Man Zhang, Piaojuan Chen, Xiaozhuan Dai, Heming Zhao, Ravishankar Palanivelu, Xuemei Chen*, and Yuan Qin*

publications   2017  PNAS

TarHunter, a tool for predicting conserved microRNA targets and target mimics in plants

Xuan Ma, Chunyan Liu, Lianfeng Gu, Beixin Mo, Xiaofeng Cao, and Xuemei Chen*

publications   2017  Bioinformatics

2016

SUVH1, a Su(var)3-9 family member, promotes the expression of genes targeted by DNA methylation, Nucleic Acids Res

Shaofang Li, Lin Liu, Shengben Li, Lei Gao, Yuanyuan Zhao, Yun Ju Kim, and Xuemei Chen*

publications   2016  

RNA quality control as a key to suppressing RNA silencing of endogenous genes in plants

Lin Liu and Xuemei Chen*

publications   2016  Mol. Plant

Concerted genomic targeting of histone H3 lysine 27 demethylase REF6 and chromatin-remodeling ATPase BRM in Arabidopsis

Chenlong Li, Lianfeng Gu, Lei Gao, Chen Chen, Chuang-Qi Wei, Qi Qiu, Chih-Wei Chien, Suikang Wang, Lihua Jiang, Lian-feng Ai, Chia-Yang Chen, Songguang Yang, Vi Nguyen, Yanhua Qi, Michael P Snyder, Alma L Burlingame, Susanne E Kohalmi, Shangzhi Huang, Xiaofeng Cao, Zhi-Yong Wang, Keqiang Wu, Xuemei Chen, & Yuhai Cui*

publications   2016  Nature Genetics

FAR-RED ELONGATED HYPOCOTYL3 activates SEPALLATA2 but inhibits CLAVATA3 to regulate meristem determinacy and maintenance in Arabidopsis

Dongming Li, Xing Fu, Lin Guo, Zhigang Huang, Yongpeng Li, Yang Liu, Zishan He, Xiuwei Cao, Xiaohan Ma, Meicheng Zhao, Guohui Zhu, Langtao Xiao, Haiyang Wang, Xuemei Chen, Renyi Liu, and Xigang Liu*

publications   2016  PNAS

POWERDRESS and HDA9 interact and promote histone H3 deacetylation at specific genomic sites in Arabidopsis

Yun Ju Kim*, Ruozhong Wang, Lei Gao, Dongming Li, Chi Xu, Hyunggon Mang,Jien Jeon, June M Kwak, Beixin Mo, Langtao Xiao, and Xuemei Chen*

publications   2016  PNAS

Biogenesis of phased siRNAs on membrane-bound polysomes in Arabidopsis

Shengben Li, Brandon Le, Xuan Ma, Shaofang Li, Chenjiang You, Lin Liu, Lei Gao, Ting Shi, Yonghui Zhao, Beixin Mo, Xiaofeng Cao, and Xuemei Chen*

publications   2016  eLife

A partial loss-of-function mutation in an Arabidopsis RNA polymerase III subunit leads to pleiotropic defects

Kaeli C M Johnson, Yu Yu, Lei Gao, Ryan C Eng, Geoffrey O Wasteneys, Xuemei Chen, and Xin Li*

publications   2016  Journal of Experimental Botany

2015

Chemical genetic screens using Arabidopsis thaliana seedlings grown on solid media

Thanh Theresa Dinh and Xuemei Chen*

publications   2015  Methods Mol. Biol.

Detection of Pol IV/RDR2-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesis

Shaofang Li, Lee Vandivier, Bin Tu, Lei Gao, So Youn Won, Shengben Li, Binglian Zheng, Brian Gregory, and Xuemei Chen*

publications   2015  Genome Research

An exosomal ribonuclease and trans-acting siRNAs regulate cuticular wax biosynthesis during Arabidopsis inflorescence stem development

Patricia Lam, Lifang Zhao, Nathan A Eveleigh, Yu Yu, Xuemei Chen, and Ljerka Kunst*

publications   2015  Plant Physiology

The Arabidopsis SWI2/SNF2 chromatin remodeler BRAHMA regulates Polycomb function during vegetative development and directly activates the flowering repressor gene SVP

Chenlong Li, Chen Chen, Lei Gao, Songguang Yang, Vi Nguyen, Xuejiang Shi, Katherine Siminovitch, Susanne E Kohalmi, Shangzhi Huang, Keqiang Wu, Xuemei Chen, and Yuhai Cui*

publications   2015  PLoS Genetics

Ancient origin and recent innovations of RNA Polymerase IV and V

Yi Huang, Timmy Kendall, Evan S Forsythe, Ana Dorantes-Acosta, Shaofang Li, Juan Caballero-Perez, Xuemei Chen, Mario Arteaga-Vázquez, Mark A Beilstein, and Rebecca A Mosher*

publications   2015  Mol. Biol. and Evo.

Distinct and cooperative activities of HESO1 and URT1 nucleotidyl transferases in microRNA turnover in Arabidopsis

Bin Tu, Chi Xu, Li Liu, Jixian Zhai, Shengben Li, Miguel A Lopez, Yuanyuan Zhao, Yu Yu, Vanitharani Ramachandran, Guodong Ren, Bin Yu, Shigui Li, Blake C Meyers, Beixin Mo*, and Xuemei Chen*

publications   2015  PLoS Genetics

Synergistic and independent actions of multiple terminal nucleotidyl transferases in the 3’ tailing of small RNAs in Arabidopsis

Xiaoyan Wang, Shuxin Zhang, Yongchao Dou, Chi Zhang, Xuemei Chen, Bin Yu*, and Guodong Ren*

publications   2015  PLoS Genetics

Fast-suppressor screening for new components in protein trafficking, organelle biogenesis and silencing pathway in Arabidopsis thaliana using dominant DEX-inducible FREE1-RNAi plants

Qiong Zhao, Caiji Gao, PoShing Lee, Lin Liu, Shaofang Li, Tangjin Hu, Jinbo Shen, Shuying Pan, Hao Ye, Yunru Chen, Wenhan Cao, Yong Cui, Peng Zeng, Sheng Yu, Yangbin Gao, Liang Chen, Beixin Mo, Xin Liu, Shi Xiao, Yunde Zhao, Silin Zhong, Xuemei Chen, Liwen Jiang*

publications   2015  Journal of Genetics and Genomics

Mechanisms of microRNA turnover

Maryam Sanei and Xuemei Chen*

publications   2015  Curr. Opion. Plant Biol.

Uridylation and adenylation of RNA

Jianbo Song, Beixin Mo*, and Xuemei Chen*

publications   2015  Science China Life Science

2014

Genetic screens for floral mutants in Arabidopsis thaliana: enhancers and suppressors

Thanh Theresa Dinh, Elizabeth Luscher, Shaofang Li, Xigang Liu, So Youn Won and Xuemei Chen*

publications   2014  Methods in Molecular Biology

Traffic into silence: endomembranes and post‐transcriptional RNA silencing

Yun Ju Kim, Alexis Maizel*, and Xuemei Chen*

publications   2014  EMBO J.

Methylation protects microRNAs from an AGO1-associated activity that uridylates 5′ RNA fragments generated by AGO1 cleavage

Guodong Ren, Meng Xie, Shuxin Zhang, Carissa Vinovskis, Xuemei Chen*, and Bin Yu*

publications   2014  PNAS

Noncoding RNAs and DNA Methylation in Plants

Yuanyuan Zhao and Xuemei Chen*

publications   2014  Natl Sci Rev

DNA Topoisomerase 1α promotes transcriptional silencing of transposable elements through DNA methylation and histone lysine 9 dimethylation in Arabidopsis

Thanh Theresa Dinh, Lei Gao, Xigang Liu, Dongming Li, Shengben Li, Yuanyuan Zhao, Michael O’Leary, Brandon Le, Robert J Schmitz, Pablo Manavella, Shaofang Li, Detlef Weigel, Olga Pontes, Joseph R Ecker, and Xuemei Chen*

publications   2014  PLoS Genet

Roles of small RNAs in soybean defense against Phytophthora sojae infection

James Wong, Lei Gao, Yang Yang, Jixian Zhai, Siwaret Arikit, Yu Yu, Shuyi Duan, Qin Xiong, Jun Yan, Shengben Li, Renyi Liu, Yuanchao Wang, Guiliang Tang, Blake C

publications   2014  Plant Journal

DNA topoisomerase I impacts Polycomb Group protein-mediated epigenetic regulation and plant development by reducing nucleosome density in Arabidopsis

Xigang Liu, Lei Gao, Thanh Theresa Dinh, Ting Shi, Dongming Li, Ruozhong Wang, Lin Guo, Langtao Xiao, and Xuemei Chen*

publications   2014  Plant Cell

AUXIN RESPONSE FACTOR 3 integrates the functions of AGAMOUS and APETALA2 in floral meristem determinacy

Xigang Liu*, Dongming Li, Thanh Theresa Dinh, Bihai Shi, Yongpeng Li, Xiuwei Cao, Lin Guo, Yanyun Pan, Yuling Jiao and Xuemei Chen*

publications   2014  Plant Journal

Small RNAs in plants: metabolism and function

So Youn Won, Rae Eden Yumul, and Xuemei Chen*

publications   2014  Molecular Biology

Small RNAs meet their targets: when methylation defends miRNAs from uridylation

Guodong Ren, Xuemei Chen, and Bin Yu*

publications   2014  RNA Biology

2013

POWERDRESS and diversified expression of the MIR172 gene family bolster the floral stem cell network

Rae Eden Yumul, Yun Ju Kim, Xigang Liu, Ruozhong Wang, Junhui Ding, Langtao Xiao, and Xuemei Chen*

publications   2013  Plos Genetics

Oomycete Pathogens Encode RNA Silencing Suppressors

Yongli Qiao, Lin Liu, Cristina Flores, James Wong, Xianbing Wang, Qijun Xiang, Xigang Liu, Shushu Jiang, Jinxia Shi, Fuchun Zhang, Howard S Judelson, Xuemei Chen, Wenbo Ma*

publications   2013  Nature Genetics

NOT2 proteins promote Pol II-dependent transcription and interact with multiple miRNA biogenesis factors in Arabidopsis

Lulu Wang, Xianwei Song, Liangfeng Gu, Xin Li, Shouyun Cao, Chengcai Chu, Xia Cui, Xuemei Chen and Xiaofeng Cao*

publications   2013  Plant Cell

Generation of a luciferase-based reporter for CHH and CG DNA methylation in Arabidopsis thaliana

Thanh Theresa Dinh, Michael O’Leary, So Youn Won, Shengben Li, Lorena Arroyo, Xigang Liu, Andrew Defries, Binglian Zheng, Sean R Cutler, and Xuemei Chen*

publications   2013  Silence

microRNAs inhibit the translation of target mRNAs on the endoplasmic reticulum in Arabidopsis

Shengben Li, Lin Liu, Xiaohong Zhuang, Yu Yu, Xigang Liu, Xia Cui, Lijuan Ji, Zhiqiang Pan, Xiaofeng Cao, Beixin Mo, Fuchun Zhang, Natasha Raikhel, Liwen Jiang, and Xuemei Chen*

publications   2013  Cell

Biogenesis, turnover and mode of action of plant microRNAs

Kestrel Rogers and Xuemei Chen*

publications   2013  Plant Cell

Plant microRNAs display differential 3′ truncation and tailing modifications that are ARGONAUTE1 dependent and conserved across species

Jixian Zhai, Yuanyuan Zhao, Stacey Simon, Sheng Huang, Katherine Petsch, Siwaret Arikit, Manoj Pillay, Lijuan Ji, Meng Xie, XiaoFeng Cao, Bin Yu, Marja Timmermans, Bing Yang, Xuemei Chen, and Blake Meyers*

publications   2013  Plant Cell

Trip to ER: microRNA-mediated translational repression in plants

Xuan Ma, Xiaofeng Cao, Beixin Mo, and Xuemei Chen*

publications   2013  RNA Biology

2012

Regulation of small RNA stability: Methylation and beyond

Lijuan Ji and Xuemei Chen*

publications   2012  Cell Research

Plant development — a snapshot in 2012

Xuemei Chen and Thomas Laux

publications   2012  Current Opinion in Plant Biology

Effective small RNA destruction by the expression of short tandem target mimic in Arabidopsis thaliana

Jun Yan, Yiyou Gu, Xiaoyun Jia, Wenjun Kang, Shanjin Pan, Xiaoqing Tang, Xuemei Chen, and Guiliang Tang*

publications   2012  Plant Cell

The Arabidopsis nucleotidyl transferase HESO1 uridylates unmethylated small RNAs to trigger their degradation

Yuanyuan Zhao, Yu Yu, Jixian Zhai, Vanitharani Ramachandran, Thanh Theresa Dinh, Blake C Meyers, Beixin Mo*, and Xuemei Chen*

publications   2012  Current Biology

Uridylation of miRNAs by HEN1 SUPPRESSOR1 in Arabidopsis

Guodong Ren, Xuemei Chen and Bin Yu*

publications   2012  Current Biology

The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element

Thanh Theresa Dinh, Thomas Girke, Xigang Liu, Levi Yant, Markus Schmid and Xuemei Chen*

publications   2012  Development

Genome-wide analysis of microRNAs in rubber tree (Hevea brasiliensis L

Manassawe Lertpanyasampatha, Lei Gao , Panida Kongsawadworakul, Unchera Viboonjun, Hervé Chrestin, Renyi Liu, Xuemei Chen*, and Jarunya Narangajavana*

publications   2012  ) using high throughput sequencing. Planta

A histone acetyltransferase regulates active DNA demethylation in Arabidopsis

Weiqiang Qian, Daisuke Miki, Heng Zhang, Yunhua Liu, Xi Zhang, Kai Tang, Yunchao Kan, Honggui La, Xiaojie Li, Shaofang Li, Xiaohong Zhu, Xiaobing Shi, Kangling Zhang, Olga Pontes, Xuemei Chen, Renyi Liu, Zhizhong Gong, and Jian-Kang Zhu*

publications   2012  Science

RNA Polymerase V-dependent small RNAs in Arabidopsis originate from small, intergenic loci including most SINE repeats

Tzuu-fen Lee, Sai Guna Ranjan Gurazada, Jixian Zhai, Shengben Li, Stacey A Simon, Marjori A Matzke, Xuemei Chen, and Blake C Meyers*

publications   2012  Epigenetics

Development of a luciferase-based reporter of transcriptional gene silencing that enables bidirectional mutant screening in Arabidopsis thaliana

So Youn Won, Shengben Li, Binglian Zheng, Yuanyuan Zhao, Dongming Li, Xin Zhao, Huilan Yi, Lei Gao, Thanh T Dinh and Xuemei Chen*

publications   2012  Silence

Small RNAs in development – insights from plants

Xuemei Chen*

publications   2012  Current Opinion in Genetics and Development

Mechanisms that impact microRNA stability in plants

Yuanyuan Zhao, Beixin Mo*, and Xuemei Chen*

publications   2012  RNA Biology

MicroRNA-mediated repression of the seed maturation program during vegetative development in Arabidopsis

Xurong Tang, Shaomin Bian, Mingjuan Tang, Qing Lu, Shengben Li, Xigang Liu, Gang Tian, Vi Nguyen, Edward WT Tsang, Aiming Wang, Steven J Rothstein, Xuemei Chen*, and Yuhai Cui*

publications   2012  Plos Genetics

MicroRNA biogenesis and turnover in plants

Kestrel Rogers and Xuemei Chen*

publications   2012  Cold Spring Harbor Symposia on Quantitative Biology

2011

The role of Mediator in small and long noncoding RNA production in Arabidopsis thaliana

Yun Ju Kim, Binglian Zheng, Yu Yu, So Youn Won, Beixin Mo, and Xuemei Chen*

publications   2011  EMBO J.

Dynamics of histone H3 lysine 27 trimethylation in plant development

Binglian Zheng and Xuemei Chen*

publications   2011  Current Opinion in Plant Biology

The plant Mediator and its role in noncoding RNA production

Yun Ju Kim and Xuemei Chen*

publications   2011  Frontiers in Biology

ARGONAUTE10 and ARGONAUTE1 regulate the termination of floral stem cells through two microRNAs in Arabidopsis

Lijuan Ji, Xigang Liu, Jun Yan, Wenming Wang, Rae Eden Yumul, Yu Ju Kim, Thanh Theresa Dinh, Jun Liu, Xia Cui, Binglian Zheng, Manu Agarwal, Chunyan Liu, Xiaofeng Cao, Guiliang Tang, and Xuemei Chen*

publications   2011  PLoS Genet

Dual regulation of Cyclin B1 by the Anaphase-Promoting Complex/Cyclosome during Arabidopsis male gametophyte development

Binglian Zheng, Xuemei Chen, and Sheila McCormick*

publications   2011  Plant Cell

LEUNIG and SEUSS co-repressors regulate miR172 expression in Arabidopsis flowers

Boyana Grigorova, Chloe Mara, Courtney Hollender, Paja Sijacic, Xuemei Chen, and Zhongchi Liu*

publications   2011  Development

AGAMOUS terminates floral stem cell maintenance in Arabidopsis by directly repressing WUSCHEL through recruitment of Polycomb Group proteins

Xigang Liu, Yun Ju Kim, Ralf Müller, Rae Eden Yumul, Chunyan Liu, Yanyun Pan, Xiaofeng Cao, Justin Goodrich, and Xuemei Chen*

publications   2011  Plant Cell

2010

Analysis of miRNA Modifications

Bin Yu and Xuemei Chen*

publications   2010  Methods Mol Biol.

Essential role and specificity of viral siRNA amplification by host RNA-directed RNA polymerase in viral immunity against a positive-strand RNA virus

Xian-Bing Wang, Qingfa Wu, Takao Ito, Fabrizio Cillo, Wang-Xiang Li, Xuemei Chen, Jia-Lin Yu, and Shou-Wei Ding*

publications   2010  PNAS

Small RNAs – secrets and surprises of the genome

Xuemei Chen

publications   2010  Plant Journal

siRNAs compete with miRNAs for methylation by HEN1 in Arabidopsis

Bin Yu, Liu Bi, Jixian Zhai, Manu Agarwal, Shengben Li, Qingfa Wu, Shou-Wei Ding, Blake C Meyers, Hervé Vaucheret, and Xuemei Chen*

publications   2010  Nucleic Acids Res.

Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2

Levi Yant, Johannes Mathieu, Thanh Theresa Dinh, Felix Ott, Christa Lanz, Heike Wollmann, Xuemei Chen, and Markus Schmid*

publications   2010  Plant Cell

Transcriptional silencing induced by Arabidopsis T-DNA mutants is associated with 35S promoter siRNAs and requires genes involved in siRNA-mediated chromatin silencing

Sizolwenkosi Mlotshwa*, Gail Pruss, Zhihuan Gao, Nomathamsanqa Mgutshini, Junjie Li, Xuemei Chen, Lewis Bowman, and Vicki Vance

publications   2010  Plant Journal

2009

Computational prediction of novel non-coding RNAs in Arabidopsis thaliana

Dandan Song, Yang Yang, Bin Yu, Binglian Zheng, Zhidong Deng, Bao-Liang Lu, Xuemei Chen*, and Tao Jiang*

publications   2009  BMC Bioinformatics

Endogenous small RNA pathways in Arabidopsis

Manu Agarwal, Julien Curaba, and Xuemei Chen*

publications   2009  Chapter

Structural insights into the molecular mechanism of the small RNA methyltransferase HEN1

Ying Huang, Lijuan Ji, Qichen Huang, Dmitry G Vassylyev, Xuemei Chen, Jin-Biao Ma*

publications   2009  Nature

Annu

Xuemei Chen* Small RNAs and their roles in plant development

publications   2009  Rev. Cell Dev. Biol.

Small RNAs serve as a genetic buffer against genomic shock in interspecies hybrids and allopolyploids

Misook Ha, Jie Lu, Lu Tian, Vanitharani Ramachandran, Kristin D Kasschau, Elisabeth J Chapman, James C Carrington, Xuemei Chen, Xiu-Jie Wang, and Z Jeffrey Chen*

publications   2009  PNAS

Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L)

Mingxiong Pang, Andrew W Woodward, Vikram Agarwal, Xueying Guan, Misook Ha, Vanitharani Ramachandran, Xuemei Chen, Barbara A Triplett, David M Stelly, and Z Jeffrey Chen*

publications   2009  Genome Biology

Intergenic transcription by RNA polymerase II coordinates Pol IV and Pol V in siRNA-directed transcriptional gene silencing in Arabidopsis

Binglian Zheng, Zhengming Wang, Shengben Li, Bin Yu, Jin-Yuan Liu, and Xuemei Chen*

publications   2009  Genes & Dev.

2008

MicroRNA metabolism in plants

Xuemei Chen

publications   2008  Current Topics in Microbiology and Immunology

Biochemical activities of Arabidopsis RNA-dependent RNA polymerase 6

Julien Curaba and Xuemei Chen*

publications   2008  Journal of Biological Chemistry

DICER-LIKE2 plays a primary role in transitive silencing of transgenes in Arabidopsis

Sizolwenkosi Mlotshwa, Gail J Pruss, Angela Peragine, Matthew W Endres, Junjie Li, Xuemei Chen, R Scott Poethig, Lewis H Bowman, and Vicki Vance*

publications   2008  Plos One

Small RNA-directed epigenetic natural variation in Arabidopsis thaliana

Jixian Zhai, Jun Liu, Bin Liu, Pingchuan Li, Blake C Meyers, Xuemei Chen and Xiaofeng Cao*

publications   2008  Plos Genetics

A silencing safeguard: links between RNA silencing and mRNA processing in Arabidopsis

Xuemei Chen*

publications   2008  Dev. Cell

Small RNA metabolism in Arabidopsis

Vanitharani Ramachandran and Xuemei Chen*

publications   2008  Trends in Plant Science

The FHA domain proteins DAWDLE in Arabidopsis and SNIP1 in humans act in small RNA biogenesis

Bin Yu, Liu Bi, Binglian Zheng, Lijuan Ji, David Chevalier, Manu Agarwal, Vanitharani Ramachandran, Wanxiang Li, Thierry Lagrange, John C Walker, and Xuemei Chen*

publications   2008  PNAS

Degradation of microRNAs by a family of exoribonucleases in Arabidopsis

Vanitharani Ramachandran and Xuemei Chen*

publications   2008  Science

Criteria for Annotation of Plant MicroRNAs

Blake C Meyers, Michael J Axtell, Bonnie Bartel, David P Bartel, David Baulcombe, John L Bowman, Xiaofeng Cao, James C Carrington, Xuemei Chen, Pamela J Green, Sam Griffiths-Jones, Steven E Jacobsen, Allison C Mallory, Robert A Martienssen, R Scott Poethig, Yijun Qi, Herve Vaucheret, Olivier Voinnet, Yuichiro Watanabe, Detlef Weigel and Jian-Kang Zhu

publications   2008  Plant Cell

2007

A marked end

Xuemei Chen*

publications   2007  Nature Structural and Molecular Biology

The regulation of genes and genomes by small RNAs

Victor Ambros and Xuemei Chen

publications   2007  Development

Approaches for studying microRNA and small interfering RNA methylation in vitro and in vivo

Zhiyong Yang, Giedrius Vilkaitis, Bin Yu, Saulius Klimašauskas, and Xuemei Chen*

publications   2007  Methods in Enzymology

miR172 regulates stem cell fate and defines the inner boundary of APETALA3 and PISTILLATA expression domain in Arabidopsis floral meristems

Li Zhao, YunJu Kim, Theresa Dinh, and Xuemei Chen*

publications   2007  Plant Journal

2006

HEN1 recognizes 21-24 nt small RNA duplexes and deposits a methyl group onto the 2’ OH of the 3’ terminal nucleotide

Zhiyong Yang, Yon W Ebright, Bin Yu, and Xuemei Chen*

publications   2006  Nuclei Acids Res.

Transgenically expressed viral RNA silencing suppressors interfere with microRNA methylation in Arabidopsis

Bin Yu, Elisabeth J Chapman, Zhiyong Yang, James C Carrington, and Xuemei Chen*

publications   2006  FEBS Letters

Floral patterning defects induced by Arabidopsis APETALA2 and microRNA172 expression in Nicotiana benthamiana

Sizolwenkosi Mlotshwa, Zhiyong Yang, YunJu Kim, and Xuemei Chen*

publications   2006  (

2005

Methylation as a crucial step in plant microRNA biogenesis

Bin Yu, Zhiyong Yang, Junjie Li, Svetlana Minakhina, Maocheng Yang, Richard W Padgett, Ruth Steward, and Xuemei Chen*

publications   2005  Science

Post-transcriptional processes and floral patterning

Xuemei Chen*

publications   2005  Flowering newsletter

Methylation protects miRNAs and siRNAs from a 3’ end uridylation activity in Arabidopsis

Junjie Li, Zhiyong Yang, Bin Yu, Jun Liu, and Xuemei Chen*

publications   2005  Current Biology

microRNA biogenesis and function in plants

Xuemei Chen*

publications   2005  FEBS Letters

2004

Post-transcriptional control in plant development

Yulan Cheng and Xuemei Chen*

publications   2004  Current Opinion in Plant Biology

A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development

Xuemei Chen*

publications   2004  Science

HUA ENHANCER3 reveals a role for a cyclin-dependent protein kinase in the specification of floral organ identity in Arabidopsis

Wenming Wang and Xuemei Chen*

publications   2004  Development

SiRNAs targeting an intronic transposon in the regulation of natural flowering behavior in Arabidopsis

Jun Liu, Yuehui He, Rick Amasino, and Xuemei Chen*

publications   2004  Genes Dev.

2003

Two RNA-binding proteins, HEN4 and HUA1, act in the processing of AGAMOUS pre-mRNA in Arabidopsis thaliana

Yulan Cheng, Naohiro Kato, Wenming Wang, Junjie Li, and Xuemei Chen*

publications   2003  Dev. Cell

A uniform system for microRNA annotation

Victor Ambros, Bonie Bartel, David P Bartel, Christopher B Burge, James C Carrington, Xuemei Chen, Gideon Dreyfuss, Dean Eddy, Sam Griffiths-Jones, Marjori Matzke, Gary Ruvkun, and Thomas Tuschl

publications   2003  RNA

Arabidopsis HEN1: a genetic link between endogenous miRNA controlling development and siRNA controlling post-transcriptional gene silencing and virus resistance

Stéphanie Boutet, Franck Vazquez, Jun Liu, Christophe Béclin, Mathilde Fagard, Ariane Gratias, Jean-Benoit Morel, Patrice Crété, Xuemei Chen, and Hervé Vaucheret

publications   2003  Current Biology

PAUSED, a putative exportin-t, acts in multiple developmental processes but is dispensable for viability in Arabidopsis

Junjie Li and Xuemei Chen*

publications   2003  Plant Physiology

2002

HEN1 functions pleiotropically in Arabidopsis development and acts in C function in the flower

Xuemei Chen*, Jun Liu, Yulan Cheng, and Dongxuan Jia

publications   2002  Development

HUA ENANCER2, a putative DExH-box RNA helicase, maintains homeotic B and C gene expression in Arabidopsis

Tamara Western, Yulan Cheng, Jun Liu, and Xuemei Chen*

publications   2002  Development

CARPEL FACTORY, the Dicer homologue, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana

Wonkeun Park, Junjie Li, Rentao Song, Joachim Messing, and Xuemei Chen*

publications   2002  Current Biology

2001

HUA1, a regulator of stamen and carpel identities in Arabidopsis, codes for a nuclear zinc finger protein

Junjie Li, and Dongxuan Jia, and Xuemei Chen*

publications   2001  Plant Cell

2000

The minimal regulatory region of the floral homeotic gene PISTILLATA does not contain a CArG box

Xuemei Chen, José Luis Riechmann, Dongxuan Jia and Elliot Meyerowitz

publications   2000  Sexual Plant Reproduction

1999

HUA1 and HUA2 are two members of the floral homeotic AGAMOUS pathway

Xuemei Chen, and Elliot M Meyerowitz

publications   1999  Mol. Cell

1998

A genetic screen for modifiers of UFO meristem activity identifies three novel FUSED FLORAL ORGANS genes required for early flower development in Arabidopsis

Joshua Z Levin, Jennifer C Fletcher, Xuemei Chen and Elliot M Meyerowitz

publications   1998  Genetics

1997

A dominant mutation in the Chlamydomonas reinhardtii nuclear gene SIM30 suppresses translational defects caused by initiation codon mutations in chloroplast genes

Xuemei Chen, Clare L Simpson, Karen Kindle and David Stern*

publications   1997  Genetics

1995

The initiation codon determines the efficiency but not the site of translation initiation in Chlamydomonas reinhardtii chloroplasts

Xuemei Chen, Karen Kindle and David Stern*

publications   1995  Plant Cell

1994

Function of the Chlamydomonas reinhardtii petD 5' untranslated region in regulating the accumulation of subunit IV of the cytochrome b6/f complex

Wataru Sakamoto, Xuemei Chen, Karen Kindle and David Stern

publications   1994  Plant Journal

1993

Initiation codon mutations in the Chlamydomonas chloroplast petD gene result in temperature-sensitive photosynthetic growth

Xuemei Chen, Karen Kindle and David Stern

publications   1993  EMBO J.

1992

Single amino acid change in the helicase domain of the putative RNA replicase of turnip crinkle virus alters symptom intensification by virulent satellites

Candace W Collmer, Laura Stenzler, Xuemei Chen, Nicholas Fay, David Hacker, and Stephen H Howell*

publications   1992  PNAS