Xiu Jie Wang

Summary

Affiliation: Institute of Genetics and Developmental Biology
Country: China

Publications

  1. doi request reprint Combining metabolomics and transcriptomics to characterize tanshinone biosynthesis in Salvia miltiorrhiza
    Wei Gao
    National Resource Center for Chinese Materia Medica, Academy of Chinese Medical Sciences, Beijing 100700, China
    BMC Genomics 15:73. 2014
  2. pmc The response and recovery of the Arabidopsis thaliana transcriptome to phosphate starvation
    Jongchan Woo
    Laboratory of Plant and Molecular Biology, The Rockefeller University, New York, NY 10065, USA
    BMC Plant Biol 12:62. 2012
  3. pmc Genome-wide annotation and analysis of zebra finch microRNA repertoire reveal sex-biased expression
    Guan Zheng Luo
    State Kay Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China
    BMC Genomics 13:727. 2012
  4. pmc Prediction of trans-antisense transcripts in Arabidopsis thaliana
    Huan Wang
    State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Genome Biol 7:R92. 2006
  5. pmc Gene expression profile analysis of tobacco leaf trichomes
    Hong Cui
    Key Laboratory for Cultivation of Tobacco Industry, College of Tobacco Science, Henan, Agricultural University, Zhengzhou, 450002, PR China
    BMC Plant Biol 11:76. 2011
  6. pmc Identification and functional characterization of small non-coding RNAs in Xanthomonas oryzae pathovar oryzae
    Hong Liang
    State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
    BMC Genomics 12:87. 2011
  7. pmc Complete sequence determination of a novel reptile iridovirus isolated from soft-shelled turtle and evolutionary analysis of Iridoviridae
    Youhua Huang
    State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat Sen University, 135 West Xingang Road, Guangzhou 510275, PR China
    BMC Genomics 10:224. 2009
  8. pmc Systematic identification and evolutionary features of rhesus monkey small nucleolar RNAs
    Yong Zhang
    National Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, School of Basic Medicine, Peking Union Medical College, Beijing, PR China
    BMC Genomics 11:61. 2010
  9. pmc Systematic identification of genes involved in divergent skeletal muscle growth rates of broiler and layer chickens
    Qi Zheng
    State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, PR China
    BMC Genomics 10:87. 2009
  10. pmc Formation of a functional maize centromere after loss of centromeric sequences and gain of ectopic sequences
    Bing Zhang
    State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Plant Cell 25:1979-89. 2013

Collaborators

  • Meng Wang
  • Bing Zhang
  • Shulan Fu
  • Xin Li
  • Jun Li
  • Jun Wang
  • Jian hua Zhao
  • Bin Liu
  • Yan Li
  • Bo Li
  • Wei Li
  • John M Cheeseman
  • Thomas Tuschl
  • Yang Liu
  • Lei Liu
  • Blake C Meyers
  • Hans J Bohnert
  • Jian Kang Zhu
  • Ning Xu
  • Ming Zhou
  • Hua Jun Wu
  • Ying Tao Zhao
  • Yong Zhang
  • Huan Wang
  • Wei Gao
  • Hai Xi Sun
  • Hongliang Zhu
  • Guan Zheng Luo
  • Chengcai Chu
  • Xianwei Song
  • Jongchan Woo
  • Jun Liu
  • Hong Cui
  • Hong Liang
  • Wei Cai Yang
  • Ying Chen
  • Dahai Zhu
  • Qi Zheng
  • Meng Bin Ruan
  • Youhua Huang
  • Nam Hai Chua
  • Alana Jackson
  • Nan Zhao
  • Ye Shen
  • Matthew L Hillwig
  • Luqi Huang
  • Reuben J Peters
  • Hongbin Xiao
  • Liangxiao Zhang
  • Guanghong Cui
  • Zhi Min Wang
  • Amber Lu
  • Chunxiao Ge
  • Zhaohu Li
  • Michael J Axtell
  • Xiuren Zhang
  • Claudia Castillo-Gonz├ílez
  • Yuyi Zhou
  • Liusheng Duan
  • Cameron Ross MacPherson
  • Zhonghui Zhang
  • Markus Hafner
  • Miguel Brown
  • Maheshi Dassanayake
  • Jinfang Chu
  • Fengxia Zhang
  • Wanke Zhang
  • Shouyun Cao
  • Pingchuan Li
  • Yi Nan Wang
  • Matthew A Hannah
  • Cun Kou Qi
  • Shuang Fang
  • Yaorong Wu
  • Lijia Ma
  • Takatoshi Kiba
  • Linfeng Yang
  • Jinsong Zhang
  • Zhao Yang
  • Jixian Zhai
  • Qi Xie
  • Pamela J Green
  • Jiumeng Min
  • Huawei Zhang
  • Dong Ha Oh
  • Sang Yeol Lee
  • Vladimir B Bajic
  • Quanfei Huang
  • Cunyu Yan
  • Ying Ke Ma

Detail Information

Publications20

  1. doi request reprint Combining metabolomics and transcriptomics to characterize tanshinone biosynthesis in Salvia miltiorrhiza
    Wei Gao
    National Resource Center for Chinese Materia Medica, Academy of Chinese Medical Sciences, Beijing 100700, China
    BMC Genomics 15:73. 2014
    ..However, the often-inducible nature of such metabolic processes enables selection of those genes whose expression pattern indicates a role in production of the targeted natural product...
  2. pmc The response and recovery of the Arabidopsis thaliana transcriptome to phosphate starvation
    Jongchan Woo
    Laboratory of Plant and Molecular Biology, The Rockefeller University, New York, NY 10065, USA
    BMC Plant Biol 12:62. 2012
    ..The work presented here describes a genome-wide resource on the molecular dynamics underpinning the response and recovery in roots and shoots of Arabidopsis thaliana to phosphate-starvation...
  3. pmc Genome-wide annotation and analysis of zebra finch microRNA repertoire reveal sex-biased expression
    Guan Zheng Luo
    State Kay Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China
    BMC Genomics 13:727. 2012
    ....
  4. pmc Prediction of trans-antisense transcripts in Arabidopsis thaliana
    Huan Wang
    State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Genome Biol 7:R92. 2006
    ..Experimental and computational methods have demonstrated the widespread occurrence of NATs in eukaryotes. However, most previous studies only focused on cis-NATs with little attention being paid to NATs that originate in trans...
  5. pmc Gene expression profile analysis of tobacco leaf trichomes
    Hong Cui
    Key Laboratory for Cultivation of Tobacco Industry, College of Tobacco Science, Henan, Agricultural University, Zhengzhou, 450002, PR China
    BMC Plant Biol 11:76. 2011
    ..They contribute to plant defense response against biotic and abiotic stress, and also influence leaf aroma and smoke flavor. However, there is limited genomic information about trichomes of this non-model plant species...
  6. pmc Identification and functional characterization of small non-coding RNAs in Xanthomonas oryzae pathovar oryzae
    Hong Liang
    State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
    BMC Genomics 12:87. 2011
    ..Xanthomonas oryzae pathovar oryzae (Xoo) is an important plant pathogenic bacterium which causes serious bacterial blight of rice. However, little is known about the number, genomic distribution and biological functions of sRNAs in Xoo...
  7. pmc Complete sequence determination of a novel reptile iridovirus isolated from soft-shelled turtle and evolutionary analysis of Iridoviridae
    Youhua Huang
    State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat Sen University, 135 West Xingang Road, Guangzhou 510275, PR China
    BMC Genomics 10:224. 2009
    ....
  8. pmc Systematic identification and evolutionary features of rhesus monkey small nucleolar RNAs
    Yong Zhang
    National Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, School of Basic Medicine, Peking Union Medical College, Beijing, PR China
    BMC Genomics 11:61. 2010
    ..However, most reports on these animals focus on the functional roles of protein-coding sequences, whereas very little is known about macaque ncRNAs...
  9. pmc Systematic identification of genes involved in divergent skeletal muscle growth rates of broiler and layer chickens
    Qi Zheng
    State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, PR China
    BMC Genomics 10:87. 2009
    ....
  10. pmc Formation of a functional maize centromere after loss of centromeric sequences and gain of ectopic sequences
    Bing Zhang
    State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Plant Cell 25:1979-89. 2013
    ..Our results indicate that functional centromeres may be formed without the known centromere-specific sequences, yet the maintenance of a high DNA methylation level seems to be crucial for the proper function of a new centromere. ..
  11. pmc Small RNA profiling in two Brassica napus cultivars identifies microRNAs with oil production- and development-correlated expression and new small RNA classes
    Ying Tao Zhao
    State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Plant Physiol 158:813-23. 2012
    ..A large number of 23-nucleotide small RNAs with specific nucleotide composition preferences were also identified, which may present new classes of functional small RNAs...
  12. pmc PsRobot: a web-based plant small RNA meta-analysis toolbox
    Hua Jun Wu
    The State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Nucleic Acids Res 40:W22-8. 2012
    ..The cross species conservation statuses and the multiplicity of smRNA target sites are also provided. PsRobot is freely accessible at http://omicslab.genetics.ac.cn/psRobot/...
  13. pmc Identification and characterization of small RNAs in the hyperthermophilic archaeon Sulfolobus solfataricus
    Ning Xu
    State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
    PLoS ONE 7:e35306. 2012
    ..Archaea represent a unique life form next to Bacteria and Eukarya, and our results may provide a useful resource for further in-depth study on the regulation and evolution of smRNAs in this special organism...
  14. pmc Insights into salt tolerance from the genome of Thellungiella salsuginea
    Hua Jun Wu
    State Key Laboratory of Plant Genomics, National Center for Plant Gene Research Beijing, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
    Proc Natl Acad Sci U S A 109:12219-24. 2012
    ..Comparative genomics and experimental analyses identified genes related to cation transport, abscisic acid signaling, and wax production prominent in T. salsuginea as possible contributors to its success in stressful environments...
  15. pmc Widespread long noncoding RNAs as endogenous target mimics for microRNAs in plants
    Hua Jun Wu
    State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Plant Physiol 161:1875-84. 2013
    ..The effectiveness of eTMs for three other miRNAs was also confirmed by transient agroinfiltration assay...
  16. pmc Bidirectional processing of pri-miRNAs with branched terminal loops by Arabidopsis Dicer-like1
    Hongliang Zhu
    1 Department of Biochemistry and Biophysics, Texas A and M University, College Station, Texas, USA 2 Institute of Plant Genomics and Biotechnology, Texas A and M University, College Station, Texas, USA 3 College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
    Nat Struct Mol Biol 20:1106-15. 2013
    ..DCL1 also adjusts processing sites toward an internal loop through its helicase domain. These results provide new insight into the poorly understood processing mechanism of pri-miRNAs with complex secondary structures. ..
  17. pmc De novo centromere formation on a chromosome fragment in maize
    Shulan Fu
    State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Proc Natl Acad Sci U S A 110:6033-6. 2013
    ..Collectively, these results define the behavior and molecular features of de novo centromere formation in the Dp3a chromosome, which may shed light on the initiation of new centromere sites during evolution...
  18. doi request reprint Conserved miRNA analysis in Gossypium hirsutum through small RNA sequencing
    Meng Bin Ruan
    Key Laboratory of Molecular and Developmental Biology, National Center for Plant Gene Research Beijing, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100080, China
    Genomics 94:263-8. 2009
    ..Multiple encoding loci of some miRNAs were identified by comparing the cloned miRNA and miR sequences...
  19. doi request reprint Androgenetic haploid embryonic stem cells produce live transgenic mice
    Wei Li
    State Key Laboratory of Reproductive Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
    Nature 490:407-11. 2012
    ..Our findings show the developmental pluripotency of androgenentic haploids and provide a new tool to quickly produce genetic models for recessive traits. They may also shed new light on assisted reproduction...
  20. doi request reprint Roles of DCL4 and DCL3b in rice phased small RNA biogenesis
    Xianwei Song
    State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
    Plant J 69:462-74. 2012
    ..Our results revealed significant roles of OsDCL4, OsDCL3b and OsDCL1 in the 21- and 24-nucleotide phased small RNA biogenesis pathway in rice...