Literature DB >> 18455978

Epigenome sequencing comes of age.

Jian-Kang Zhu1.   

Abstract

Epigenetic states are responsive to developmental and environmental signals, and as a consequence a eukaryotic cell can have many different epigenomes. In this issue of Cell, Lister et al. (2008) present the floral epigenome of Arabidopsis using next-generation sequencing technology to analyze both DNA methylation at single-base resolution and the expression of small RNAs.

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Year:  2008        PMID： 18455978      PMCID： PMC3137521          DOI： 10.1016/j.cell.2008.04.016

Source DB:  PubMed          Journal:  Cell        ISSN： 0092-8674            Impact factor:   41.582


  9 in total

1.  Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis.

Authors:  Xiaoyu Zhang; Junshi Yazaki; Ambika Sundaresan; Shawn Cokus; Simon W-L Chan; Huaming Chen; Ian R Henderson; Paul Shinn; Matteo Pellegrini; Steve E Jacobsen; Joseph R Ecker
Journal:  Cell       Date:  2006-08-31       Impact factor: 41.582

2.  The DNA glycosylase/lyase ROS1 functions in pruning DNA methylation patterns in Arabidopsis.

Authors:  Jianhua Zhu; Avnish Kapoor; Vaniyambadi V Sridhar; Fernanda Agius; Jian-Kang Zhu
Journal:  Curr Biol       Date:  2007-01-09       Impact factor: 10.834

3.  Endogenous targets of RNA-directed DNA methylation and Pol IV in Arabidopsis.

Authors:  Bruno Huettel; Tatsuo Kanno; Lucia Daxinger; Werner Aufsatz; Antonius J M Matzke; Marjori Matzke
Journal:  EMBO J       Date:  2006-05-25       Impact factor: 11.598

Review 4.  Epigenetic inheritance in plants.

Authors:  Ian R Henderson; Steven E Jacobsen
Journal:  Nature       Date:  2007-05-24       Impact factor: 49.962

5.  DNA demethylation in the Arabidopsis genome.

Authors:  Jon Penterman; Daniel Zilberman; Jin Hoe Huh; Tracy Ballinger; Steven Henikoff; Robert L Fischer
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-04       Impact factor: 11.205

Review 6.  The mammalian epigenome.

Authors:  Bradley E Bernstein; Alexander Meissner; Eric S Lander
Journal:  Cell       Date:  2007-02-23       Impact factor: 41.582

7.  Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription.

Authors:  Daniel Zilberman; Mary Gehring; Robert K Tran; Tracy Ballinger; Steven Henikoff
Journal:  Nat Genet       Date:  2006-11-26       Impact factor: 38.330

8.  ROS1, a repressor of transcriptional gene silencing in Arabidopsis, encodes a DNA glycosylase/lyase.

Authors:  Zhizhong Gong; Teresa Morales-Ruiz; Rafael R Ariza; Teresa Roldán-Arjona; Lisa David; Jian Kang Zhu
Journal:  Cell       Date:  2002-12-13       Impact factor: 41.582

9.  Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning.

Authors:  Shawn J Cokus; Suhua Feng; Xiaoyu Zhang; Zugen Chen; Barry Merriman; Christian D Haudenschild; Sriharsa Pradhan; Stanley F Nelson; Matteo Pellegrini; Steven E Jacobsen
Journal:  Nature       Date:  2008-02-17       Impact factor: 49.962
  9 in total
  24 in total

Review 1.  RNA-directed DNA methylation: mechanisms and functions.

Authors:  Magdy M Mahfouz
Journal:  Plant Signal Behav       Date:  2010-07-01

Review 2.  Integrated genomics and molecular breeding approaches for dissecting the complex quantitative traits in crop plants.

Authors:  Alice Kujur; Maneesha S Saxena; Deepak Bajaj; Swarup K Parida
Journal:  J Biosci       Date:  2013-12       Impact factor: 1.826

3.  Systems biology update: cell type-specific transcriptional regulatory networks.

Authors:  Li Pu; Siobhan Brady
Journal:  Plant Physiol       Date:  2009-12-04       Impact factor: 8.340

4.  RNA-directed DNA methylation in plants.

Authors:  Ali Movahedi; Weibu Sun; Jiaxin Zhang; Xiaolong Wu; Mohaddesseh Mousavi; Kourosh Mohammadi; Tongming Yin; Qiang Zhuge
Journal:  Plant Cell Rep       Date:  2015-07-17       Impact factor: 4.570

Review 5.  Plant salt-tolerance mechanisms.

Authors:  Ulrich Deinlein; Aaron B Stephan; Tomoaki Horie; Wei Luo; Guohua Xu; Julian I Schroeder
Journal:  Trends Plant Sci       Date:  2014-03-14       Impact factor: 18.313

6.  Genome-wide identification and expression profiling of DNA methyltransferase gene family in maize.

Authors:  Yexiong Qian; Yilong Xi; Beijiu Cheng; Suwen Zhu
Journal:  Plant Cell Rep       Date:  2014-06-21       Impact factor: 4.570

7.  Transgenerational phenotypic and epigenetic changes in response to heat stress in Arabidopsis thaliana.

Authors:  Zoë Migicovsky; Youli Yao; Igor Kovalchuk
Journal:  Plant Signal Behav       Date:  2014-02-10

Review 8.  Epigenetic regulation of stress responses in plants.

Authors:  Viswanathan Chinnusamy; Jian-Kang Zhu
Journal:  Curr Opin Plant Biol       Date:  2009-01-27       Impact factor: 7.834

9.  Global epigenetic and transcriptional trends among two rice subspecies and their reciprocal hybrids.

Authors:  Guangming He; Xiaopeng Zhu; Axel A Elling; Liangbi Chen; Xiangfeng Wang; Lan Guo; Manzhong Liang; Hang He; Huiyong Zhang; Fangfang Chen; Yijun Qi; Runsheng Chen; Xing-Wang Deng
Journal:  Plant Cell       Date:  2010-01-19       Impact factor: 11.277

Review 10.  RNA-directed DNA methylation and demethylation in plants.

Authors:  Viswanathan Chinnusamy; Jian-Kang Zhu
Journal:  Sci China C Life Sci       Date:  2009-04-21
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