Literature DB >> 27593567

Plant Enhancers: A Call for Discovery.

Blaise Weber1, Johan Zicola2, Rurika Oka1, Maike Stam3.   

Abstract

Higher eukaryotes typically contain many different cell types, displaying different cellular functions that are influenced by biotic and abiotic cues. The different functions are characterized by specific gene expression patterns mediated by regulatory sequences such as transcriptional enhancers. Recent genome-wide approaches have identified thousands of enhancers in animals, reviving interest in enhancers in gene regulation. Although the regulatory roles of plant enhancers are as crucial as those in animals, genome-wide approaches have only very recently been applied to plants. Here we review characteristics of enhancers at the DNA and chromatin level in plants and other species, their similarities and differences, and techniques widely used for genome-wide discovery of enhancers in animal systems that can be implemented in plants.
Copyright © 2016 Elsevier Ltd. All rights reserved.

Keywords:  chromatin structure; enhancer; gene regulation; transcription factor

Mesh:

Substances:

Year:  2016        PMID: 27593567     DOI: 10.1016/j.tplants.2016.07.013

Source DB:  PubMed          Journal:  Trends Plant Sci        ISSN: 1360-1385            Impact factor:   18.313


  38 in total

1.  A spatiotemporally regulated transcriptional complex underlies heteroblastic development of leaf hairs in Arabidopsis thaliana.

Authors:  Long Wang; Chuan-Miao Zhou; Yan-Xia Mai; Ling-Zi Li; Jian Gao; Guang-Dong Shang; Heng Lian; Lin Han; Tian-Qi Zhang; Hong-Bo Tang; Hang Ren; Fu-Xiang Wang; Lian-Yu Wu; Xiao-Li Liu; Chang-Sheng Wang; Er-Wang Chen; Xue-Ning Zhang; Chang Liu; Jia-Wei Wang
Journal:  EMBO J       Date:  2019-03-06       Impact factor: 11.598

2.  A Remote cis-Regulatory Region Is Required for NIN Expression in the Pericycle to Initiate Nodule Primordium Formation in Medicago truncatula.

Authors:  Jieyu Liu; Luuk Rutten; Erik Limpens; Tjitse van der Molen; Robin van Velzen; Rujin Chen; Yuhui Chen; Rene Geurts; Wouter Kohlen; Olga Kulikova; Ton Bisseling
Journal:  Plant Cell       Date:  2019-01-04       Impact factor: 11.277

3.  Complex Relationships between Chromatin Accessibility, Sequence Divergence, and Gene Expression in Arabidopsis thaliana.

Authors:  Cristina M Alexandre; James R Urton; Ken Jean-Baptiste; John Huddleston; Michael W Dorrity; Josh T Cuperus; Alessandra M Sullivan; Felix Bemm; Dino Jolic; Andrej A Arsovski; Agnieszka Thompson; Jennifer L Nemhauser; Stan Fields; Detlef Weigel; Kerry L Bubb; Christin Queitsch
Journal:  Mol Biol Evol       Date:  2018-04-01       Impact factor: 16.240

4.  Plants are intelligent, here's how.

Authors:  Paco Calvo; Monica Gagliano; Gustavo M Souza; Anthony Trewavas
Journal:  Ann Bot       Date:  2020-01-08       Impact factor: 4.357

5.  Stable unmethylated DNA demarcates expressed genes and their cis-regulatory space in plant genomes.

Authors:  Peter A Crisp; Alexandre P Marand; Jaclyn M Noshay; Peng Zhou; Zefu Lu; Robert J Schmitz; Nathan M Springer
Journal:  Proc Natl Acad Sci U S A       Date:  2020-09-02       Impact factor: 11.205

Review 6.  ChIP-ping the branches of the tree: functional genomics and the evolution of eukaryotic gene regulation.

Authors:  Georgi K Marinov; Anshul Kundaje
Journal:  Brief Funct Genomics       Date:  2018-03-01       Impact factor: 4.241

7.  Profiling of Accessible Chromatin Regions across Multiple Plant Species and Cell Types Reveals Common Gene Regulatory Principles and New Control Modules.

Authors:  Kelsey A Maher; Marko Bajic; Kaisa Kajala; Mauricio Reynoso; Germain Pauluzzi; Donnelly A West; Kristina Zumstein; Margaret Woodhouse; Kerry Bubb; Michael W Dorrity; Christine Queitsch; Julia Bailey-Serres; Neelima Sinha; Siobhan M Brady; Roger B Deal
Journal:  Plant Cell       Date:  2017-12-11       Impact factor: 11.277

8.  Identification of Plant Enhancers and Their Constituent Elements by STARR-seq in Tobacco Leaves.

Authors:  Tobias Jores; Jackson Tonnies; Michael W Dorrity; Josh T Cuperus; Stanley Fields; Christine Queitsch
Journal:  Plant Cell       Date:  2020-05-14       Impact factor: 11.277

9.  Parental DNA Methylation States Are Associated with Heterosis in Epigenetic Hybrids.

Authors:  Kathrin Lauss; René Wardenaar; Rurika Oka; Marieke H A van Hulten; Victor Guryev; Joost J B Keurentjes; Maike Stam; Frank Johannes
Journal:  Plant Physiol       Date:  2017-12-01       Impact factor: 8.340

10.  Enhancer-Promoter Interaction of SELF PRUNING 5G Shapes Photoperiod Adaptation.

Authors:  Shuaibin Zhang; Zhicheng Jiao; Lei Liu; Ketao Wang; Deyi Zhong; Shengben Li; Tingting Zhao; Xiangyang Xu; Xia Cui
Journal:  Plant Physiol       Date:  2018-10-10       Impact factor: 8.340

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