Literature DB >> 25765928

Epigenetic and developmental regulation in plant polyploids.

Qingxin Song1, Z Jeffrey Chen2.   

Abstract

Polyploidy or whole-genome duplication occurs in some animals and many flowering plants, including many important crops such as wheat, cotton and oilseed rape. The prevalence of polyploidy in the plant kingdom suggests it as an important evolutionary feature for plant speciation and crop domestication. Studies of natural and synthetic polyploids have revealed rapid and dynamic changes in genomic structure and gene expression after polyploid formation. Growing evidence suggests that epigenetic modifications can alter homoeologous gene expression and reprogram gene expression networks, which allows polyploids to establish new cytotypes, grow vigorously and promote adaptation in local environments. Sequence and gene expression changes in polyploids have been well documented and reviewed elsewhere. This review is focused on developmental regulation and epigenetic changes including DNA methylation and histone modifications in polyploids.
Copyright © 2015 Elsevier Ltd. All rights reserved.

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Year:  2015        PMID: 25765928      PMCID: PMC4395545          DOI: 10.1016/j.pbi.2015.02.007

Source DB:  PubMed          Journal:  Curr Opin Plant Biol        ISSN: 1369-5266            Impact factor:   7.834


  85 in total

Review 1.  The advantages and disadvantages of being polyploid.

Authors:  Luca Comai
Journal:  Nat Rev Genet       Date:  2005-11       Impact factor: 53.242

2.  Genomewide nonadditive gene regulation in Arabidopsis allotetraploids.

Authors:  Jianlin Wang; Lu Tian; Hyeon-Se Lee; Ning E Wei; Hongmei Jiang; Brian Watson; Andreas Madlung; Thomas C Osborn; R W Doerge; Luca Comai; Z Jeffrey Chen
Journal:  Genetics       Date:  2005-09-19       Impact factor: 4.562

3.  Protein-coding genes are epigenetically regulated in Arabidopsis polyploids.

Authors:  H S Lee; Z J Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2001-05-22       Impact factor: 11.205

4.  Epigenetic silencing of RNA polymerase I transcription: a role for DNA methylation and histone modification in nucleolar dominance.

Authors:  Z J Chen; C S Pikaard
Journal:  Genes Dev       Date:  1997-08-15       Impact factor: 11.361

5.  Rapid structural and epigenetic reorganization near transposable elements in hybrid and allopolyploid genomes in Spartina.

Authors:  Christian Parisod; Armel Salmon; Tatiana Zerjal; Maud Tenaillon; Marie-Angèle Grandbastien; Malika Ainouche
Journal:  New Phytol       Date:  2009-09-23       Impact factor: 10.151

6.  Reciprocal silencing, transcriptional bias and functional divergence of homeologs in polyploid cotton (gossypium).

Authors:  Bhupendra Chaudhary; Lex Flagel; Robert M Stupar; Joshua A Udall; Neetu Verma; Nathan M Springer; Jonathan F Wendel
Journal:  Genetics       Date:  2009-04-10       Impact factor: 4.562

7.  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

8.  Hypomethylated pollen bypasses the interploidy hybridization barrier in Arabidopsis.

Authors:  Nicole Schatlowski; Philip Wolff; Juan Santos-González; Vera Schoft; Alexey Siretskiy; Rod Scott; Hisashi Tamaru; Claudia Köhler
Journal:  Plant Cell       Date:  2014-09-12       Impact factor: 11.277

9.  Parent-of-origin effects on seed development in Arabidopsis thaliana.

Authors:  R J Scott; M Spielman; J Bailey; H G Dickinson
Journal:  Development       Date:  1998-09       Impact factor: 6.868

10.  Imprinting of the polycomb group gene MEDEA serves as a ploidy sensor in Arabidopsis.

Authors:  Aleksandra Erilova; Lynette Brownfield; Vivien Exner; Marisa Rosa; David Twell; Ortrun Mittelsten Scheid; Lars Hennig; Claudia Köhler
Journal:  PLoS Genet       Date:  2009-09-25       Impact factor: 5.917

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  61 in total

Review 1.  Challenges and prospects for a potential allohexaploid Brassica crop.

Authors:  Kangni Zhang; Annaliese S Mason; Muhammad A Farooq; Faisal Islam; Daniela Quezada-Martinez; Dandan Hu; Su Yang; Jun Zou; Weijun Zhou
Journal:  Theor Appl Genet       Date:  2021-06-04       Impact factor: 5.699

Review 2.  The evolutionary significance of polyploidy.

Authors:  Yves Van de Peer; Eshchar Mizrachi; Kathleen Marchal
Journal:  Nat Rev Genet       Date:  2017-05-15       Impact factor: 53.242

3.  Retroelements and DNA Methylation Could Contribute to Diversity of 5S rDNA in Agave L.

Authors:  Y J Tamayo-Ordóñez; J A Narváez-Zapata; M C Tamayo-Ordóñez; L F Sánchez-Teyer
Journal:  J Mol Evol       Date:  2018-07-10       Impact factor: 2.395

4.  Genome-Wide Dosage-Dependent and -Independent Regulation Contributes to Gene Expression and Evolutionary Novelty in Plant Polyploids.

Authors:  Xiaoli Shi; Changqing Zhang; Dae Kwan Ko; Z Jeffrey Chen
Journal:  Mol Biol Evol       Date:  2015-05-14       Impact factor: 16.240

5.  Histone Modifications Define Expression Bias of Homoeologous Genomes in Allotetraploid Cotton.

Authors:  Dewei Zheng; Wenxue Ye; Qingxin Song; Fangpu Han; Tianzhen Zhang; Z Jeffrey Chen
Journal:  Plant Physiol       Date:  2016-09-16       Impact factor: 8.340

Review 6.  Creating Order from Chaos: Epigenome Dynamics in Plants with Complex Genomes.

Authors:  Nathan M Springer; Damon Lisch; Qing Li
Journal:  Plant Cell       Date:  2016-02-11       Impact factor: 11.277

7.  Comparative genomics reveals origin of MIR159A-MIR159B paralogy, and complexities of PTGS interaction between miR159 and target GA-MYBs in Brassicaceae.

Authors:  Saurabh Anand; Mukund Lal; Sandip Das
Journal:  Mol Genet Genomics       Date:  2019-03-06       Impact factor: 3.291

8.  Epigenetic diversity of Saccharum spp. accessions assessed by methylation-sensitive amplification polymorphism (MSAP).

Authors:  Alessandra Alves Martins; Marcel F da Silva; Luciana Rossini Pinto
Journal:  3 Biotech       Date:  2020-05-24       Impact factor: 2.406

9.  Subgenome Dominance in an Interspecific Hybrid, Synthetic Allopolyploid, and a 140-Year-Old Naturally Established Neo-Allopolyploid Monkeyflower.

Authors:  Patrick P Edger; Ronald Smith; Michael R McKain; Arielle M Cooley; Mario Vallejo-Marin; Yaowu Yuan; Adam J Bewick; Lexiang Ji; Adrian E Platts; Megan J Bowman; Kevin L Childs; Jacob D Washburn; Robert J Schmitz; Gregory D Smith; J Chris Pires; Joshua R Puzey
Journal:  Plant Cell       Date:  2017-08-16       Impact factor: 11.277

10.  The Influence of Polyploidy and Genome Composition on Genomic Imprinting in Mice.

Authors:  Wataru Yamazaki; Tomoko Amano; Hanako Bai; Masashi Takahashi; Manabu Kawahara
Journal:  J Biol Chem       Date:  2016-08-16       Impact factor: 5.157

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