Literature DB >> 32374833

Plant and animal chromatin three-dimensional organization: similar structures but different functions.

Pengfei Dong1,2, Xiaoyu Tu1,2, Zizheng Liang2, Byung-Ho Kang2, Silin Zhong1,2.   

Abstract

Chromatin is the main carrier of genetic information and is non-randomly distributed within the nucleus. Next-generation sequence-based chromatin conformation capture technologies have enabled us to directly examine its three-dimensional organization at an unprecedented scale and resolution. In the best-studied mammalian models, chromatin folding can be broken down into three hierarchical levels, compartment, domains, and loops, which play important roles in transcriptional regulation. Although similar structures have now been identified in plants, they might not possess exactly the same functions as the mammalian ones. Here, we review recent Hi-C studies in plants, compare plant chromatin structures with their mammalian counterparts, and discuss the differences between plants with different genome sizes.
© The Author(s) 2020. Published by Oxford University Press on behalf of the Society for Experimental Biology.

Entities:  

Keywords:  3D genome architecture; Hi-C; chromatin 3D structure; compartment; domain; loop

Mesh:

Substances:

Year:  2020        PMID: 32374833     DOI: 10.1093/jxb/eraa220

Source DB:  PubMed          Journal:  J Exp Bot        ISSN: 0022-0957            Impact factor:   6.992


  9 in total

Review 1.  Imaging the inner structure of chromosomes: contribution of focused ion beam/scanning electron microscopy to chromosome research.

Authors:  Astari Dwiranti; Fendi Sofyan Arifudin; Toshiyuki Wako; Kiichi Fukui
Journal:  Chromosome Res       Date:  2021-02-15       Impact factor: 5.239

Review 2.  An insight into understanding the coupling between homologous recombination mediated DNA repair and chromatin remodeling mechanisms in plant genome: an update.

Authors:  Samrat Banerjee; Sujit Roy
Journal:  Cell Cycle       Date:  2021-08-26       Impact factor: 5.173

Review 3.  Predicting 3D chromatin interactions from DNA sequence using Deep Learning.

Authors:  Robert S Piecyk; Luca Schlegel; Frank Johannes
Journal:  Comput Struct Biotechnol J       Date:  2022-06-25       Impact factor: 6.155

4.  Modeling the 3D genome of plants.

Authors:  Marco Di Stefano; Hans-Wilhelm Nützmann
Journal:  Nucleus       Date:  2021-12       Impact factor: 4.197

Review 5.  Chromatin Dynamics and Transcriptional Control of Circadian Rhythms in Arabidopsis.

Authors:  Aida Maric; Paloma Mas
Journal:  Genes (Basel)       Date:  2020-10-06       Impact factor: 4.096

Review 6.  Multifaceted Chromatin Structure and Transcription Changes in Plant Stress Response.

Authors:  Jin-Hong Kim
Journal:  Int J Mol Sci       Date:  2021-02-18       Impact factor: 5.923

Review 7.  Relevance and Regulation of Alternative Splicing in Plant Heat Stress Response: Current Understanding and Future Directions.

Authors:  Remus R E Rosenkranz; Sarah Ullrich; Karin Löchli; Stefan Simm; Sotirios Fragkostefanakis
Journal:  Front Plant Sci       Date:  2022-06-23       Impact factor: 6.627

8.  Mysteries of gene regulation: Promoters are not the sole triggers of gene expression.

Authors:  Chi-Nga Chow; Kuan-Chieh Tseng; Ping-Fu Hou; Nai-Yun Wu; Tzong-Yi Lee; Wen-Chi Chang
Journal:  Comput Struct Biotechnol J       Date:  2022-09-05       Impact factor: 6.155

Review 9.  Understanding 3D Genome Organization and Its Effect on Transcriptional Gene Regulation Under Environmental Stress in Plant: A Chromatin Perspective.

Authors:  Suresh Kumar; Simardeep Kaur; Karishma Seem; Santosh Kumar; Trilochan Mohapatra
Journal:  Front Cell Dev Biol       Date:  2021-12-08
  9 in total

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