Literature DB >> 33558716

Engineering 3D genome organization.

Haifeng Wang1, Mengting Han1, Lei S Qi2,3,4.   

Abstract

Cancers and developmental disorders are associated with alterations in the 3D genome architecture in space and time (the fourth dimension). Mammalian 3D genome organization is complex and dynamic and plays an essential role in regulating gene expression and cellular function. To study the causal relationship between genome function and its spatio-temporal organization in the nucleus, new technologies for engineering and manipulating the 3D organization of the genome have been developed. In particular, CRISPR-Cas technologies allow programmable manipulation at specific genomic loci, enabling unparalleled opportunities in this emerging field of 3D genome engineering. We review advances in mammalian 3D genome engineering with a focus on recent manipulative technologies using CRISPR-Cas and related technologies.

Entities:  

Year:  2021        PMID： 33558716     DOI： 10.1038/s41576-020-00325-5

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN： 1471-0056            Impact factor:   53.242


  181 in total

Review 1.  Chromatin dynamics and gene positioning.

Authors:  R Ileng Kumaran; Rajika Thakar; David L Spector
Journal:  Cell       Date:  2008-03-21       Impact factor: 41.582

Review 2.  The spatial organization of the human genome.

Authors:  Wendy A Bickmore
Journal:  Annu Rev Genomics Hum Genet       Date:  2013-07-15       Impact factor: 8.929

Review 3.  Nuclear compartmentalization, dynamics, and function of regulatory DNA sequences.

Authors:  Marion Cremer; Thomas Cremer
Journal:  Genes Chromosomes Cancer       Date:  2019-01-29       Impact factor: 5.006

Review 4.  The role of 3D genome organization in development and cell differentiation.

Authors:  Hui Zheng; Wei Xie
Journal:  Nat Rev Mol Cell Biol       Date:  2019-09       Impact factor: 94.444

Review 5.  The Three-Dimensional Organization of Mammalian Genomes.

Authors:  Miao Yu; Bing Ren
Journal:  Annu Rev Cell Dev Biol       Date:  2017-08-07       Impact factor: 13.827

Review 6.  Control of DNA replication timing in the 3D genome.

Authors:  Claire Marchal; Jiao Sima; David M Gilbert
Journal:  Nat Rev Mol Cell Biol       Date:  2019-09-02       Impact factor: 94.444

7.  Nuclear aggregation of olfactory receptor genes governs their monogenic expression.

Authors:  E Josephine Clowney; Mark A LeGros; Colleen P Mosley; Fiona G Clowney; Eirene C Markenskoff-Papadimitriou; Markko Myllys; Gilad Barnea; Carolyn A Larabell; Stavros Lomvardas
Journal:  Cell       Date:  2012-11-09       Impact factor: 41.582

8.  The 4D nucleome project.

Authors:  Job Dekker; Andrew S Belmont; Mitchell Guttman; Victor O Leshyk; John T Lis; Stavros Lomvardas; Leonid A Mirny; Clodagh C O'Shea; Peter J Park; Bing Ren; Joan C Ritland Politz; Jay Shendure; Sheng Zhong
Journal:  Nature       Date:  2017-09-13       Impact factor: 49.962

Review 9.  Long-range enhancer-promoter contacts in gene expression control.

Authors:  Stefan Schoenfelder; Peter Fraser
Journal:  Nat Rev Genet       Date:  2019-08       Impact factor: 53.242

Review 10.  The interdependence of gene-regulatory elements and the 3D genome.

Authors:  Marit W Vermunt; Di Zhang; Gerd A Blobel
Journal:  J Cell Biol       Date:  2018-11-15       Impact factor: 10.539
View more
  8 in total

1.  Mesoscale structure-function relationships in mitochondrial transcriptional condensates.

Authors:  Marina Feric; Azadeh Sarfallah; Furqan Dar; Dmitry Temiakov; Rohit V Pappu; Tom Misteli
Journal:  Proc Natl Acad Sci U S A       Date:  2022-10-03       Impact factor: 12.779

2.  Manipulating complex chromatin folding via CRISPR-guided bioorthogonal chemistry.

Authors:  Geng Qin; Jie Yang; Chuanqi Zhao; Jinsong Ren; Xiaogang Qu
Journal:  Proc Natl Acad Sci U S A       Date:  2022-08-29       Impact factor: 12.779

3.  Gene Expression Profile Provides Novel Insights of Fasting-Refeeding Response in Zebrafish Skeletal Muscle.

Authors:  Takehito Sugasawa; Ritsuko Komine; Lev Manevich; Shinsuke Tamai; Kazuhiro Takekoshi; Yasuharu Kanki
Journal:  Nutrients       Date:  2022-05-27       Impact factor: 6.706

4.  A Unifying Framework for Understanding Biological Structures and Functions Across Levels of Biological Organization.

Authors:  M A Herman; B R Aiello; J D DeLong; H Garcia-Ruiz; A L González; W Hwang; C McBeth; E A Stojković; M A Trakselis; N Yakoby
Journal:  Integr Comp Biol       Date:  2022-02-05       Impact factor: 3.326

5.  CRISPR-Cas-Mediated Tethering Recruits the Yeast HMR Mating-Type Locus to the Nuclear Periphery but Fails to Silence Gene Expression.

Authors:  Emily R Cliff; Robin L Kirkpatrick; Daniel Cunningham-Bryant; Brianna Fernandez; Joseph L Harman; Jesse G Zalatan
Journal:  ACS Synth Biol       Date:  2021-11-01       Impact factor: 5.110

6.  Interrogation of the dynamic properties of higher-order heterochromatin using CRISPR-dCas9.

Authors:  Yuchen Gao; Mengting Han; Stephen Shang; Haifeng Wang; Lei S Qi
Journal:  Mol Cell       Date:  2021-08-23       Impact factor: 19.328

7.  Benyuan Charity Fund-Young Investigator Exploration Award.

Authors: 
Journal:  Sci China Life Sci       Date:  2022-04-20       Impact factor: 10.372

8.  The 3D architecture of the pepper genome and its relationship to function and evolution.

Authors:  Yi Liao; Juntao Wang; Zhangsheng Zhu; Yuanlong Liu; Jinfeng Chen; Yongfeng Zhou; Feng Liu; Jianjun Lei; Brandon S Gaut; Bihao Cao; J J Emerson; Changming Chen
Journal:  Nat Commun       Date:  2022-06-16       Impact factor: 17.694
  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.