Recent advances in CRISPR-based genome editing technology and its applications in cardiovascular research DOI Creative Commons
Zhenhua Li, Jun Wang, Jingping Xu

et al.

Military Medical Research, Journal Year: 2023, Volume and Issue: 10(1)

Published: March 10, 2023

Abstract The rapid development of genome editing technology has brought major breakthroughs in the fields life science and medicine. In recent years, clustered regularly interspaced short palindromic repeats (CRISPR)-based toolbox been greatly expanded, not only with emerging CRISPR-associated protein (Cas) nucleases, but also novel applications through combination diverse effectors. Recently, transposon-associated programmable RNA-guided systems have uncovered, adding myriads potential new tools to toolbox. CRISPR-based revolutionized cardiovascular research. Here we first summarize advances involving newly identified Cas orthologs, engineered variants systems, then discuss CRISPR-Cas precise editing, such as base prime editing. We highlight progress research using technologies, including generation genetically modified vitro animal models diseases (CVD) well treating different types CVD. Finally, current limitations future prospects technologies are discussed.

Language: Английский

Designing and executing prime editing experiments in mammalian cells DOI
Jordan L. Doman,

Alexander A. Sousa,

Peyton B. Randolph

et al.

Nature Protocols, Journal Year: 2022, Volume and Issue: 17(11), P. 2431 - 2468

Published: Aug. 8, 2022

Language: Английский

Citations

81
CRISPR technologies for genome, epigenome and transcriptome editing DOI
Lukas Villiger,

Julia Joung,

Luke W. Koblan

et al.

Nature Reviews Molecular Cell Biology, Journal Year: 2024, Volume and Issue: 25(6), P. 464 - 487

Published: Feb. 2, 2024

Language: Английский

Citations

75
Targeted genome-modification tools and their advanced applications in crop breeding DOI
Boshu Li, Chao Sun, Jiayang Li

et al.

Nature Reviews Genetics, Journal Year: 2024, Volume and Issue: 25(9), P. 603 - 622

Published: April 24, 2024

Language: Английский

Citations

58
Prediction of prime editing insertion efficiencies using sequence features and DNA repair determinants DOI Creative Commons
Jonas Koeppel, Juliane Weller, Elin Madli Peets

et al.

Nature Biotechnology, Journal Year: 2023, Volume and Issue: 41(10), P. 1446 - 1456

Published: Feb. 16, 2023

Most short sequences can be precisely written into a selected genomic target using prime editing; however, it remains unclear what factors govern insertion. We design library of 3,604 various lengths and measure the frequency their insertion four sites in three human cell lines, different editor systems varying DNA repair contexts. find that length, nucleotide composition secondary structure sequence all affect rates. also discover 3' flap nucleases TREX1 TREX2 suppress longer sequences. Combining features machine learning model, we predict relative insertions site with R = 0.70. Finally, demonstrate how our accurate prediction user-friendly software help choose codon variants common fusion tags insert at high efficiency, provide catalog empirically determined rates for over hundred useful

Language: Английский

Citations

50
Click editing enables programmable genome writing using DNA polymerases and HUH endonucleases DOI
Joana Ferreira da Silva, Connor J. Tou, Emily M. King

et al.

Nature Biotechnology, Journal Year: 2024, Volume and Issue: unknown

Published: July 22, 2024

Language: Английский

Citations

30
Chromatin context-dependent regulation and epigenetic manipulation of prime editing DOI Creative Commons
Xiaoyi Li, Wei Chen, Beth Martin

et al.

Cell, Journal Year: 2024, Volume and Issue: 187(10), P. 2411 - 2427.e25

Published: April 11, 2024

We set out to exhaustively characterize the impact of cis-chromatin environment on prime editing, a precise genome engineering tool. Using highly sensitive method for mapping genomic locations randomly integrated reporters, we discover massive position effects, exemplified by editing efficiencies ranging from ∼0% 94% an identical target site and edit. Position effects efficiency are well predicted chromatin marks, e.g., positively H3K79me2 negatively H3K9me3. Next, developed multiplex perturbational framework assess interaction trans-acting factors with outcomes. Applying this DNA repair factors, identify HLTF as context-dependent repressor editing. Finally, several lines evidence suggest that active transcriptional elongation enhances Consistent this, show can robustly decrease or increase preceding it CRISPR-mediated silencing activation, respectively.

Language: Английский

Citations

29
Precise genome-editing in human diseases: mechanisms, strategies and applications DOI Creative Commons

Yanjiang Zheng,

Yifei Li, Kaiyu Zhou

et al.

Signal Transduction and Targeted Therapy, Journal Year: 2024, Volume and Issue: 9(1)

Published: Feb. 26, 2024

Precise genome-editing platforms are versatile tools for generating specific, site-directed DNA insertions, deletions, and substitutions. The continuous enhancement of these has led to a revolution in the life sciences, which promises deliver novel therapies genetic disease. can be traced back 1950s with discovery DNA's double-helix and, after 70 years development, evolved from crude vitro applications wide range sophisticated capabilities, including vivo applications. Nonetheless, precise faces constraints such as modest efficiency, delivery challenges, off-target effects. In this review, we explore genome-editing, focus on introduction landmark events its history, various platforms, systems, First, discuss history genome-editing. Second, describe current state strategies explain how techniques offer unprecedented precision versatility modifying human genome. Third, introduce systems used deploy components through DNA, RNA, RNPs. Finally, summarize labeling endogenous genes, screening variants, molecular recording, disease models, gene therapy, ex therapy potential future advances.

Language: Английский

Citations

19
Advances in genomic tools for plant breeding: harnessing DNA molecular markers, genomic selection, and genome editing DOI Creative Commons
Rahul Kumar,

Sankar Prasad Das,

Burhan U. Choudhury

et al.

Biological Research, Journal Year: 2024, Volume and Issue: 57(1)

Published: Nov. 7, 2024

Abstract Conventional pre-genomics breeding methodologies have significantly improved crop yields since the mid-twentieth century. Genomics provides breeders with advanced tools for whole-genome study, enabling a direct genotype–phenotype analysis. This shift has led to precise and efficient development through genomics-based approaches, including molecular markers, genomic selection, genome editing. Molecular such as SNPs, are crucial identifying regions linked important traits, enhancing accuracy efficiency. Genomic resources viz. genetic reference genomes, sequence protein databases, transcriptomes, gene expression profiles, vital in plant aid identification of key understanding diversity, assist mapping, support marker-assisted selection speeding up programs. Advanced techniques like CRISPR/Cas9 allow modification, accelerating processes. Key Genome-Wide Association study (GWAS), Marker-Assisted Selection (MAS), (GS) enable trait prediction outcomes, improving yield, disease resistance, stress tolerance. These handy complex traits influenced by multiple genes environmental factors. paper explores new technologies editing showcasing their impact on developing varieties.

Language: Английский

Citations

18
Precise deletion, replacement and inversion of large DNA fragments in plants using dual prime editing DOI Creative Commons

Yidi Zhao,

Zhengwei Huang,

Ximeng Zhou

et al.

Nature Plants, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 13, 2025

Language: Английский

Citations

4
Plant base editing and prime editing: The current status and future perspectives DOI Open Access
Jingying Li, Chen Zhang, Yubing He

et al.

Journal of Integrative Plant Biology, Journal Year: 2022, Volume and Issue: 65(2), P. 444 - 467

Published: Dec. 7, 2022

Precise replacement of an allele with elite controlling important agronomic trait in a predefined manner by gene editing technologies is highly desirable crop improvement. Base and prime are two newly developed precision systems which can introduce the substitution single base install desired short indels to target loci absence double-strand breaks donor repair templates, respectively. Since their discoveries, various strategies have been attempted optimize both editor (BE) (PE) order improve precise efficacy, specificity, expand targeting scopes. Here, we summarize latest development BEs PEs, as well applications plants. Based on these progresses, recommend appropriate PEs for basic plant research Moreover, propose perspectives further optimization editors. We envision that will become routine customized tools biological improvement near future.

Language: Английский

Citations

46