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随机PE:通过碱基编辑将随机序列高效整合到哺乳动物基因组中。

Random-PE: an efficient integration of random sequences into mammalian genome by prime editing.

作者信息

Jiao Yaoge, Zhou Lifang, Tao Rui, Wang Yanhong, Hu Yun, Jiang Lurong, Li Li, Yao Shaohua

机构信息

State Key Laboratory of Biotherapy, Laboratory of Biotherapy, National Key Laboratory of Biotherapy, Cancer Center, West China Hospital, Sichuan University, Renmin Nanlu 17, Chengdu, 610041, Sichuan, China.

出版信息

Mol Biomed. 2021 Nov 18;2(1):36. doi: 10.1186/s43556-021-00057-w.


DOI:10.1186/s43556-021-00057-w
PMID:35006470
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8607425/
Abstract

Prime editing (PE) enables efficiently targeted introduction of multiple types of small-sized genetic change without requiring double-strand breaks or donor templates. Here we designed a simple strategy to introduce random DNA sequences into targeted genomic loci by prime editing, which we named random prime editing (Random-PE). In our strategy, the prime editing guide RNA (pegRNA) was engineered to harbor random sequences between the primer binding sequence (PBS) and homologous arm (HA) of the reverse transcriptase templates. With these pegRNAs, we achieved efficient targeted insertion or substitution of random sequences with different lengths, ranging from 5 to 10, in mammalian cells. Importantly, the diversity of inserted sequences is well preserved. By fine-tuning the design of random sequences, we were able to make simultaneously insertions or substitutions of random sequences in multiple sites, allowing in situ evolution of multiple positions in a given protein. Therefore, these results provide a framework for targeted integration of random sequences into genomes, which can be redirected for manifold applications, such as in situ protospacer adjacent motif (PAM) library construction, enhancer screening, and DNA barcoding.

摘要

碱基编辑(PE)能够在无需双链断裂或供体模板的情况下,高效地靶向引入多种类型的小型基因变化。在此,我们设计了一种简单策略,通过碱基编辑将随机DNA序列引入靶向基因组位点,我们将其命名为随机碱基编辑(Random-PE)。在我们的策略中,碱基编辑引导RNA(pegRNA)经改造后,在逆转录酶模板的引物结合序列(PBS)和同源臂(HA)之间包含随机序列。利用这些pegRNA,我们在哺乳动物细胞中实现了对不同长度(5至10个碱基)随机序列的高效靶向插入或替换。重要的是,插入序列的多样性得到了很好的保留。通过微调随机序列的设计,我们能够在多个位点同时插入或替换随机序列,从而实现给定蛋白质中多个位置的原位进化。因此,这些结果为将随机序列靶向整合到基因组中提供了一个框架,该框架可被重新用于多种应用,如原位间隔序列临近基序(PAM)文库构建、增强子筛选和DNA条形码技术。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/13802389a08b/43556_2021_57_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/c852fd87c3fe/43556_2021_57_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/4a1d0261617e/43556_2021_57_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/d3a9811c4600/43556_2021_57_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/13802389a08b/43556_2021_57_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/c852fd87c3fe/43556_2021_57_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/4a1d0261617e/43556_2021_57_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/d3a9811c4600/43556_2021_57_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0ec/8607425/13802389a08b/43556_2021_57_Fig4_HTML.jpg

相似文献

[1]
Random-PE: an efficient integration of random sequences into mammalian genome by prime editing.

Mol Biomed. 2021-11-18

[2]
Bi-PE: bi-directional priming improves CRISPR/Cas9 prime editing in mammalian cells.

Nucleic Acids Res. 2022-6-24

[3]
Prime editing in mice with an engineered pegRNA.

Vascul Pharmacol. 2024-3

[4]
Predicting the efficiency of prime editing guide RNAs in human cells.

Nat Biotechnol. 2021-2

[5]
Reducing the inherent auto-inhibitory interaction within the pegRNA enhances prime editing efficiency.

Nucleic Acids Res. 2023-7-21

[6]
Template-jumping prime editing enables large insertion and exon rewriting in vivo.

Nat Commun. 2023-6-8

[7]
WT-PE: Prime editing with nuclease wild-type Cas9 enables versatile large-scale genome editing.

Signal Transduct Target Ther. 2022-4-20

[8]
Engineered pegRNAs improve prime editing efficiency.

Nat Biotechnol. 2022-3

[9]
[Plant prime editing technique: a new genome editing tool for plants].

Sheng Wu Gong Cheng Xue Bao. 2022-1-25

[10]
The Obstacles and Potential Solution Clues of Prime Editing Applications in Tomato.

Biodes Res. 2022-12-15

引用本文的文献

[1]
Prime Editing: A Revolutionary Technology for Precise Treatment of Genetic Disorders.

Cell Prolif. 2025-4

[2]
From bench to bedside: cutting-edge applications of base editing and prime editing in precision medicine.

J Transl Med. 2024-12-20

[3]
Evolution of Prime Editing Systems: Move Forward to the Treatment of Hereditary Diseases.

Curr Gene Ther. 2024

[4]
Prime editing for precise and highly versatile genome manipulation.

Nat Rev Genet. 2023-3

本文引用的文献

[1]
Enhanced prime editing systems by manipulating cellular determinants of editing outcomes.

Cell. 2021-10-28

[2]
Engineered pegRNAs improve prime editing efficiency.

Nat Biotechnol. 2022-3

[3]
Generation of a more efficient prime editor 2 by addition of the Rad51 DNA-binding domain.

Nat Commun. 2021-9-23

[4]
Identification of herbicide resistance OsACC1 mutations via in planta prime-editing-library screening in rice.

Nat Plants. 2021-7

[5]
Enhancing prime editing by Csy4-mediated processing of pegRNA.

Cell Res. 2021-10

[6]
pegIT - a web-based design tool for prime editing.

Nucleic Acids Res. 2021-7-2

[7]
PE-Designer and PE-Analyzer: web-based design and analysis tools for CRISPR prime editing.

Nucleic Acids Res. 2021-7-2

[8]
Improved prime editors enable pathogenic allele correction and cancer modelling in adult mice.

Nat Commun. 2021-4-9

[9]
PrimeDesign software for rapid and simplified design of prime editing guide RNAs.

Nat Commun. 2021-2-15

[10]
Prime editing for functional repair in patient-derived disease models.

Nat Commun. 2020-10-23

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