Dissecting protein function in vivo: Engineering allelic series in mice using CRISPR-Cas9 technology.

Methods Enzymol

Department of Medical and Molecular Genetics, Indiana University School of Medicine, Indianapolis, IN, United States. Electronic address:

Published: May 2022

Allelic series are extremely valuable genetic tools to study gene function and identify essential structural features of gene products. In mice, allelic series have been engineered using conventional gene targeting in embryonic stem cells or chemical mutagenesis. While these approaches have provided valuable information about the function of genes, they remain cumbersome. Modern approaches such as CRISPR-Cas9 technologies now allow for the precise and cost-effective generation of mouse models with specific mutations, facilitating the development of allelic series. Here, we describe procedures for the generation of three types of mutations used to dissect protein function in vivo using CRISPR-Cas9 technology. This step-by-step protocol describes the generation of missense mutations, large in-frame deletions, and insertions of genetic material using SCY1-like 1 (Scyl1) as a model gene.

Download full-text PDF

Source
http://dx.doi.org/10.1016/bs.mie.2022.03.053DOI Listing

Publication Analysis

Top Keywords

allelic series
16
protein function
8
function vivo
8
crispr-cas9 technology
8
dissecting protein
4
function
4
vivo engineering
4
allelic
4
engineering allelic
4
series
4

Similar Publications

In chronic lymphocytic leukemia, the reliability of next-generation sequencing (NGS) to detect variants ≤10% allelic frequency (low-VAF) is debated. We tested the ability to detect 23 such variants in 41 different laboratories using their NGS method of choice. The sensitivity was 85.

View Article and Find Full Text PDF

Tumor-specific HLA class I expression is required for cytotoxic T-cell elimination of cancer cells expressing tumor-associated or neo-antigens. Cancers downregulate antigen presentation to avoid adaptive immunity. The highly polymorphic nature of the genes encoding these proteins, coupled with quaternary-structure changes after formalin fixation, complicate detection by immunohistochemistry.

View Article and Find Full Text PDF

One of the major challenges in genomic data sharing is protecting participants' privacy in collaborative studies and when genomic data is outsourced to perform analysis tasks, e.g., genotype imputation services and federated collaborations genomic analysis.

View Article and Find Full Text PDF

Novel functional eQTL-SNPs associated with susceptibility to occupational pulmonary fibrosis: A multi-stage study.

Ecotoxicol Environ Saf

January 2025

Department of Pulmonary and Critical Care Medicine, The First Affiliated Hospital of Soochow University, Suzhou 215006, China; Department of Pulmonary and Critical Care Medicine, Dushu Lake Hospital Affiliated to Soochow University, Suzhou, Jiangsu 215000, China. Electronic address:

Aim: Identifying the common functional single-nucleotide polymorphisms (SNPs) that can both affect the susceptibility to idiopathic pulmonary fibrosis (IPF) and silicosis.

Methods: We first integrated the genome-wide association studies (GWASs) of IPF and silicosis to obtain the shared SNPs. Following this, functional expression quantitative trait locus (eQTL)-SNPs were identified by the GTEx database.

View Article and Find Full Text PDF

Genetic gradual reduction of OGT activity unveils the essential role of O-GlcNAc in the mouse embryo.

PLoS Genet

January 2025

Epigenetics & Neurobiology Unit, EMBL Rome, European Molecular Biology Laboratory, Italy.

The reversible glycosylation of nuclear and cytoplasmic proteins (O-GlcNAcylation) is catalyzed by a single enzyme, namely O-GlcNAc transferase (OGT). The mammalian Ogt gene is X-linked, and it is essential for embryonic development and for the viability of proliferating cells. We perturbed OGT's function in vivo by creating a murine allelic series of four single amino acid substitutions, reducing OGT's catalytic activity to a range of degrees.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!