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Visualizing Genomic Loci with CRISPR-Sirius

Posted by Jennifer Tsang on Apr 18, 2019 8:53:21 AM

The catalytically dead Cas9 protein (dCas9) is well known for its ability to bind DNA targets without changing them. Thus, it has been widely adapted for CRISPR activation and inhibition experiments. But over the past few years, dCas9 has become a robust visualization tool to study the spatial and temporal arrangement of chromosomes and how these arrangements may affect nuclear processes. The latest of these visualization tools is CRISPR-Sirius, the brightest CRISPR-based tool to date for visualizing genomic loci in living cells.

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Topics: CRISPR

Mobile-CRISPRi: Bringing CRISPRi to Diverse Bacteria

Posted by Beth Kenkel on Apr 4, 2019 8:53:46 AM

The vast majority of bacteria are undomesticated which limits the tools scientists can use to study them. For example, gene knockdown with CRISPR interference (CRISPRi) has been limited to lab-adapted bacteria because it has been challenging to introduce CRISPRi machinery into diverse bacteria species. Existing protocols can transfer CRISPRi into a single bacterial strain, such as a B. subtilis, or a narrow range of bacterial species, such as the human gut bacteria B. thetaiotaomicron, Mycobacterium, Pseudomonas, and E. coli. However, many non-model bacterial species lack genetic tools.

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Topics: CRISPR

What's New in CRISPR - Spring 2019

Posted by Jennifer Tsang on Mar 21, 2019 8:47:48 AM

In this quarterly blog series, we’ll highlight a few of the new CRISPR plasmids available at Addgene. We will still periodically focus on specific CRISPR plasmid tools more in-depth, but we hope that this blog series will help you find new CRISPR tools for your research.

 

 

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Topics: CRISPR

Targeted Mutagenesis with EvolvR

Posted by Beth Kenkel on Feb 21, 2019 8:15:26 AM

Mutagenesis is a tool that both evolution and molecular biologists use to tinker with DNA. Making changes to a DNA sequence can help scientists identify and/or facilitate the evolution of new phenotypes, and forward genetics harnesses this at a large scale by screening diverse libraries of genetic variants. Several methods for generating mutant libraries exist, but none provide a means to continuously diversify all nucleotides within a user-defined genomic region. EvolvR, a CRISPR-Cas9 based targeted mutagenesis method developed by the Dueber Lab at Berkeley, provides a new approach for generating novel genetic variants in bacteria. Read on to learn about the key components of EvolvR and its potential applications.

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Topics: CRISPR

CrispyCrunch: High-throughput Design and Analysis of CRISPR+HDR Experiments

Posted by Guest Blogger on Feb 7, 2019 9:16:20 AM

This post was contributed by Greg Dingle, a software engineer with the Chan Zuckerberg Initiative.

We hereby announce the general availability of new a tool for CRISPR scientists––CrispyCrunch! CrispyCrunch is a web app that helps scientists design and analyze batches of CRISPR samples.

We invite you to jump in and try it out, or take a look at our live examples: experiment or analysis. In the rest of this article, we'll explain the thinking behind the tool, its key features, how it works, and how to use it.

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Topics: CRISPR

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