Felix Bubeck

Distinct YY dinucleotide periodicity in adeno-associated virus DNA

Conradin Baumgartl, Jonas Becker, Lena Naber, Man Xu et autres

Dinucleotide periodicity is a hallmark of genome organization, yet its role in single-stranded (ss)DNA viruses remains poorly understood. Here, we systematically analyzed dinucleotide spacing patterns in adeno-associated virus (AAV) genomes and other viruses. Across 13 primate AAV serotypes, we identified a pronounced …

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Metagenomic Reconstruction of Adeno-Associated Virus Genomes

Olena Maiakovska, Lukas Link, Margarita Zayas, Yumi Sano et autres

The exponential expansion of metagenomic data obtained through high-throughput sequencing technologies has surpassed the petabyte-scale threshold, resulting in an unprecedented abundance of data now enabling the in silico discovery of previously unknown viral and bacterial species. Here, we demonstrate the power and …

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A versatile anti-CRISPR platform for opto- and chemogenetic control of CRISPR-Cas9 and Cas12 across a wide range of orthologs.

Luca Brenker, Sabine Aschenbrenner, Felix Bubeck, Kaloyan Staykov et autres

CRISPR-Cas technologies have revolutionized life sciences by enabling programmable genome editing across diverse organisms. Achieving dynamic and precise control over CRISPR-Cas activity with exogenous triggers, such as light or chemical ligands, remains an important need. Existing tools for CRISPR-Cas control are often …

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Clinically translatable mitochondrial gene therapy in muscle using tandem mtZFN architecture

Pavel A. Nash, Keira Turner, Christopher A. Powell, Lindsey Van Haute et autres

Mutations in the mitochondrial genome (mtDNA) often lead to clinical pathologies. Mitochondrially-targeted zinc finger nucleases (mtZFNs) have been successful in reducing the levels of mutation-bearing mtDNA both in vivo and in vitro, resulting in a shift in the genetic makeup of affected …

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A Versatile Anti-CRISPR Platform for Opto- and Chemogenetic Control of CRISPR-Cas9 and Cas12 across a Wide Range of Orthologs

Luca Brenker, Sabine Aschenbrenner, Felix Bubeck, Kaloyan Staykov et autres

ABSTRACT CRISPR-Cas technologies have revolutionized life sciences by enabling programmable genome editing across diverse organisms. Achieving dynamic and precise control over CRISPR-Cas activity with exogenous triggers, such as light or chemical ligands, remains an important need. Existing tools for CRISPR-Cas control are …

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When size matters: A novel compact Cas12a variant for in vivo genome editing

Felix Bubeck, Dirk Grimm

A new study characterizes and improves a novel small Cas12a variant before adapting it for in vivo genome editing by delivery via adeno-associated virus (AAV) vectors, showcasing the potential of small CRISPR systems and their compatibility with viral vectors.

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JoVE Video Dataset

Kleopatra Rapti, Olena Maiakovska, Jonas Becker, Joanna Szumska et autres

Gene delivery vectors derived from Adeno-associated virus (AAV) are one of the most promising tools for the treatment of genetic diseases, evidenced by encouraging clinical data and the approval of several AAV gene therapies. Two major reasons for the success of AAV …

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Isolation of Next-Generation Gene Therapy Vectors through Engineering, Barcoding, and Screening of Adeno-Associated Virus (AAV) Capsid Variants

Kleopatra Rapti, Olena Maiakovska, Jonas Becker, Joanna Szumska et autres

Gene delivery vectors derived from Adeno-associated virus (AAV) are one of the most promising tools for the treatment of genetic diseases, evidenced by encouraging clinical data and the approval of several AAV gene therapies. Two major reasons for the success of AAV …

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‘Hit and run’ therapy averts macular degeneration

Felix Bubeck, Dirk Grimm

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SARS-CoV-2 RNA Extraction Using Magnetic Beads for Rapid Large-Scale Testing by RT-qPCR and RT-LAMP

Steffen Klein, Thorsten G. Müller, Dina Khalid, Vera Sonntag-Buck et autres

Rapid large-scale testing is essential for controlling the ongoing pandemic of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The standard diagnostic pipeline for testing SARS-CoV-2 presence in patients with an ongoing infection is predominantly based on pharyngeal swabs, from which the viral …

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SARS-CoV-2 RNA extraction using magnetic beads for rapid large-scale testing by RT-qPCR and RT-LAMP

Steffen Klein, Thorsten G. Müller, Dina Khalid, Vera Sonntag-Buck et autres

Abstract Rapid large-scale testing is essential for controlling the ongoing pandemic of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The standard diagnostic pipeline for testing SARS-CoV-2 presence in patients with an ongoing infection is predominantly based on pharyngeal swabs, from which the …

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Light-Inducible CRISPR Labeling

Mareike Daniela Hoffmann, Felix Bubeck, Dominik Niopek

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