Article
Microbiology
Xueli Zhang, Chaohui Zhang, Caijiao Liang, Bizhou Li, Fanmei Meng, Yuncan Ai
Summary: Bacteriophages, the most abundant organisms in the biosphere, have been sequenced extensively. However, the study of bacteriophage functional genomics has been hindered by a lack of effective research methods. This study designed a phage genome editing platform based on the CRISPR-Cas9 system, and successfully achieved gene editing in Vibrio natriegens phage TT4P2. This platform has the potential to advance research on phage gene diversity and accelerate the development of phage synthetic biology and nanotechnology.
MICROBIOLOGY SPECTRUM
(2022)
Review
Biotechnology & Applied Microbiology
Dongdong Zhao, Xinna Zhu, Hang Zhou, Naxin Sun, Ting Wang, Changhao Bi, Xueli Zhang
Summary: Effective metabolic pathways are crucial for efficient cell factories, and utilizing CRISPR technology in pathway engineering can enhance efficiency, reduce costs, and simplify target customization. This technology has been proven to be robust and effective in various organisms.
METABOLIC ENGINEERING
(2021)
Review
Plant Sciences
Joseph Christian Utomo, Connor Lorne Hodgins, Dae-Kyun Ro
Summary: Baker's yeast is an efficient microbial platform for characterizing metabolic genes in plant specialized metabolism, and CRISPR/Cas9 system has greatly facilitated multiplex genome editing to reconstruct complex pathways in yeast. Despite its advantages, reconstructing complex plant biosynthetic pathways in yeast can be time intensive.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Plant Sciences
Mohamed Abdelrahman, Zheng Wei, Jai S. S. Rohila, Kaijun Zhao
Summary: Multiplex genome-editing technologies, especially CRISPR/Cas-based tools, have revolutionized plant molecular biology by enabling precise editing of multiple loci or genes, thus advancing crop-breeding methods.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Cell Biology
Gemma Llargues-Sistac, Laia Bonjoch, Sergi Castellvi-Bel
Summary: The use of next-generation sequencing (NGS) technologies has greatly advanced our understanding of the mutational landscape of complex human diseases such as cancer. Haploid human cell models, such as the HAP1 cell line, have emerged as valuable tools for functional gene studies, especially in combination with CRISPR-Cas9 gene editing technology. This review explores the recent applications of the HAP1 cell line in functional genetic studies and high-throughput genetic screens, highlighting its potential to enhance our understanding of gene function and the genetic basis of human diseases identified through NGS technologies, and its implications for clinical practice and patient care.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Keiji Nishida, Akihiko Kondo
Summary: CRISPR-Cas system offers various modes for DNA editing in metabolic engineering, with consideration of host-dependent repair pathways. The versatility of CRISPR system has led to derivative technologies to complement nuclease-based editing, avoiding cytotoxicity, especially in microorganisms.
METABOLIC ENGINEERING
(2021)
Article
Biochemistry & Molecular Biology
Azamat V. Karginov, Marina G. Tarutina, Anastasia R. Lapteva, Maria D. Pakhomova, Artur A. Galliamov, Sergey Y. Filkin, Alexey N. Fedorov, Michael O. Agaphonov
Summary: In this work, an improved plasmid vector set for CRISPR-Cas9 genome editing in methylotrophic yeasts is presented. The vector set includes a plasmid encoding Cas9 with a nuclear localization signal and plasmids with a scaffold for the single guide RNA (sgRNA). Construction of sgRNA gene for a specific target sequence only requires the insertion of a 24 bp oligonucleotide duplex into the scaffold. The functionality of this vector set has been demonstrated in multiple methylotrophic yeast species.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemical Research Methods
Stefan J. Tekel, Nicholas Brookhouser, Kylie Standage-Beier, Xiao Wang, David A. Brafman
Summary: The introduction of transient reporters of editing enrichment (TREE) has enabled highly efficient single-base editing of human cells using a transient episomal fluorescent reporter, allowing for rapid generation of clonal editing efficiencies exceeding 80% in biallelic or multiplexed edited isogenic human pluripotent stem cell lines within approximately 3-4 weeks.
Review
Agriculture, Dairy & Animal Science
Julia Popova, Victoria Bets, Elena Kozhevnikova
Summary: Genome editing has practical applications in farm animals, improving production traits, economic value, and disease resistance. It also has potential in biomedical research and drug production, as well as xenograft donors. Recent advancements in site-specific nucleases and embryological delivery methods have revolutionized transgenesis, providing efficient and reliable tools for genome engineering in agriculture.
Article
Biochemistry & Molecular Biology
Patrick Ferreira, Altino Branco Choupina
Summary: In recent years, the number of tools and techniques for precise genome editing has increased significantly. The CRISPR/Cas9 technology has gained much attention due to its simplicity, affordability, and effectiveness. It has the potential for various applications in gene editing, including functional genomics, cell model development, targeted therapies, and improvement of agricultural and environmental species.
MOLECULAR BIOLOGY REPORTS
(2022)
Article
Biotechnology & Applied Microbiology
Xihao Liao, Lu Li, Aysha Jameel, Xin-Hui Xing, Chong Zhang
Summary: A CRISPR-based toolbox for gene editing and transcriptional regulation in P. pastoris was developed, allowing efficient and flexible gene expression control. This toolkit will accelerate the application of P. pastoris in metabolic engineering and synthetic biology by providing a simple and multifunctional system for genetic engineering.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Yulin Mu, Chengxiao Zhang, Taihua Li, Feng-Jie Jin, Yun-Ju Sung, Hee-Mock Oh, Hyung-Gwan Lee, Long Jin
Summary: Lactobacillus, important in food production and probiotics, can benefit from CRISPR/Cas9-based genome editing to improve strain efficiency and achieve traceless genome modification.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemical Research Methods
Meliawati Meliawati, Christa Teckentrup, Jochen Schmid
Summary: The CRISPR-Cas system has been used for large cluster deletion and multiplex genome editing in Paenibacillus polymyxa. The study demonstrates that the Cas9-based system can achieve efficient targeted deletions and multiplex editing, which is expected to accelerate future research in P. polymyxa and related species.
ACS SYNTHETIC BIOLOGY
(2022)
Review
Pharmacology & Pharmacy
Siwei Chen, Deng Chen, Bin Liu, Hidde J. Haisma
Summary: CRISPR/Cas9-mediated genome engineering has extensive applications in basic biology, biotechnology, and medicine. However, the low gene modification efficiency and uncontrollable prolonged Cas9 activity hinder its further use. Researchers have explored small molecules with clinical potential to precisely modulate CRISPR/Cas9 genome editing activity.
DRUG DISCOVERY TODAY
(2022)
Review
Biochemistry & Molecular Biology
Min Ho Lee, Jae Il Shin, Jae Won Yang, Keum Hwa Lee, Do Hyeon Cha, Jun Beom Hong, Yeoeun Park, Eugene Choi, Kalthoum Tizaoui, Ai Koyanagi, Louis Jacob, Seoyeon Park, Ji Hong Kim, Lee Smith
Summary: This review highlights the current and potential use of CRISPR-Cas9 in the management of autoimmune diseases. Several studies have shown that CRISPR-Cas9 can be utilized for immunomodulation, reducing cholesterol, and treating rare diseases. However, there is limited research on the treatment of autoimmune diseases using CRISPR-Cas9.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Nicolas Huber, Edgar Alberto Alcala-Orozco, Thomas Rexer, Udo Reichl, Steffen Klamt
Summary: Cell-free production systems are commonly used for synthesizing industrial chemicals and biopharmaceuticals. This study presents a model-based optimization framework for cell-free enzyme cascades, taking into account parameter uncertainties. The approach was exemplified using the synthesis of GDP-fucose, resulting in significant improvements in the process.
METABOLIC ENGINEERING
(2024)