Article
Biotechnology & Applied Microbiology
Nafiseh Sanei Ata-Abadi, Mahboobeh Forouzanfar, Kianoush Dormiani, Shiva Rouhollahi Varnosfaderani, Leila Pirjamali, Mohammad Hossein Nasr-Esfahani, Reza Moradi Hajidavaloo
Summary: In this study, we successfully constructed stable cell lines in HEK293T cells using the PhiC31 integrase system, which can efficiently produce and secrete active rhPH20. Quantitative and functional analysis showed that the secreted rhPH20 had specific activity and could remove cumulus cells from oocytes. Additionally, the results demonstrated the ability of the PhiC31 enzyme to insert the PH20-expressing donors into specific pseudo attP sites in the genome of target cells with different copy numbers.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Developmental Biology
Sara Caviglia, Iris A. Unterweger, Akvile Gasiunaite, Alexandre E. Vanoosthuyse, Francesco Cutrale, Le A. Trinh, Scott E. Fraser, Stephan C. F. Neuhauss, Elke A. Ober
Summary: Visualizing cell shapes and interactions is crucial for understanding organ development and repair. However, integrating multi-fluorophore information into developing zebrafish tissues is challenging. In this study, the researchers developed FRaeppli, a method for efficient cell shape analysis and tracking using specific fluorescent proteins.
Article
Biotechnology & Applied Microbiology
Ke Liu, Gui-Hong Lin, Kun Liu, Yong-Jun Liu, Xin-Yi Tao, Bei Gao, Ming Zhao, Dong-Zhi Wei, Feng-Qing Wang
Summary: In this study, a multiplexed integrase-assisted site-specific recombination (miSSR) method was developed to integrate genes/pathways in Mycolicibacteria for the purpose of constructing cell factories. The method successfully integrated multiple copies of genes using different bacteriophage systems and a reconstructed Xer recombinase system. The results showed that the miSSR system is an effective and convenient tool for engineering the genomes of Mycolicibacteria and other related strains.
SYNTHETIC AND SYSTEMS BIOTECHNOLOGY
(2022)
Article
Microbiology
Lauren A. Riley, Irenee C. Payne, Melissa Tumen-Velasquez, Adam M. Guss
Summary: This study developed a system for integrating up to 12 genetic constructs into the E. coli chromosome. Site-specific recombinases were used to catalyze recombination between specific DNA sequences, enabling the integration of heterologous DNA. The utility of this system was demonstrated by the insertion of eight DNA methyltransferases into the E. coli chromosome.
JOURNAL OF BACTERIOLOGY
(2023)
Article
Microbiology
Jing Yang, Lina Liu, Yu Feng, Da He, Chengcheng Wang, Zhiyong Zong
Summary: The newly identified mcr-10 plasmid-borne colistin resistance gene was found in a Cronobacter sakazakii isolate. It may be mobilized through site-specific recombination mediated by an integrase of an integrative mobile element.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2021)
Article
Microbiology
Gang Zhang, Qinna Cui, Jianjuan Li, Ruiliang Guo, Sebastien Olivier Leclercq, Lifeng Du, Na Tang, Yuqin Song, Chao Wang, Fangqing Zhao, Jie Feng
Summary: In this study, the mobility of GIsul2 and CR2-sul2 units mediated by integrase was experimentally characterized. The results demonstrate that the integrase of GIsul2 can perform the excision and integration of GIsul2 and CR2-sul2 unit by site-specific recombination between att core sites. The findings suggest a potential and unappreciated role of the GIsul2 integrase family in the dissemination of CR2-sul2 units carrying various resistance determinants.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Genetics & Heredity
Fang-Jung Yang, Chiao-Nung Chen, Tiffany Chang, Ting-Wei Cheng, Ni-Chen Chang, Chia-Yi Kao, Chih-Chi Lee, Yu-Ching Huang, Jung-Chen Hsu, Jengyi Li, Meiyeh J. Lu, Shih-Peng Chan, John Wang
Summary: In this study, the phiC31 integrase system was adapted for use in C. elegans, allowing for precise single-copy insertion of large DNA constructs and generation of inversions. Integration of genes up to 33.4 kb in size was achieved by injecting a plasmid, and a dual-color fluorescent reporter system for studying post-transcriptional regulation of mRNA was established.
Review
Biotechnology & Applied Microbiology
Vishnu Hosur, Benjamin E. Low, Michael V. Wiles
Summary: The inability to efficiently and precisely insert large DNA constructs into the genome is a major challenge in genomic engineering. Existing methods lack precision or have limited capacity. However, a new toolkit combining RNA-guided Cas9 and site-specific integrase Bxb1 has been developed, enabling the integration of DNA constructs ranging from 5 to 43 kb in mouse zygotes and human cells.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Multidisciplinary Sciences
Joshua R. Elmore, Gara N. Dexter, Henri Baldino, Jay D. Huenemann, Ryan Francis, V. George L. Peabody, Jessica Martinez-Baird, Lauren A. Riley, Tuesday Simmons, Devin Coleman-Derr, Adam M. Guss, Robert G. Egbert
Summary: SAGE is a highly efficient and extensible genome engineering technology that allows selection marker-free, site-specific genome integration of multiple DNA constructs in bacteria. It shows superior efficiency compared to replicating plasmids and overcomes host range limitations. SAGE has the potential to expand high-throughput genetics and synthetic biology in industrial and environmental bacteria.
Article
Cell Biology
Masahiro Shin, Hui-Min Yin, Yu-Huan Shih, Takayuki Nozaki, Daneal Portman, Benjamin Toles, Amy Kolb, Kevin Luk, Sumio Isogai, Kinji Ishida, Tomohito Hanasaka, Michael J. Parsons, Scot A. Wolfe, Caroline E. Burns, C. Geoffrey Burns, Nathan D. Lawson
Summary: The zebrafish is a useful model organism for genetic studies, but the lack of conditional deletion alleles has limited the ability to knockout genes at specific developmental stages or in specific cells. In this study, the researchers applied a protocol to establish floxed alleles for several genes, overcoming challenges such as off-target integration and incomplete knockin. They demonstrated the utility of these floxed alleles by successfully deleting genes in specific cell types and showing their involvement in lymphatic valve development. This study provides a framework for generating and using endogenously floxed alleles in zebrafish.
DEVELOPMENTAL CELL
(2023)
Article
Biotechnology & Applied Microbiology
Gang Zhang, Shigang Yao, Yunan Liu, Hailing Fang, Yuqin Song, Chao Wang, Dawei Wei, Jie Feng
Summary: In this study, we identified 530 novel tyrosine-type integrases from bacterial genomic islands. These integrases belong to a distinct evolutionary clade and are affiliated with new integrase groups. The integration functions of six representative novel integrases were validated in a bacterial model system, and their expression patterns were confirmed in Escherichia coli. This study revealed site-specific recombination functions of novel integrases and expands the toolbox for genetic engineering.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Cell Biology
Dagan Segal, Hanieh Mazloom-Farsibaf, Bo-Jui Chang, Philippe Roudot, Divya Rajendran, Stephan Daetwyler, Reto Fiolka, Mikako Warren, James F. Amatruda, Gaudenz Danuser
Summary: This study presents a quantitative high-resolution imaging assay to investigate the functional adaptation of cancer cells to different cell-extrinsic cues and molecular interventions in zebrafish xenografts. The analysis reveals systematic shifts in the distribution of cancer cell morphotypes as influenced by the tissue microenvironment. The reduced expression of an oncogene product causes changes in cell morphology and tissue specificity.
JOURNAL OF CELL BIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Garima Jain, Helga Ertesvag
Summary: In this study, the homologous recombination method in Rhodococcus opacus was improved by constructing and evaluating a conjugative, conditional suicide plasmid based on a replicon derived from Corynebacterium glutamicum. The low recombination frequency issue was successfully solved. It was also discovered that mycolic acid is essential for the viability of R. opacus.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Review
Cell Biology
Yukiko Imai, Ivan Olaya, Noriyoshi Sakai, Sean M. Burgess
Summary: Recent studies in zebrafish have provided insights on key features of meiotic chromosome dynamics, such as telomere clustering and homolog alignment. This review discusses the temporal progression of these events and the roles of proteins associated with homologous recombination.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Microbiology
Olivier Claisse, Amel Chaib, Fety Jaomanjaka, Cecile Philippe, Yasma Barchi, Patrick M. Lucas, Claire Le Marrec
Summary: Oenococcus oeni harbors prophages that play a significant role in driving horizontal gene transfer and contributing to within-species bacterial diversity. The diversity patterns of prophages vary significantly among different host lineages and environmental niches, highlighting their pervasive presence and impact within the species.
Article
Cell Biology
Tomoyuki Sasaki, Shanshan Lian, Alam Khan, Jesse R. Llop, Andrew V. Samuelson, Wenbiao Chen, Daniel J. Klionsky, Shuji Kishi
Review
Endocrinology & Metabolism
Lisette A. Maddison, Wenbiao Chen
FRONTIERS IN ENDOCRINOLOGY
(2017)
Article
Multidisciplinary Sciences
Ahmed Elaswad, Karim Khalil, David Cline, Patrick Page-McCaw, Wenbiao Chen, Maximilian Michel, Roger Cone, Rex Dunham
JOVE-JOURNAL OF VISUALIZED EXPERIMENTS
(2018)
Meeting Abstract
Endocrinology & Metabolism
Erick Spears, Matthew Shou, Walter A. Siv, Chunhua Dai, Wenbiao Chen, Alvin C. Powers, Danielle Dean
Article
Genetics & Heredity
Liqing Zang, Yasuhito Shimada, Hiroko Nakayama, Wenbiao Chen, Ayaka Okamoto, Hiroyuki Koide, Naoto Oku, Takehisa Dewa, Masayuki Shiota, Norihiro Nishimura
FRONTIERS IN GENETICS
(2019)
Article
Biochemistry & Molecular Biology
Qi Kang, Mengyi Hu, Jianxin Jia, Xuanxuan Bai, Chengdong Liu, Zhiqiang Wu, Wenbiao Chen, Mingyu Li
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2020)
Editorial Material
Biology
Yulong Gong, Bingyuan Yang, Wenbiao Chen
SCIENCE CHINA-LIFE SCIENCES
(2020)
Meeting Abstract
Endocrinology & Metabolism
Jennifer Ikle, Soma S. Singareddy, Robert C. Tryon, Nathaniel York, Linlin Yin, Wenbiao Chen, Colin Nichols
Article
Biochemistry & Molecular Biology
Matthew R. Alexander, Clara T. Schoeder, Jacquelyn A. Brown, Charles D. Smart, Chris Moth, John P. Wikswo, John A. Capra, Jens Meiler, Wenbiao Chen, Meena S. Madhur
Article
Multidisciplinary Sciences
Bingyuan Yang, Lisette A. Maddison, Karolina E. Zaborska, Chunhua Dai, Linlin Yin, Zihan Tang, Liqing Zang, David A. Jacobson, Alvin C. Powers, Wenbiao Chen
Article
Cardiac & Cardiovascular Systems
Hadil El-Sammak, Bingyuan Yang, Stefan Guenther, Wenbiao Chen, Ruben Marin-Juez, Didier Y. R. Stainier
Summary: This study investigated the mechanisms of coronary revascularization during zebrafish cardiac regeneration. The results showed that Vegfc signaling is crucial for the proliferation of coronary endothelial cells and cardiomyocytes dedifferentiation and proliferation. Additionally, Emilin2a and Cxcl8a-Cxcr1 signaling pathways are also involved in coronary revascularization during cardiac regeneration.
CIRCULATION RESEARCH
(2022)
Article
Multidisciplinary Sciences
Liu Yang, Wenbiao Chen
Summary: Researchers have developed a new pancreatic beta cell line, MIN6-6, which allows for rapid measurement of insulin secretion and CRISPR screening. MIN6-6 exhibits high glucose responsiveness and enables insulin secretion measurement in both bulk and single cells.
Review
Cell Biology
Liqing Zang, Lisette A. Maddison, Wenbiao Chen
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2018)
Meeting Abstract
Chemistry, Multidisciplinary
Syed Raza, Wenbiao Chen
ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
(2018)
Article
Cell Biology
E. Danielle Dean, Mingyu Li, Nripesh Prasad, Scott N. Wisniewski, Alison Von Deylen, Jason Spaeth, Lisette Maddison, Anthony Botros, Leslie R. Sedgeman, Nadejda Bozadjieva, Olga Ilkayeva, Anastasia Coldren, Greg Poffenberger, Alena Shostak, Michael C. Semich, Kristie I. Aamodt, Neil Phillips, Hai Yan, Ernesto Bernal-Mizrachi, Jackie D. Corbin, Kasey C. Vickers, Shawn E. Levy, Chunhua Dai, Christopher Newgard, Wei Gu, Roland Stein, Wenbiao Chen, Alvin C. Powers