scholarly journals Establishment of an integrated automated embryonic manipulation system for producing genetically modified mice

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Tomoo Eto ◽  
Hiroki Ueda ◽  
Ryoji Ito ◽  
Tsukasa Takahashi ◽  
Toshiaki Watanabe ◽  
...  
Keyword(s):  
Genetic Modification ◽  
Genetically Modified ◽  
Optimal Solution ◽  
Practical Experience ◽  
Automated System ◽  
Discovery Research ◽  
Drug Discovery Research ◽  
Manipulation System ◽  
Genetically Modified Mice ◽  
Genomic Editing

AbstractGenetically modified mice are commonly used in biologic, medical, and drug discovery research, but conventional microinjection methods used for genetic modification require extensive training and practical experience. Here we present a fully automated system for microinjection into the pronucleus to facilitate genetic modification. We first developed software that automatically controls the microinjection system hardware. The software permits automatic rotation of the zygote to move the pronucleus to the injection pipette insertion position. We also developed software that recognizes the pronucleus in 3-dimensional coordinates so that the injection pipette can be automatically inserted into the pronucleus, and achieved a 94% insertion rate by linking the 2 pieces of software. Next, we determined the optimal solution injection conditions (30 hPa, 0.8–2.0 s) by examining the survival rate of injected zygotes. Finally, we produced transgenic (traditional DNA injection and piggyBac Transposon system) and knock-in (genomic editing) mice using our newly developed Integrated Automated Embryo Manipulation System (IAEMS). We propose that the IAEMS will simplify highly reproducible pronuclear stage zygote microinjection procedures.

Epigenetic Target Prediction with Accurate Machine Learning Models

2021 ◽  
Author(s):  
Norberto Sánchez-Cruz ◽  
Jose L. Medina-Franco
Keyword(s):  
Machine Learning ◽  
Small Molecules ◽  
Predictive Models ◽  
Large Scale ◽  
Target Prediction ◽  
Quantitative Measure ◽  
Learning Models ◽  
Discovery Research ◽  
Drug Discovery Research ◽  
Machine Learning Models

<p>Epigenetic targets are a significant focus for drug discovery research, as demonstrated by the eight approved epigenetic drugs for treatment of cancer and the increasing availability of chemogenomic data related to epigenetics. This data represents a large amount of structure-activity relationships that has not been exploited thus far for the development of predictive models to support medicinal chemistry efforts. Herein, we report the first large-scale study of 26318 compounds with a quantitative measure of biological activity for 55 protein targets with epigenetic activity. Through a systematic comparison of machine learning models trained on molecular fingerprints of different design, we built predictive models with high accuracy for the epigenetic target profiling of small molecules. The models were thoroughly validated showing mean precisions up to 0.952 for the epigenetic target prediction task. Our results indicate that the herein reported models have considerable potential to identify small molecules with epigenetic activity. Therefore, our results were implemented as freely accessible and easy-to-use web application.</p>

scholarly journals iPSC technology-based regenerative medicine for kidney diseases

2021 ◽  
Author(s):  
Kenji Osafune
Keyword(s):  
Regenerative Medicine ◽  
Cell Therapy ◽  
Kidney Development ◽  
Disease Modeling ◽  
Kidney Diseases ◽  
Collecting Duct ◽  
Current Status ◽  
Renal Tubules ◽  
Discovery Research ◽  
Drug Discovery Research

AbstractWith few curative treatments for kidney diseases, increasing attention has been paid to regenerative medicine as a new therapeutic option. Recent progress in kidney regeneration using human-induced pluripotent stem cells (hiPSCs) is noteworthy. Based on the knowledge of kidney development, the directed differentiation of hiPSCs into two embryonic kidney progenitors, nephron progenitor cells (NPCs) and ureteric bud (UB), has been established, enabling the generation of nephron and collecting duct organoids. Furthermore, human kidney tissues can be generated from these hiPSC-derived progenitors, in which NPC-derived glomeruli and renal tubules and UB-derived collecting ducts are interconnected. The induced kidney tissues are further vascularized when transplanted into immunodeficient mice. In addition to the kidney reconstruction for use in transplantation, it has been demonstrated that cell therapy using hiPSC-derived NPCs ameliorates acute kidney injury (AKI) in mice. Disease modeling and drug discovery research using disease-specific hiPSCs has also been vigorously conducted for intractable kidney disorders, such as autosomal dominant polycystic kidney disease (ADPKD). In an attempt to address the complications associated with kidney diseases, hiPSC-derived erythropoietin (EPO)-producing cells were successfully generated to discover drugs and develop cell therapy for renal anemia. This review summarizes the current status and future perspectives of developmental biology of kidney and iPSC technology-based regenerative medicine for kidney diseases.

Generating genetically modified mice using CRISPR/Cas-mediated genome engineering

2014 ◽  
Vol 9 (8) ◽  
pp. 1956-1968 ◽  
Author(s):  
Hui Yang ◽  
Haoyi Wang ◽  
Rudolf Jaenisch
Keyword(s):  
Genome Engineering ◽  
Genetically Modified ◽  
Genetically Modified Mice

scholarly journals Development of a Selection Method for Discovering Irreversible (Covalent) Binders from a DNA-Encoded Library

2018 ◽  
Vol 24 (2) ◽  
pp. 169-174 ◽  
Author(s):  
Zhengrong Zhu ◽  
LaShadric C. Grady ◽  
Yun Ding ◽  
Kenneth E. Lind ◽  
Christopher P. Davie ◽  
...  
Keyword(s):  
Magnetic Beads ◽  
Chemical Probes ◽  
Lead Discovery ◽  
3C Protease ◽  
Discovery Research ◽  
Drug Discovery Research ◽  
Affinity Resin ◽  
Covalent Ligands ◽  
Developing Method ◽  
Unique Mechanism

DNA-encoded libraries (DELs) have been broadly applied to identify chemical probes for target validation and lead discovery. To date, the main application of the DEL platform has been the identification of reversible ligands using multiple rounds of affinity selection. Irreversible (covalent) inhibition offers a unique mechanism of action for drug discovery research. In this study, we report a developing method of identifying irreversible (covalent) ligands from DELs. The new method was validated by using 3C protease (3CP) and on-DNA irreversible tool compounds (rupintrivir derivatives) spiked into a library at the same concentration as individual members of that library. After affinity selections against 3CP, the irreversible tool compounds were specifically enriched compared with the library members. In addition, we compared two immobilization methods and concluded that microscale columns packed with the appropriate affinity resin gave higher tool compound recovery than magnetic beads.

“It just goes against the grain.” Public understandings of genetically modified (GM) food in the UK

2002 ◽  
Vol 11 (3) ◽  
pp. 273-291 ◽  
Author(s):  
Alison Shaw
Keyword(s):  
Genetic Modification ◽  
Genetically Modified ◽  
Public Attitudes ◽  
Policy Implications ◽  
Public Understanding ◽  
Empirical Literature ◽  
Gm Food ◽  
Scientific Innovation ◽  
Understanding Of Science ◽  
The Uk

This paper reports on one aspect of qualitative research on public understandings of food risks, focusing on lay understandings of genetically modified (GM) food in a UK context. A range of theoretical, conceptual, and empirical literature on food, risk, and the public understanding of science are reviewed. The fieldwork methods are outlined and empirical data from a range of lay groups are presented. Major themes include: varying “technical” knowledge of science, the relationship between knowledge and acceptance of genetic modification, the uncertainty of scientific knowledge, genetic modification as inappropriate scientific intervention in “nature,” the acceptability of animal and human applications of genetic modification, the appropriate boundaries of scientific innovation, the necessity for GM foods, the uncertainty of risks in GM food, fatalism about avoiding risks, and trust in “experts” to manage potential risks in GM food. Key discussion points relating to a sociological understanding of public attitudes to GM food are raised and some policy implications are highlighted.

scholarly journals Investigating Novice and Expert Conceptions of Genetically Modified Organisms

2017 ◽  
Vol 16 (3) ◽  
pp. ar52 ◽  
Author(s):  
Lisa M. Potter ◽  
Sarah A. Bissonnette ◽  
Jonathan D. Knight ◽  
Kimberly D. Tanner
Keyword(s):  
Genetic Modification ◽  
Real World ◽  
Genetically Modified Organisms ◽  
Assessment Tool ◽  
Genetically Modified ◽  
Biology Education ◽  
Undergraduate Biology ◽  
Biology Students ◽  
Molecular Behavior ◽  
Biology Majors

The aspiration of biology education is to give students tools to apply knowledge learned in the classroom to everyday life. Genetic modification is a real-world biological concept that relies on an in-depth understanding of the molecular behavior of DNA and proteins. This study investigated undergraduate biology students’ conceptions of genetically modified organisms (GMOs) when probed with real-world, molecular and cellular, and essentialist cues, and how those conceptions compared across biology expertise. We developed a novel written assessment tool and administered it to 120 non–biology majors, 154 entering biology majors, 120 advanced biology majors (ABM), and nine biology faculty. Results indicated that undergraduate biology majors rarely included molecular and cellular rationales in their initial explanations of GMOs. Despite ABM demonstrating that they have much of the biology knowledge necessary to understand genetic modification, they did not appear to apply this knowledge to explaining GMOs. Further, this study showed that all undergraduate student populations exhibited evidence of essentialist thinking while explaining GMOs, regardless of their level of biology training. Finally, our results suggest an association between scientifically accurate ideas and the application of molecular and cellular rationales, as well as an association between misconceptions and essentialist rationales.

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