Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100458
Chuan Dai , Jinpeng Wang , Licheng Tu , Zhuoheng Pan , Jinru Yang , Shuang Zhou , Qinhong Luo , Lizhi Zhu , Yuxin Ye
Targeted protein degradation (TPD) is an emerging therapeutic approach that has attracted significant interest. The traditional TPD degraders rely on small molecules that can only target proteins of interest (POI) with known small-molecule binders or appropriate binding pockets. Recently, several genetic-encoded TPD (GE-TPD) strategies have been developed in which the degrader molecules are expressed in cells based on genetic information. GE-TPD discovers POI binders through techniques such as yeast and phage display and expands the E3 ligase toolbox through genetic encoding. In this review, we assess the progress of GE-TPD technologies in recent years and highlight innovative technologies that have the potential to advance the development of GE-TPD.
{"title":"Genetically-encoded degraders as versatile modulators of intracellular therapeutic targets","authors":"Chuan Dai , Jinpeng Wang , Licheng Tu , Zhuoheng Pan , Jinru Yang , Shuang Zhou , Qinhong Luo , Lizhi Zhu , Yuxin Ye","doi":"10.1016/j.cobme.2023.100458","DOIUrl":"10.1016/j.cobme.2023.100458","url":null,"abstract":"<div><p>Targeted protein degradation (TPD) is an emerging therapeutic approach that has attracted significant interest. The traditional TPD degraders rely on small molecules that can only target proteins of interest (POI) with known small-molecule binders or appropriate binding pockets. Recently, several genetic-encoded TPD (GE-TPD) strategies have been developed in which the degrader molecules are expressed in cells based on genetic information. GE-TPD discovers POI binders through techniques such as yeast and phage display and expands the E3 ligase toolbox through genetic encoding. In this review, we assess the progress of GE-TPD technologies in recent years and highlight innovative technologies that have the potential to advance the development of GE-TPD.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100458"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47736307","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100469
Ourania Raftopoulou , Rodolphe Barrangou
The need for new genome manipulation tools is leading the way for the continued discovery of novel clustered regularly interspaced short palindromic repeats— CRISPR associated sequences (CRISPR-Cas) systems. Researchers have been analyzing the genomes of prokaryotes and more recently metagenomic sequencing data to find novel and diverse CRISPR-Cas systems and their associated genome editing effectors. In this review, we provide an overview of in silico, in vitro, and in vivo analyses performed to characterize key elements of CRISPR-Cas systems, encompassing the CRISPR array, Cas proteins, guide ribonucleic acid (RNAs), and protospacer-adjacent motif (PAM) which defines targeting. We also highlight subsequent in vitro and in vivo assays employed to validate CRISPR function and Cas effector activity in the context of genome editing in various cellular contexts.
{"title":"Mining microbial organisms to discover and characterize novel CRISPR-Cas systems","authors":"Ourania Raftopoulou , Rodolphe Barrangou","doi":"10.1016/j.cobme.2023.100469","DOIUrl":"https://doi.org/10.1016/j.cobme.2023.100469","url":null,"abstract":"<div><p>The need for new genome manipulation tools is leading the way for the continued discovery of novel clustered regularly interspaced short palindromic repeats— CRISPR associated sequences (CRISPR-Cas) systems. Researchers have been analyzing the genomes of prokaryotes and more recently metagenomic sequencing data to find novel and diverse CRISPR-Cas systems and their associated genome editing effectors. In this review, we provide an overview of <em>in silico</em>, <em>in vitro</em>, and <em>in vivo</em> analyses performed to characterize key elements of CRISPR-Cas systems, encompassing the CRISPR array, Cas proteins, guide ribonucleic acid (RNAs), and protospacer-adjacent motif (PAM) which defines targeting. We also highlight subsequent <em>in vitro</em> and <em>in vivo</em> assays employed to validate CRISPR function and Cas effector activity in the context of genome editing in various cellular contexts.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100469"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49815321","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Additive manufacturing, often known as three-dimensional (3D) printing, is driving significant progress in a diverse range of fields, such as engineering, manufacturing, food, and medicine. Realistic tissue models and organ transplantation can provide necessary innovative opportunities to tackle countless medical and health care obstacles. These can be achieved by incorporation of 3D printing into tissue engineering, using live cells encapsulated in natural or synthetic biomaterials. This evolution of 3D bioprinting has been the focus of our article. Here, we methodically discussed the current stance, history, techniques, materials, and taxonomy of 3D bioprinting along with the challenges encountered.
{"title":"Contemporary standpoint and future of 3D bioprinting in tissue/organs printing","authors":"Vundrala Sumedha Reddy, Brindha Ramasubramanian, Vedant Mohan Telrandhe, Seeram Ramakrishna","doi":"10.1016/j.cobme.2023.100461","DOIUrl":"10.1016/j.cobme.2023.100461","url":null,"abstract":"<div><p>Additive manufacturing, often known as three-dimensional (3D) printing, is driving significant progress in a diverse range of fields, such as engineering, manufacturing, food, and medicine. Realistic tissue models and organ transplantation can provide necessary innovative opportunities to tackle countless medical and health care obstacles. These can be achieved by incorporation of 3D printing into tissue engineering, using live cells encapsulated in natural or synthetic biomaterials. This evolution of 3D bioprinting has been the focus of our article. Here, we methodically discussed the current stance, history, techniques, materials, and taxonomy of 3D bioprinting along with the challenges encountered.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100461"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49053978","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100460
Marta Gherardini , Federico Masiero , Valerio Ianniciello , Christian Cipriani
The development of a dexterous hand prosthesis that is controlled and perceived naturally by the amputee is a major challenge in biomedical engineering. Recent years have seen the rapid evolution of surgical techniques and technologies aimed at this purpose, the majority of which probe muscle electrical activity for control, and deliver electrical pulses to nerves for sensory feedback. Here, we report on the myokinetic interface concept that exploits magnetic field principles to achieve natural control and sensory feedback of an artificial hand. Like implantable myoelectric sensors, but using passive implants, localizing magnets implanted in independent muscles could allow monitoring their contractions and thus controlling the corresponding movements in the artificial hand in a biomimetic, direct, independent, and parallel manner. Selectively vibrating the magnets also offers a unique opportunity to study kinesthetic percepts in humans. The myokinetic interface opens new possibilities for interfacing humans with robotic technologies in an intuitive way.
{"title":"The myokinetic interface: Implanting permanent magnets to restore the sensory-motor control loop in amputees","authors":"Marta Gherardini , Federico Masiero , Valerio Ianniciello , Christian Cipriani","doi":"10.1016/j.cobme.2023.100460","DOIUrl":"10.1016/j.cobme.2023.100460","url":null,"abstract":"<div><p>The development of a dexterous hand prosthesis that is controlled and perceived naturally by the amputee is a major challenge in biomedical engineering. Recent years have seen the rapid evolution of surgical techniques and technologies aimed at this purpose, the majority of which probe muscle electrical activity for control, and deliver electrical pulses to nerves for sensory feedback. Here, we report on the <em>myokinetic interface</em> concept that exploits magnetic field principles to achieve natural control and sensory feedback of an artificial hand. Like implantable myoelectric sensors, but using passive implants, localizing magnets implanted in independent muscles could allow monitoring their contractions and thus controlling the corresponding movements in the artificial hand in a biomimetic, direct, independent, and parallel manner. Selectively vibrating the magnets also offers a unique opportunity to study kinesthetic percepts in humans. The myokinetic interface opens new possibilities for interfacing humans with robotic technologies in an intuitive way.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100460"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42170306","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100464
Huaizhong Xu , Lei Du
The development of melt electrowriting (MEW) technology can print many sustainable medical materials into high-resolution scaffolds to be applied in tissue engineering and regenerative medicine. The printability of the MEW can be highly improved after tuning and avoiding the particular phenomena of jet lag, fiber shifting, jet pulsing, and fiber bridging. Different MEW devices are developed to produce scaffolds with complicated or hierarchical structures to mimic human tissues. It is believed that the MEW technology can be extended to many other medical applications in the following years.
{"title":"Sustainable medical materials printed by melt electrowriting: A mini-review","authors":"Huaizhong Xu , Lei Du","doi":"10.1016/j.cobme.2023.100464","DOIUrl":"10.1016/j.cobme.2023.100464","url":null,"abstract":"<div><p>The development of melt electrowriting (MEW) technology can print many sustainable medical materials into high-resolution scaffolds to be applied in tissue engineering and regenerative medicine. The printability of the MEW can be highly improved after tuning and avoiding the particular phenomena of jet lag, fiber shifting, jet pulsing, and fiber bridging. Different MEW devices are developed to produce scaffolds with complicated or hierarchical structures to mimic human tissues. It is believed that the MEW technology can be extended to many other medical applications in the following years.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100464"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44616828","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100471
Caitlin H. Lamb, Brian Kang, Cameron Myhrvold
Bacterial and viral pathogens are devastating to human health and well-being. In many regions, dozens of pathogen species and variants co-circulate. Thus, it is important to detect many different species and variants of pathogens in a given sample through multiplexed detection methods. CRISPR-based nucleic acid detection has shown to be a promising step towards an easy-to-use, sensitive, specific, and high-throughput method to detect nucleic acids from DNA and RNA viruses and bacteria. Here, we review the current state of multiplexed nucleic acid detection methods with a focus on CRISPR-based methods. We also look toward the future of multiplexed point-of-care diagnostics.
{"title":"Multiplexed CRISPR-based methods for pathogen nucleic acid detection","authors":"Caitlin H. Lamb, Brian Kang, Cameron Myhrvold","doi":"10.1016/j.cobme.2023.100471","DOIUrl":"10.1016/j.cobme.2023.100471","url":null,"abstract":"<div><p>Bacterial and viral pathogens are devastating to human health and well-being. In many regions, dozens of pathogen species and variants co-circulate. Thus, it is important to detect many different species and variants of pathogens in a given sample through multiplexed detection methods. CRISPR-based nucleic acid detection has shown to be a promising step towards an easy-to-use, sensitive, specific, and high-throughput method to detect nucleic acids from DNA and RNA viruses and bacteria. Here, we review the current state of multiplexed nucleic acid detection methods with a focus on CRISPR-based methods. We also look toward the future of multiplexed point-of-care diagnostics.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100471"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10310064/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9741828","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100456
Trey J. Pichon , Nathan J. White , Suzie H. Pun
Trauma leading to severe hemorrhage and shock on average kills patients within 3–6 h after injury. With average prehospital transport times reaching 1–6 h in low- to middle-income countries, stopping the bleeding and reversing hemorrhagic shock is vital. First-generation intravenous hemostats rely on traditional drug delivery platforms, such as self-assembling systems, fabricated nanoparticles, and soluble polymers due to their active targeting, biodistribution, and safety. We discuss some challenges in translating these therapies to patients, as very few have successfully made it through preclinical evaluation in large animals, and none have translated to the clinic. Finally, we discuss the physiology of hemorrhagic shock, highlight a new low-volume resuscitant (LVR) PEG-20k, and end with considerations for the rational design of LVRs.
{"title":"Engineered intravenous therapies for trauma","authors":"Trey J. Pichon , Nathan J. White , Suzie H. Pun","doi":"10.1016/j.cobme.2023.100456","DOIUrl":"10.1016/j.cobme.2023.100456","url":null,"abstract":"<div><p>Trauma leading to severe hemorrhage and shock on average kills patients within 3–6 h after injury. With average prehospital transport times reaching 1–6 h in low- to middle-income countries, stopping the bleeding and reversing hemorrhagic shock is vital. First-generation intravenous hemostats rely on traditional drug delivery platforms, such as self-assembling systems, fabricated nanoparticles, and soluble polymers due to their active targeting, biodistribution, and safety. We discuss some challenges in translating these therapies to patients, as very few have successfully made it through preclinical evaluation in large animals, and none have translated to the clinic. Finally, we discuss the physiology of hemorrhagic shock, highlight a new low-volume resuscitant (LVR) PEG-20k, and end with considerations for the rational design of LVRs.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100456"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10343715/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9828358","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100462
Maneeshika M. Madduri , Samuel A. Burden , Amy L. Orsborn
User-machine interfaces map biological signals measured from the user to control commands for external devices. The mapping from biosignals to device inputs is performed by a decoding algorithm. Adaptation of both the user and decoder—co-adaptation—provides opportunities to improve the inclusivity and usability of interfaces for diverse users and applications. User learning leads to robust interface control that can generalize across environments and contexts. Decoder adaptation can personalize interfaces, account for day-to-day signal variability, and improve overall performance. Co-adaptation therefore creates opportunities to shape the user and decoder system to achieve robust and generalizable personalized interfaces. However, co-adaptation creates a two-learner system with dynamic interactions between the user and decoder. Engineering co-adaptive interfaces requires new tools and frameworks to analyze and design user-decoder interactions. In this article, we review adaptive decoding, user learning, and co-adaptation in user-machine interfaces, primarily brain-computer, myoelectric, and kinematic interfaces, for motor control. We then discuss performance criteria for co-adaptive interfaces and propose a game-theoretic approach to designing user-decoder co-adaptation.
{"title":"Biosignal-based co-adaptive user-machine interfaces for motor control","authors":"Maneeshika M. Madduri , Samuel A. Burden , Amy L. Orsborn","doi":"10.1016/j.cobme.2023.100462","DOIUrl":"10.1016/j.cobme.2023.100462","url":null,"abstract":"<div><p>User-machine interfaces map biological signals measured from the user to control commands for external devices. The mapping from biosignals to device inputs is performed by a decoding algorithm. Adaptation of both the user and decoder—co-adaptation—provides opportunities to improve the inclusivity and usability of interfaces for diverse users and applications. User learning leads to robust interface control that can generalize across environments and contexts. Decoder adaptation can personalize interfaces, account for day-to-day signal variability, and improve overall performance. Co-adaptation therefore creates opportunities to shape the user and decoder system to achieve robust and generalizable personalized interfaces. However, co-adaptation creates a two-learner system with dynamic interactions between the user and decoder. Engineering co-adaptive interfaces requires new tools and frameworks to analyze and design user-decoder interactions. In this article, we review adaptive decoding, user learning, and co-adaptation in user-machine interfaces, primarily brain-computer, myoelectric, and kinematic interfaces, for motor control. We then discuss performance criteria for co-adaptive interfaces and propose a game-theoretic approach to designing user-decoder co-adaptation.</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100462"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45485912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-09-01DOI: 10.1016/j.cobme.2023.100455
D. Cardella, D. Sanchez-Guzman, T.H. Rabbitts
Intracellular antibodies have been deployed as powerful research tools for the last 20 years for inhibition of proteins to convey specific information about protein function. Accordingly, intracellular antibodies have been used for target validation in oncology and were the first reagents to inhibit “undruggable” targets, such as RAS mutants and LMO2. Their versatility allows addition of effector functions to invoke cell phenotypes following target engagement inside cells. Moreover, the paratope–epitope interaction of intracellular antibodies has been recently exploited to develop small molecule surrogates. We will discuss the flexibility that intracellular antibodies provide for discovery research and for new generations of therapeutics in all clinical indications where an aberrant protein expression is involved (oncology, neurological disease, infection, inflammation).
{"title":"Intracellular antibodies and biodegraders: Beyond small molecules and back again","authors":"D. Cardella, D. Sanchez-Guzman, T.H. Rabbitts","doi":"10.1016/j.cobme.2023.100455","DOIUrl":"10.1016/j.cobme.2023.100455","url":null,"abstract":"<div><p>Intracellular antibodies have been deployed as powerful research tools for the last 20 years for inhibition of proteins to convey specific information about protein function. Accordingly, intracellular antibodies have been used for target validation in oncology and were the first reagents to inhibit “undruggable” targets, such as RAS mutants and LMO2. Their versatility allows addition of effector functions to invoke cell phenotypes following target engagement inside cells. Moreover, the paratope–epitope interaction of intracellular antibodies has been recently exploited to develop small molecule surrogates. We will discuss the flexibility that intracellular antibodies provide for discovery research and for new generations of therapeutics in all clinical indications where an aberrant protein expression is involved (oncology, neurological disease, infection, inflammation).</p></div>","PeriodicalId":36748,"journal":{"name":"Current Opinion in Biomedical Engineering","volume":"27 ","pages":"Article 100455"},"PeriodicalIF":3.9,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48432158","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}