Claudia Beraldo, Alessandro Alboresi, Tomas Morosinotto
{"title":"Photoprotective-based strategies to enhance crop yield under fluctuating light conditions","authors":"Claudia Beraldo, Alessandro Alboresi, Tomas Morosinotto","doi":"10.1016/j.copbio.2025.103424","DOIUrl":"10.1016/j.copbio.2025.103424","url":null,"abstract":"<div><div>Photosynthesis is a fundamental biological process, and optimizing its efficiency is crucial for increasing crop yields without expanding cultivated land. Photosynthesis is finely regulated, and plants employ photoprotective mechanisms such as non-photochemical quenching (NPQ) and alternative electron pathways to dissipate excess energy and avoid potential damage.</div><div>In field conditions, light availability fluctuates rapidly due to environmental variability and canopy architecture, creating alternating periods of saturating illumination and shade, a context where photoprotection mechanisms are essential but also generate energy losses. Promising improvements in light-use efficiency have been obtained by optimizing NPQ response to field conditions, though impacts vary across species. These results highlight the need for strategies tailored to species and environment and for exploration of complementary approaches targeting other mechanisms.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103424"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145879991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Strategies and challenges for synthetic apomixis","authors":"Hui Ren , Venkatesan Sundaresan","doi":"10.1016/j.copbio.2025.103433","DOIUrl":"10.1016/j.copbio.2025.103433","url":null,"abstract":"<div><div>Harnessing heterosis has been important to agriculture, but its full potential remains constrained by the inability to clonally propagate hybrid seeds. Synthetic apomixis, engineering asexual seed formation in sexual crops, provides a path to fix heterosis through generations. This review compiles current advances in engineering synthetic apomixis, focusing on two major components: the substitution of mitosis for meiotic divisions and maternally derived embryo development by haploid inducer or parthenogenesis. Despite rapid progress made in rice, significant challenges remain for general implementation and extension to other crops. We discuss these challenges and the possible paths forward to make synthetic apomixis feasible for widespread application in agriculture.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103433"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145965271","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Deep learning and generative artificial intelligence methods in enzyme and cell engineering","authors":"Steffen Docter , Benoit David , Holger Gohlke","doi":"10.1016/j.copbio.2025.103393","DOIUrl":"10.1016/j.copbio.2025.103393","url":null,"abstract":"<div><div>Efficient enzymes and microbial factories are essential to promote the transition toward a sustainable bioeconomy. This review focuses on the progress of artificial intelligence (AI) methods in accelerating the development of optimized biocatalysts and genetic networks in cells. Recent advances in AI in the field of enzyme discovery, engineering, and <em>de novo</em> design are discussed. Additionally, we highlight examples of successful applications of AI in optimizing different components in cells, from gene expression regulation to metabolic pathway optimization and design. Finally, this review emphasizes the challenges limiting the reliability and generalizability of current AI methods.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103393"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145676701","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Crop models: integrating systems from the molecular to global for agricultural productivity and sustainability","authors":"Ximin Piao , Megan L Matthews","doi":"10.1016/j.copbio.2026.103438","DOIUrl":"10.1016/j.copbio.2026.103438","url":null,"abstract":"<div><div>Mathematical models that simulate crop growth in response to environmental conditions and management practices are essential tools for exploring agriculture-based strategies to address food security and environmental sustainability challenges. Early applications of crop models focused on supporting farmers in making management decisions. Applications have since expanded to estimating future impacts on local and global food production from changing climates. Emerging applications of crop models aim to leverage how these models integrate plant processes across biological scales to identify engineering or breeding strategies that account for environmentally-responsive dynamics at field scales and for exploring solutions to improve sustainability. In this review, we highlight recent studies across these four broad application areas and highlight potential future directions for the crop modeling field.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103438"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146017762","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Bastian Nießing , Rebekka Wagner , Laura Herbst , Robert H Schmitt
{"title":"Tools for automated genome editing of stem cells","authors":"Bastian Nießing , Rebekka Wagner , Laura Herbst , Robert H Schmitt","doi":"10.1016/j.copbio.2025.103399","DOIUrl":"10.1016/j.copbio.2025.103399","url":null,"abstract":"<div><div>Automated genome editing of stem cells represents a great advancement in the fields of disease modeling and regenerative medicine. This review evaluates the current tools and methodologies for implementing automated genome editing for induced pluripotent stem cells. The increasing demand for precise genome editing technologies, driven by the growing gene editing market, necessitates efficient and scalable solutions to overcome the complexities and costs associated with traditional editing methods. A comprehensive overview of various automation strategies is provided, focusing on key workflows that encompass stem cell expansion, genetic material delivery through viral vectors, lipid nanoparticles, and electroporation, as well as monoclonal expansion techniques. Advances in automation not only enhance editing efficiency and reduce labor intensity but also ensure quality and reproducibility in stem cell research. As the field progresses, the integration of artificial intelligence and the shift toward closed, good manufacturing practice-compliant systems are anticipated to further streamline automated genome editing processes.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103399"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145682220","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"PRRs and NLRs sans frontières: advances and challenges in transfer of immune receptors between plant species","authors":"Hailong Guo , Jonathan D.G. Jones","doi":"10.1016/j.copbio.2025.103429","DOIUrl":"10.1016/j.copbio.2025.103429","url":null,"abstract":"<div><div>Plants employ cell-surface and intracellular immune receptors to perceive pathogens and activate defense responses. Recent advances in mechanistic understanding of how cell-surface and intracellular immune receptors convert recognition of molecular patterns or effectors into defense activation, combined with the knowledge of receptor repertoire variation both within and between species, allow transfer of immune receptors between species to increase the spectrum of recognition specificities. Here, we summarize recent progress in the functional transfer of immune receptors within and between plant families. We also discuss challenges that limit the transferability of intracellular immune receptors, including the requirement of additional host factors or downstream components and their incompatibility between donor and recipient species. Finally, we provide an overview of future perspectives for bioengineering disease-resistant crops through immune receptor transfer.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103429"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145951584","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Reprogramming immunity: TAL effector-informed genome editing in rice and other crops","authors":"Ajay Gupta , Priti Sharma , Bing Yang","doi":"10.1016/j.copbio.2025.103430","DOIUrl":"10.1016/j.copbio.2025.103430","url":null,"abstract":"<div><div>Bacterial type III effector proteins, particularly transcription activator-like effectors (TALEs) secreted by <em>Xanthomonas</em> spp., play critical roles in pathogen–host dynamics. While TALEs facilitate bacterial infections, they also possess vulnerabilities that plants and scientists can exploit to develop mechanisms of resistance. This review encompasses the characteristics and functions of TALEs, examining both their virulence and avirulence roles, and the host plants’ counter-strategies. We highlight advancements in genome editing technologies aimed at combating TALE-dependent plant diseases, with a focus on bacterial blight and leaf streak of rice, but also including bacterial blights of cotton and cassava, and citrus canker. Additionally, we share perspectives on various strategies and approaches for applying genome editing tools to improve disease resistance traits in crop breeding.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103430"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145951598","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Priscila O Giuseppe , Nadia MV Sampaio , Tassia L Junqueira, Fernanda Mandelli, Leticia M Zanphorlin, Gabriela F Persinoti, Mario T Murakami
{"title":"Challenges and opportunities for establishing biofoundries in Latin America","authors":"Priscila O Giuseppe , Nadia MV Sampaio , Tassia L Junqueira, Fernanda Mandelli, Leticia M Zanphorlin, Gabriela F Persinoti, Mario T Murakami","doi":"10.1016/j.copbio.2025.103419","DOIUrl":"10.1016/j.copbio.2025.103419","url":null,"abstract":"<div><div>Biofoundries are transforming biotechnology by automating design–build–test–learn (DBTL) cycles that accelerate biological design and innovation. While globally recognized as strategic infrastructures for the bioeconomy, they remain underrepresented in Latin America. This perspective highlights opportunities and challenges for establishing biofoundries across the region, emphasizing the need for open-access infrastructures, interdisciplinary networks, sustainability-assisted developments, and regulatory convergence. We discuss the advancement of integrated biofoundry models that combine multi-omics and synthetic biology approaches with sustainability assessments and bioprocess scale-up capabilities. This integrative framework, spanning from bioprospection to bioprocess scale-up, offers a key strategy to bridge biodiversity and industrial innovation, serving as a potential blueprint for expanding biofoundry initiatives across Latin America. Harnessing the regional biodiversity, scientific capacity, and growing innovation networks can establish a collaborative, sustainable biofoundry landscape capable of converting biological resources into high-value biotechnological solutions to address global challenges.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103419"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145786918","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Advances in artificial biosynthesis of bioactive plant natural products","authors":"Shubin Mou, Yang Hai","doi":"10.1016/j.copbio.2025.103425","DOIUrl":"10.1016/j.copbio.2025.103425","url":null,"abstract":"<div><div>Plant natural products (PNPs) offer exceptional chemical diversity and therapeutic potential, but their low natural abundance and complex biosynthetic origins often hinder scalable access. Microbial heterologous reconstruction has enabled the production of select PNPs, yet major challenges remain, including incomplete pathway elucidation, limited enzyme performance, and poor metabolic compatibility. Emerging advances in artificial biosynthesis provide a complementary strategy to transcend the constraints of native plant metabolism. By leveraging enzyme promiscuity, precursor prefunctionalization, modular pathway design, and recruitment of repurposed or engineered catalysts, artificial biosynthesis enables streamlined, controllable, and evolvable routes to structurally complex PNP scaffolds. These innovations define a rapidly advancing paradigm in which PNPs can be biosynthesized through predictive, design-driven, and non-natural pathways, offering new opportunities for discovery and sustainable biomanufacturing.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103425"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145917309","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Bas Teusink , Pranas Grigaitis , Maaike Remeijer , Frank Bruggeman , Ralf Steuer
{"title":"Resource allocation models: theory and applications in microbial biotechnology","authors":"Bas Teusink , Pranas Grigaitis , Maaike Remeijer , Frank Bruggeman , Ralf Steuer","doi":"10.1016/j.copbio.2025.103391","DOIUrl":"10.1016/j.copbio.2025.103391","url":null,"abstract":"<div><div>Wild-type cells allocate their limited resources to express proteins that support growth and survival in their natural environments. In contrast, biotechnology aims to maximize key performance indicators such as yield, productivity, or titer. Maximizing performance indicators, however, inevitably encounters physical, biochemical, genetic, and evolutionary constraints that create trade-offs between competing objectives. A central challenge in microbial biotechnology is therefore to align cellular behavior with production goals, which can be achieved by manipulating cultivation conditions and intracellular resource allocation strategies through targeted metabolic engineering or adaptive laboratory evolution. Resource allocation models provide a theoretical framework to understand and guide such optimization efforts. Here, we review the current state of resource allocation modeling, including tools, methods, and theoretical foundations, and discuss their current applications in microbial biotechnology.</div></div>","PeriodicalId":10833,"journal":{"name":"Current opinion in biotechnology","volume":"97 ","pages":"Article 103391"},"PeriodicalIF":7.0,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145584151","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}