Article
Agriculture, Dairy & Animal Science
Hiep T. Dao, Nishchal K. Sharma, Emma J. Bradbury, Robert A. Swick
Summary: This study showed that supplementing Arg or Cit to Arg-deficient diets for broilers can improve body weight gain and reduce feed conversion ratio. Adding GAA to the diets had a lowering effect on feed conversion ratio, but did not significantly increase body weight gain.
JOURNAL OF ANIMAL PHYSIOLOGY AND ANIMAL NUTRITION
(2021)
Article
Biochemistry & Molecular Biology
Marc Finkler, Sina Ravanbodshirazi, Florent Grimm, Philip Hartz, Albrecht Ott
Summary: Replacing canonical amino acids with noncanonical ones can expand the functional scope of proteins and facilitate the formation of cross-links.
BIOORGANIC & MEDICINAL CHEMISTRY
(2021)
Article
Plant Sciences
Qi Chen, Yanpeng Wang, Zhijun Zhang, Xiaomin Liu, Chao Li, Fengwang Ma
Summary: This study explored the function of arginine in the growth of apple plants under nitrogen deficiency and found that exogenous arginine can alleviate nitrogen deficiency stress and improve the absorption and use of nitrogen, phosphorus, and potassium. Arginine also affects the content of metabolites, amino acids, and antioxidants, promoting photosynthetic capacity and improving the tolerance of apple plants to nitrogen deficiency.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agronomy
Youssef Elamine, Manuel Alaiz, Julio Giron-Calle, Raquel P. F. Guine, Javier Vioque
Summary: The search for new sources of plant protein is driven by increasing demand in developing countries and interest in healthy alternatives. Analysis of 23 wild legume seeds in Spain showed that species from tribe Trifolieae had the most balanced amino acid composition, but were deficient in sulfur amino acids. Some seeds were found to have high levels of the anticancer amino acid canavanine.
Review
Pharmacology & Pharmacy
Naihui Sun, Xing Zhao
Summary: Metabolic reprogramming is an important feature of tumor cells, and tumor cells adjust their metabolic phenotype to meet their energy and biomass requirements. Arginine, as a non-essential amino acid in tumor therapy, has potential therapeutic advantages, and ASS1 has become an important therapeutic target.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Chemistry, Applied
Faiz Izzuddin Azmi, Pei Sean Goh, Ahmad Fauzi Ismail, Nor Akalili Ahmad, Muhammad Nidzhom Zainol Abidin
Summary: In this study, the surface of PA TFC RO membrane was modified by grafting Arg-Arg dipeptide, which successfully improved the membrane's antifouling properties, chlorine resistance, and separation performance. The grafting of Arg-Arg dipeptide resulted in optimized surface characteristics, leading to enhanced water flux and salt rejection.
REACTIVE & FUNCTIONAL POLYMERS
(2023)
Article
Agriculture, Dairy & Animal Science
Magdalena Krauze, Katarzyna Ognik, Dariusz Mikulski, Jan Jankowski
Summary: This study evaluated the effect of different ratios of lysine, arginine, and methionine on potential neurodegenerative effects in the brain and liver of turkeys. The results showed that in diets with low or high lysine levels, arginine can be reduced to 90% and methionine to 30% of the lysine level without causing neurodegenerative changes.
Article
Biochemical Research Methods
Arnaz Ranji Charna, Benjamin J. Des Soye, Ioanni Ntai, Neil L. Kelleher, Michael C. Jewett
Summary: Incorporation of noncanonical amino acids into proteins using a highly efficient cell-free protein synthesis platform has been reported in this study. This platform enables the site-specific incorporation of Pyrrolysine-based noncanonical amino acids into proteins at high suppression efficiency.
BIOTECHNOLOGY JOURNAL
(2022)
Review
Immunology
Rebecca R. Crowther, Joseph E. Qualls
Summary: This article provides a summary of the current knowledge on anti-Mtb immunity, focusing on immune cell amino acid metabolism, specifically discussing the roles of L-arginine and L-tryptophan in TB patients. By uncovering the immune cell contribution during Mtb infection and how amino acid utilization regulates their functions, novel host-directed therapies may be developed and refined to help eradicate TB.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Takuma Kato, Yuki Kita, Kazuki Iwanari, Akiko Asano, Makoto Oba, Masakazu Tanaka, Mitsunobu Doi
Summary: The introduction of dAAs containing both natural and unnatural amino acids can enhance the cellular uptake and membrane permeability of novel CPPs. The size of the dAA ring has a significant impact on cellular uptake, while the number of carbon atoms in the side chain ring has minimal effect.
BIOORGANIC & MEDICINAL CHEMISTRY
(2021)
Article
Multidisciplinary Sciences
Cristina Perez-Fernandez, Jorge Vega, Pedro Rayo-Pizarroso, Eva Mateo-Marti, Marta Ruiz-Bermejo
Summary: This study highlights the potential of alkaline hydrothermal environments and cyanide as a precursor for the synthesis of ancestral pre-RNA nucleobases. The alkaline hydrothermal scenarios are shown to be good geological scenarios for the generation of noncanonical nucleobases.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Yanchen Liu, Yuanfei Li, Miao Yu, Zhimei Tian, Jinping Deng, Xianyong Ma, Yulong Yin
Summary: This study investigated the effects of dietary supplementation with magnolol on the growth performance, anti-inflammatory abilities, serum and muscle amino acid profiles, and metabolisms in growing pigs. The results showed that magnolol supplementation had no effect on growth performance, but significantly increased the serum content of certain proteins and immune factors. It also altered the amino acid profiles in serum and muscle, and increased the expression of genes associated with amino acid transport. Additionally, magnolol supplementation enhanced the biosynthesis of specific amino acids and their metabolism. These findings suggest that dietary supplementation with magnolol has the potential to improve the accumulation of amino acids, protein synthesis, immunity, and overall health in growing pigs.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Nutrition & Dietetics
Stefano Maric, Tanja Restin, Julian Louis Muff, Simone Mafalda Camargo, Laura Chiara Guglielmetti, Stefan Gerhard Holland-Cunz, Pascal Crenn, Raphael Nicolas Vuille-dit-Bille
Summary: L-Citrulline, an important amino acid released from enterocytes, plays a crucial role in monitoring intestinal integrity and diagnosing rheumatoid diseases. It may also predict poor outcomes in cancer patients. Supplementation with L-Citrulline can slightly improve muscle strength or protein balance.
Article
Biochemistry & Molecular Biology
Yang Chen, Hui Zhao, Weilian Liang, Erhui Jiang, Xiaocheng Zhou, Zhe Shao, Ke Liu, Zhengjun Shang
Summary: The study found that autophagy activation contributes to the acquisition and self-renewal of cancer stem cell (CSC) properties in head and neck squamous cell carcinoma (HNSCC) under adverse conditions. Inhibiting autophagy can mitigate CSC properties acquired under adverse conditions. Additionally, FOXO3 is enriched in the nucleus of cells with lower autophagy levels and negatively regulates the transcriptional activity of SOX2, impacting the CSC phenotype.
Article
Biotechnology & Applied Microbiology
Simon K. Krebs, Nathanael Rakotoarinoro, Marlitt Stech, Anne Zemella, Stefan Kubick
Summary: Incorporation of noncanonical amino acids with bioorthogonal reactive groups allows the generation of synthetic proteins with novel properties. This study investigates the positions of these amino acids in a cell-free system and their impact on incorporation efficiency and protein functionality.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Huan Sun, Haiyang Jia, Diego A. Ramirez-Diaz, Nediljko Budisa, Petra Schwille
Summary: Mapping and elucidating molecular mechanisms of self-organization in prokaryotic cells using light-mediated assembly of functional protein modules is a promising strategy for creating minimal cells.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Article
Chemistry, Multidisciplinary
Federica Agostini, Ludwig Sinn, Daniel Petras, Christian J. Schipp, Vladimir Kubyshkin, Allison Ann Berger, Pieter C. Dorrestein, Juri Rappsilber, Nediljko Budisa, Beate Koksch
Summary: Organofluorine compounds are toxic to a variety of organisms, but some organisms (such as bacteria) can adapt to fluorinated molecules and utilize them for the synthesis of cellular macromolecules. Experiments with E. coli exposed to fluorinated amino acids revealed the cellular mechanisms behind adaptation to unnatural amino acids.
ACS CENTRAL SCIENCE
(2021)
Review
Chemistry, Organic
Vladimir Kubyshkin, Rebecca Davis, Nediljko Budisa
Summary: Fluorinated proline replacements, such as (4R)- and (4S)-fluoroproline, have shown advantages in elevating protein expression speed and yields, as well as improving folding profiles. They are considered useful tools in biotechnological applications and may potentially be used for proteome-wide proline-to-fluoroproline substitutions in the future. Furthermore, laboratory evolutionary methods with fluoroprolines could enable the introduction of fluorine into living cells, potentially creating synthetic cells with artificial biodiversity containing fluorine as a bioelement.
BEILSTEIN JOURNAL OF ORGANIC CHEMISTRY
(2021)
Review
Biochemical Research Methods
Nicholas S. Kruyer, Widianti Sugianto, Benjamin Tickman, Diego Alba Burbano, Vincent Noireaux, James M. Carothers, Pamela Peralta-Yahya
Summary: Membrane proteins play essential roles in cellular processes such as metabolism and electron transport. Recent studies have demonstrated the production of membrane proteins in membrane augmented cell-free systems (CFSs), providing a new approach for generating functional membrane proteins.
ACS SYNTHETIC BIOLOGY
(2021)
Editorial Material
Biochemical Research Methods
Rebecca Mackelprang, Emily R. Aurand, Roel A. L. Bovenberg, Kathryn R. Brink, R. Alta Charo, Jason A. Delborne, James Diggans, Andrew D. Ellington, Jeffrey L. Clem Fortman, Farren J. Isaacs, June I. Medford, Richard M. Murray, Vincent Noireaux, Megan J. Palmer, Laurie Zoloth, Douglas C. Friedman
Summary: Engineering biology is being applied to address major societal challenges, and it is crucial for researchers to consider ethical implications in their work. The development of a Statement of Ethics and six guiding principles aims to promote reflection and collaboration among various stakeholders for the best outcomes in engineering biology innovation and development.
ACS SYNTHETIC BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Benjamin Tickman, Diego Alba Burbano, Venkata P. Chavali, Cholpisit Kiattisewee, Jason Fontana, Aset Khakimzhan, Vincent Noireaux, Jesse G. Zalatan, James M. Carothers
Summary: CRISPR-Cas transcriptional circuits are promising platforms for engineering metabolic networks and information processing circuits. This study develops design principles for CRISPRa/i circuits and establishes a framework for building scalable circuits.
Article
Biochemistry & Molecular Biology
Hsueh-Wei Tseng, Marcus Moldenhauer, Thomas Friedrich, Eugene G. Maksimov, Nediljko Budisa
Summary: Orange Carotenoid Protein (OCP) is a water-soluble photoreceptor involved in photoprotection of cyanobacteria. By replacing essential residues of the photoactive OCP with non-canonical aromatic analogues, the key contacts with non-canonical amino acids can be controlled and manipulated, altering the state preference of OCP.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2022)
Article
Chemistry, Physical
Allen P. Liu, Eric A. Appel, Paul D. Ashby, Brendon M. Baker, Elisa Franco, Luo Gu, Karmella Haynes, Neel S. Joshi, April M. Kloxin, Paul H. J. Kouwer, Jeetain Mittal, Leonardo Morsut, Vincent Noireaux, Sapun Parekh, Rebecca Schulman, Sindy K. Y. Tang, Megan T. Valentine, Sebastian L. Vega, Wilfried Weber, Nicholas Stephanopoulos, Ovijit Chaudhuri
Summary: Recent advancements in synthetic biology and biomaterials have provided exciting tools for creating new materials and extending the application of synthetic biology. Despite their transformative potential, these fields have mostly progressed separately. This Perspective reviews recent key advances and presents a roadmap for collaboration between the two communities, emphasizing the near-term applications in developing hierarchically structured biomaterials.
Article
Multidisciplinary Sciences
Huan Sun, Haiyang Jia, Olivia Kendall, Jovan Dragelj, Vladimir Kubyshkin, Tobias Baumann, Maria-Andrea Mroginski, Petra Schwille, Nediljko Budisa
Summary: In this study, the authors investigated the halogenation of the prokaryotic cell division protein FtsZ and demonstrated its effects on protein structure and dynamics. They provided valuable insights into the mechanism of halogen influence through experiments and theories.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Nisha Mohanan, Michael C. -H. Wong, Nediljko Budisa, David B. Levin
Summary: In this study, genes encoding an intracellular lipase (LIP3), an extracellular lipase (LIP4), and an intracellular PHA depolymerase (PhaZ) were identified in Pseudomonas chlororaphis PA23. These genes were cloned and expressed in Escherichia coli, and the biochemical and substrate preferences of the enzymes were characterized. The results showed that these enzymes exhibited different properties, but they demonstrated broad substrate specificity and could hydrolyze various polymers, including PHAs, pNP alkanoates, and PLA. Furthermore, the enzymes were able to degrade both biodegradable and synthetic polymers, such as PCL and PES, as evidenced by GPC analyses.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Georg Johannes von Freiherr Sass, Matthew Blain-Hartung, Tobias Baumann, Katrina T. Forest, Peter Hildebrandt, Nediljko Budisa
Summary: Orthogonal translation is an efficient tool for parameterization of structural and dynamic phenomena in proteins. Nitrile-containing tryptophan analogs are useful probes for studying local electrostatics and hydrogen bonding. This study reports the engineering of a tyrosyl-tRNA synthetase variant capable of incorporating 5-cyanotryptophan via orthogonal translation, and demonstrates its utility by inserting it into a photosensor protein.
Review
Biochemistry & Molecular Biology
Peter Goettig, Nikolaj G. Koch, Nediljko Budisa
Summary: Amino acids play crucial roles in organisms, being encoded by genetic code and modified post-translationally to generate various functional amino acids. These non-canonical amino acids are important for protein stability and function, and have wide applications in drug development and biological research.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemical Research Methods
Katherine A. Rhea, Nathan D. McDonald, Stephanie D. Cole, Vincent Noireaux, Matthew W. Lux, Patricia E. Buckley
Summary: Cell-free expression systems are versatile tools used in various applications. One such application is genetic circuit prototyping, where rapid testing of design candidates is enabled by high control over reaction components and conditions. However, the variability in cell-free expression systems poses a challenge, especially in qualitative assessments of genetic components. This study explores the effects of variability on genetic circuit prototyping and suggests that a closed loop controller circuit may help mitigate this variability.
Article
Biochemistry & Molecular Biology
David Garenne, Steven Bowden, Vincent Noireaux
Summary: The efficacy of cell-free gene expression has significantly improved in the last decade, allowing for the expression of complex genes in one-pot reactions. A recent landmark demonstration showed that infectious bacteriophages can be synthesized in one-pot CFE reactions, opening new perspectives for producing large biological systems from natural or synthetic DNA. The dynamic synthesis of bacteriophages in test tubes could facilitate the discovery of novel biological functions and the utilization of their self-assembly properties in material sciences applications, given their abundance and diversity.
CURRENT OPINION IN SYSTEMS BIOLOGY
(2021)
Article
Biochemical Research Methods
David Garenne, Seth Thompson, Amaury Brisson, Aset Khakimzhan, Vincent Noireaux
Summary: The new generation of cell-free gene expression systems allows for prototyping and engineering of biological systems in vitro over a wide range of applications and physical scales. The development of more powerful cell-free transcription-translation platforms is a major goal to expand the utilization of DNA-directed in vitro protein synthesis. The all-E. coli TXTL toolbox 3.0 enables efficient cell-free expression and plays an important role in synthetic biology.
Article
Chemistry, Medicinal
Shibin Zhao, Julian Maceren, Mia Chung, Samantha Stone, Raphael Geiben, Melissa L. Boby, Bradley S. Sherborne, Derek S. Tan
Summary: Antibiotic resistance is a major threat to public health, with Gram-negative bacteria presenting unique challenges due to their low permeability and efflux pumps. Limited understanding of the chemical rules for overcoming these barriers hinders antibacterial drug discovery. Efforts to address this issue, such as screening compound libraries and using cheminformatic analysis, have led to the design of sulfamidoadenosines with diverse substituents, showing potential utility in accumulation in Escherichia coli.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2024)
Article
Chemistry, Medicinal
Jichun Li, Qing Li, Shuai Xia, Jiahuang Tu, Longbo Zheng, Qian Wang, Shibo Jiang, Chao Wang
Summary: This study successfully developed a short peptide mimetic as a MERS-CoV fusion inhibitor by reproducing the key recognition features of the HR2 helix. The resulting 23-mer lipopeptide showed comparable inhibitory effect to the 36-mer HR2 peptide HR2P-M2. This has important implications for developing short peptide-based antiviral agents to treat MERS-CoV infection.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2024)
Article
Chemistry, Medicinal
Krista Jaunsleine, Linda Supe, Jana Spura, Sten van Beek, Anna Sandstrom, Jessica Olsen, Carina Halleskog, Tore Bengtsson, Ilga Mutule, Benjamin Pelcman
Summary: Beta(2)-adrenergic receptor agonists can stimulate glucose uptake by skeletal muscle cells and are therefore potential treatments for type 2 diabetes. The chirality of compounds has a significant impact on the activity of these agonists. This study found that certain synthesized compounds showed higher glucose uptake activity. These findings provide important information for the design of novel beta(2)AR agonists for T2D treatment.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2024)
Article
Chemistry, Medicinal
Xin Xu, Jia Chen, Guan Wang, Xiaojuan Zhang, Qiang Li, Xiaobo Zhou, Fengying Guo, Min Li
Summary: The study focuses on EZH2, a promising therapeutic target for various types of cancers. Researchers designed and synthesized a series of novel derivatives aiming to enhance the EZH2 inhibition activity. Among them, compound 28 displayed potent EZH2 inhibition activity and showed high anti-proliferative effects in lymphoma cell lines and xenograft mouse models. The study suggests that compound 28 has potential as a therapeutic candidate for EZH2-associated cancers.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2024)
Article
Chemistry, Medicinal
Wei Zhang, Wei Liu, Ya-Dong Zhao, Li-Zi Xing, Ji Xu, Rui-Jun Li, Yun-Xiao Zhang
Summary: This study developed a series of aromatic amide derivatives based on Rhein and investigated their inhibitory activity against alpha-Syn aggregation. Two of these compounds showed promising potential in treating Parkinson's disease by stabilizing alpha-Syn's conformation and disassembling alpha-Syn oligomers and fibrils.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2024)
Article
Chemistry, Medicinal
Mani Sharma, S. S. S. S. Sudha Ambadipudi, Neeraj Kumar Chouhan, V. Lakshma Nayak, Srihari Pabbaraja, Sai Balaji Andugulapati, Ramakrishna Sistla
Summary: Therapeutically active lipids in drug delivery systems can enhance the safety and efficacy of treatment. The liposome formulation created using synthesized biologically active lipids showed additive anti-cancer effects and reduced tumorigenic potential.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2024)
