Article
Genetics & Heredity
Alexandra Vergnes, Camille Henry, Gaia Grassini, Laurent Loiseau, Sara El Hajj, Yann Denis, Anne Galinier, Didier Vertommen, Laurent Aussel, Benjamin Ezraty
Summary: Methionine residues are sensitive to oxidation by ROS/RCS, which can be reversed by Msr proteins. In E. coli, the MsrPQ system is induced by both reactive oxygen species and copper stress, playing a role in maintaining copper homeostasis.
Review
Biotechnology & Applied Microbiology
Alexandros Karyolaimos, Jan-Willem de Gier
Summary: Producing recombinant proteins in the periplasm of E. coli instead of in its cytoplasm has advantages such as enabling disulfide bond formation and controlling the nature of the mature protein, but challenges like hampered protein targeting, translocation, and folding as well as protein instability exist. Strategies to enhance periplasmic protein production yields focus on increasing the capacity of the secretory apparatus and preventing proteolysis, among other approaches.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Bo Liang, Xinping Zhang, Chenfei Meng, Lu Wang, Jianming Yang
Summary: This study improved the transport performance of the MatPQM importer by obtaining MatP variants through directed evolution and a novel enzyme-inhibition-based high throughput screening approach. The best mutant, E103G/S194G/Y218H/L235P/N272S, showed twofold increased transport efficiency compared to the wild-type. Improved binding affinity of the mutant to the ligand was found to be the reason for the enhanced uptake activity of MatPQM. The engineered strain produced 20.08 g/L 3-HP with a yield of 0.87 mol/mol malonate, demonstrating the broad applications of this transporter mutant in microbial biosynthesis.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Athanasios Papadopoulos, Max Busch, Jens Reiners, Eymen Hachani, Miriam Baeumers, Julia Berger, Lutz Schmitt, Karl-Erich Jaeger, Filip Kovacic, Sander H. J. Smits, Alexej Kedrov
Summary: The periplasmic chaperone Skp of P. aeruginosa plays a crucial role in the maturation and secretion pathway of lipase, preventing misfolding and stabilizing the enzyme. It binds to the lipase via two different modes, maintaining stability through hydrophobic interactions.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Multidisciplinary Sciences
Mary S. Morrison, Tina Wang, Aditya Raguram, Colin Hemez, David R. Liu
Summary: Directed evolution of antibodies has led to important research tools and therapeutic agents. The development of a pPACE platform for continuous evolution of protein-protein interactions in the disulfide-compatible E. coli periplasm demonstrates the potential to optimize proteins containing disulfide bonds.
NATURE COMMUNICATIONS
(2021)
Article
Microbiology
Yajing Song, Zhen Zhou, Jing Gu, Junmei Yang, Jiaoyu Deng
Summary: This study revealed that the resistance of E. coli to trimethoprim (TMP) is associated with the deletion of genes related to glutathione metabolism, leading to activation of drug resistance mechanisms when reducing the periplasmic glutathione content in E. coli.
MICROBIOLOGY SPECTRUM
(2021)
Article
Genetics & Heredity
Luke N. Yaeger, Shawn French, Eric D. Brown, Jean Philippe Cote, Lori L. Burrows
Summary: Exposure of Escherichia coli to sub-inhibitory antibiotics stimulates biofilm formation. Central metabolism and aerobic respiration play important roles in biofilm stimulation, while nitrate respiration inhibits the biofilm stimulation response. By studying the biofilm stimulation response, we can design therapeutics that impair bacterial stress management.
Article
Chemistry, Multidisciplinary
Robert W. Harkness, Zev A. Ripstein, Justin M. Di Trani, Lewis E. Kay
Summary: DegP is a periplasmic protein involved in the transport of pathogenicity-related virulence factors. It functions as a bi-functional protease and chaperone to maintain protein homeostasis in Gram-negative bacteria under stress conditions. It forms cage-like structures by reorganizing high-order preformed apo oligomers, which can encapsulate clients of various sizes.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Biochemistry & Molecular Biology
Bhishem Thakur, Kanika Arora, Archit Gupta, Purnananda Guptasarma
Summary: Researchers investigated whether the nucleoid-associated histone-like protein (HU) could act as a glue in biofilms, finding evidence through various experiments to support this hypothesis.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Editorial Material
Biochemistry & Molecular Biology
Anthony Burnetti, William C. Ratcliff
Summary: In a new paper published in PLOS Biology, Dudin and colleagues have successfully evolved simple multicellularity in Sphaeroforma arctica, a unicellular relative of animals. This research establishes a new pathway for studying the evolution of multicellularity in this important but understudied group of organisms.
Article
Biochemistry & Molecular Biology
Kulandai Arockia Rajesh Packiam, Chien Wei Ooi, Fuyi Li, Shutao Mei, Beng Ti Tey, Huey Fang Ong, Jiangning Song, Ramakrishnan Nagasundara Ramanan
Summary: This study combines features from fermentation process conditions and amino acid sequences to construct a machine learning-based model for predicting the maximal protein yields and corresponding fermentation conditions for recombinant protein production. The model achieves good performance in independent tests and provides a reliable alternative to trial-and-error experiments.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Microbiology
Ethan R. Wyrsch, Kristina Nesporova, Hassan Tarabai, Ivana Jamborova, Ibrahim Bitar, Ivan Literak, Monika Dolejska, Steven P. Djordjevic
Summary: By conducting a comprehensive genomic study on Escherichia coli isolates from the Australian silver gull, this research reveals the presence and distribution of antibiotic resistance genes in different lineages of E. coli. The findings demonstrate the potential transmission of resistant and pathogenic E. coli between wildlife and human populations. The study highlights the importance of understanding the role of bystander species in the spread of antibiotic resistance.
Article
Infectious Diseases
Ilyas Alav, Vassiliy N. Bavro, Jessica M. A. Blair
Summary: In this study, it was found that AcrE can interact with AcrD to form a functional complex, and mutations targeting previously defined PAP-RND interaction sites impair efflux of AcrD-dependent substrates. The interchangeability of AcrA and AcrE highlights them as potential drug targets for efflux inhibition in antibiotic resistance mechanisms.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY
(2021)
Article
Biochemistry & Molecular Biology
Hena Sandhu, Rickard Hedman, Florian Cymer, Renuka Kudva, Nurzian Ismail, Gunnar von Heijne
Summary: The study reveals that the large periplasmic domain of the E. coli inner membrane protease LepB folds post-translationally in vivo, and demonstrates that Force Profile Analysis (FPA) can be utilized to study both co- and post-translational protein folding in the periplasm.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Economics
Lung-Fei Lee, Xiaodong Liu, Eleonora Patacchini, Yves Zenou
Summary: This article presents a methodology for empirically identifying the key player in a network and simulating the network evolution process after the removal of the key player. The findings suggest that the key player is not necessarily the most active delinquent, and a policy targeted at the key player can lead to a much higher delinquency reduction compared to removing the most active delinquent from the network.
JOURNAL OF BUSINESS & ECONOMIC STATISTICS
(2021)