Abstract Copper is widely used as a fast-acting antimicrobial, yet the strategies that allow bacteria to survive copper stress remain incompletely understood. Here, we characterize the transcriptional responses of Escherichia coli MG1655 to excess ionic copper using RNA sequencing and a genome-wide GFP-based promoter l...
Hanna Ainelo, Karola Joearu, Andres Ainelo et al.· FEMS Microbes· 0 citations
Soybeans are essential for global agriculture as a major source of protein and oil, supporting food security, livestock feed, and renewable energy industries worldwide. Manipulating the light spectrum using LEDs presents a unique opportunity to optimize soybean growth in a controlled environment. In this study, we...
C. J. da-Silva, C. Collado, Jan van Butsele et al.· Annals of Applied Biology· 0 citations
Findings establish α-HL electrophysiology as a sensitive platform for distinguishing subtle differences in i-motif conformational stability, with potential applications in DNA secondary structure dynamics and disease-targeted diagnostic strategies.
Adina Cimpanu, Jonggwan Park, Yoonkyung Park et al.· Analytical Chemistry· 0 citations
Abstract The three dimensional organization of the genome plays a critical role in gene regulation and cellular function. Unlike folded globular proteins, chromosomes exhibit high structural variability and must be described as ensembles of dynamic conformations rather than as single stable states. This chapter explore...
Vinícius Contessoto, José N. Onuchic· Energy Landscapes of Nucleic...· 0 citations
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A static magnetic field (SMF)-assisted liquid-state fermentation strategy using Lacticaseibacillus paracasei (L. paracasei) is proposed to improve the comprehensive utilization value of Ginkgo biloba leaves. Taking total flavonoid extraction yield as the objective, Box-Behnken response surface methodology was adopted t...
Zhi-Cun Sheng, Die Zhou, Lin Niu et al.· Fermentation· 0 citations
The extensive proteome remodeling in the (p)ppGpp-null relA spoT mutant during late exponential and stationary phase and the first protein-level analysis of the stringent response in P. aeruginosa are characterized, highlighting the role of (p)ppGpp in shutting down broad metabolic functions and activating adaptive pat...
Jacquelyn Rich, Samuel J. T. Wardell, D. Martins et al.· mSystems· 0 citations
Self-assembling mRNA origami (mRNA-OG), a class of unimolecular RNA nanostructures that encode protein-coding sequences within higher-order, programmable, and compact nucleic acid architectures, is developed and established as a new design parameter for mRNA therapeutics that can affect its functionality, delivery prop...
Mark D. Knappenberger, S. J. Henry, Archana Kikla et al.· bioRxiv· 0 citations
Theoretical and Computational Approaches to Nucleic Acid Folding, Interaction, and Assembly. The energy landscape framework offers a powerful lens for understanding how DNA and RNA fold, interact, and assemble. Readers will encounter theoretical and computational approaches for mapping these landscapes encompassing the...
J-domain proteins (JDPs) direct Hsp70 functions through a conserved J-domain that engages and activates Hsp70. JDPs support proteostasis and are linked to development and disease, yet how they are regulated remains unclear. Here, we identify a conserved tyrosine motif outside the canonical four-helix J-domain core, as...
Narasimharaju Kalidindi, A Leder, Guillaume Mas et al.· Communications Biology· 0 citations
Abstract RNA can exhibit a broad range of properties that impact biological processes such as signaling and gene expression. A characteristic feature of RNA is its high negative charge, which arises from the phosphodiester backbone. To overcome the repulsive nature of backbone-backbone interactions during folding, RNA...
Findings identify glutamine-regulated VCP acetylation as a metabolic–proteostasis dependency in RB1-deficient tumors and nominate VCP inhibition as a therapeutic strategy for this difficult-to-target tumor state.
Bing-Hui Yang, Ying Cao, Yi-Ning Tao et al.· bioRxiv· 0 citations
The results demonstrate that fusion partner and SP/KD targeting strategy jointly shape the host response to recombinant IL-15 expression and should therefore be evaluated together during construct design for plant molecular farming.
A. Savinova, Pipob Suwanchaikasem, Balamurugan Shanmugaraj et al.· Plants· 0 citations
A new machine-learning framework aims to improve the success rate of computational protein design while moving away from results that reproduce sequences found in nature.
