Biological tissues are highly organized structures where spatial-temporal gradients (e.g., nutrients, hypoxia, cytokines) modulate multiple physiological and pathological processes including inflammation, tissue regeneration, embryogenesis, and cancer progression. Current in vitro technologies struggle to capture the complexity of these transient microenvironmental gradients, do not provide dynamic control over the gradient profile, are complex and poorly suited for high throughput applications. Therefore, we have designed Griddent, a user-friendly platform with the capability of generating controllable and reversible gradients in a 3D microenvironment. Our platform consists of an array of 32 microfluidic chambers connected to a 384 well-array through a diffusion port at the bottom of each reservoir well. The diffusion ports are optimized to ensure gradient stability and facilitate manual micropipette loading. This platform is compatible with molecular and functional spatial biology as well as optical and fluorescence microscopy. In this work, we have used this platform to study cancer progression.
Download full-text PDF |
Source |
---|---|
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10492845 | PMC |
http://dx.doi.org/10.1038/s42003-023-05282-3 | DOI Listing |
Methods Mol Biol
December 2024
Systems, Synthetic, and Physical Biology Program, Rice University, Houston, TX, USA.
Optogenetics enables precise control of gene expression in a variety of organisms. We recently developed the first system for optogenetic control of transcription in Bacillus subtilis. This system is based on CcaSR, a light-responsive two-component regulatory system originally derived from Synechocystis PCC 6803.
View Article and Find Full Text PDFGenomics Proteomics Bioinformatics
December 2024
Monash Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Clayton, VIC 3800, Australia.
Unlabelled: The accurate identification of catalytic residues contributes to our understanding of enzyme functions in biological processes and pathways. The increasing number of protein sequences necessitates computational tools for the automated prediction of catalytic residues in enzymes. Here, we introduce SCREEN, a graph neural network for the high-throughput prediction of catalytic residues via the integration of enzyme functional and structural information.
View Article and Find Full Text PDFPLoS One
December 2024
CIBIO, Research Centre in Biodiversity and Genetic Resources, InBIO, Universidade do Porto, Vila do Conde, Portugal.
Thermoregulating ectotherms may resort to different external heat sources to modulate their body temperature through an array of behavioural and physiological adaptations which modulate heat exchange with the environment and its distribution across the animal's body. Even small-bodied animals are capable of fine control over such rates and the subsequent re-allocation of heat across the body. Such thermal exchanges with the environment usually happen through two non-mutually exclusive modes: heliothermy (radiant heat gain from the sun) or thigmothermy (heat gained or lost via conduction).
View Article and Find Full Text PDFJ Med Entomol
December 2024
Department of Biology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad, Iran.
Iran is a biodiversity hotspot of scorpions with 80 recorded species. Thus, scorpion envenomation is a serious public health problem in the country. Here, we used habitat suitability modeling to assess the spatial distribution of scorpions in Iran.
View Article and Find Full Text PDFJ Phys Chem B
December 2024
Theoretical and Computational Biophysics Group, NIH Center for Macromolecular Modeling and Visualization, Beckman Institute for Advanced Science and Technology, University of Illinois Urbana─Champaign, Urbana, Illinois 61801-3028, United States.
Diffusion of mobile charge carriers, such as ferredoxin and plastocyanin, often constitutes a rate-determining step in photosynthetic energy conversion. The diffusion time scales typically exceed that of other primary bioenergetic processes and remain beyond the reach of direct simulation at the molecular level. We characterize the diffusive kinetics of ferredoxin and plastocyanin upon the photosystem I-rich domain of , the most abundant phototroph on Earth by mass.
View Article and Find Full Text PDFEnter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!