Biology subjects

Stokke, B. T.

Publications and source records attributed to Stokke, B. T..

4 recordsLinked to original sources

bioRxiv2025

Integrated microdroplet workflow for high-throughput cell-free transcription in double emulsion picoreactors

Precise characterization of regulatory sequence performance is fundamental to synthetic biology and next-generation gene therapies, driving the need for scalable and quantitative screening of genetic libraries. While droplet-based microfluidics offers the ultra-high throughput required to scale these assays, it often depends on complex, custom fluorescence-activated droplet sorting platforms. To address this limitation, we introduce an integrated microfluidic workflow that enables cell-free transcription in water-in-oil-in-water double emulsion picoreactors compatible with commercial flow cytometers. The core innovation is an integrated device that combines emulsion reinjection, electric-field-mediated step-injection of in vitro transcription (IVT) reagents, and downstream double emulsification, thereby reducing manual handling and preserving droplet integrity across multistep workflows. We validate the system by coupling isothermal rolling circle amplification (RCA) of DNA templates with on-chip IVT and Mango III aptamer-based fluorescence readout, demonstrating robust detection, binning, and sorting of transcription-active droplets. This workflow provides an accessible and modular platform for quantitative, high-throughput functional screening of regulatory sequences without the need for specialized optical sorting instrumentation.

synthetic biology↗

bioRxiv2025

The mechanical properties of Arabidopsis thaliana roots adapt dynamically during development and to stress

Mechanical properties of plant cells and tissues change dynamically, influencing plant growth, development, and interactions with the environment. Despite their central roles in plant life, current knowledge of how these properties change in vivo is very limited. Here we have combined Brillouin microscopy and molecular rotors to investigate stiffness, viscosity and porosity in living Arabidopsis thaliana seedling roots during differentiation and in response to stress and genetic manipulation. We found that mechanical properties change in a cell- and tissue-specific manner. The properties change dynamically during differentiation to support directional cell expansion. Cell-type-specific adaptations are induced within hours in response to stress or changes in cell wall metabolism. The findings form the foundation for future studies to characterize regulatory mechanisms linking biochemical signaling and mechanical properties.

plant biology↗

bioRxiv2024

Tubulin-Targeted Therapy in Melanoma Increases Cell Invasive Potential by Activation of Actomyosin Cytoskeleton - an in vitro study

One of the most dangerous aspects of cancers is their ability to metastasize, which is the leading cause of death. Hence, it holds significance to develop therapies targeting the eradication of cancer cells, in parallel, inhibiting metastases in cells surviving the applied therapy. Here, we focused on two melanoma cell lines - WM35 and WM266-4 - representing the less and more invasive melanomas. We investigated mechanisms of cellular processes regulating the activation of actomyosin being the effect of colchicine treatment. Additionally, we investigated biophysical aspects of supplement therapy using Rho-associated protein kinase (ROCK) inhibitor (Y-27632), and myosin II inhibitor ((-)-blebbistatin), focusing on the microtubules and actin filaments. We analyzed their effect on the proliferation, migration, and invasiveness of melanoma cells, supported by studies on cytoskeletal architecture using confocal fluorescence microscopy and nanomechanics using atomic force microscopy and novel method based on constriction channels. Our results showed that colchicine inhibits the migration of most melanoma cells, while for a small cell population, it paradoxically increases their migration and invasiveness. These changes are also accompanied by the formation of stress fibers compensating for the loss of microtubules. Simultaneous administration of selected agents led to the inhibition of this compensatory effect. Collectively, our results highlighted that colchicine led to actomyosin activation and increased cancer cell invasiveness. We emphasized a cellular pathway of Rho-ROCK-dependent actomyosin contraction to be responsible for the increased invasive potential of melanoma cells in tubulin-targeted therapy. HighlightsO_LIColchicine strongly increased (trans)migration in the subpopulation of melanoma cells. C_LIO_LIColchicine disrupted tubulin but compensated for the activation of the actomyosin network. C_LIO_LIRho-ROCK-targeted or myosin-targeted therapies vanished the side-effect of colchicine. C_LIO_LIIncreased actin polymerisation correlated with the transit time in the constriction channel. C_LIO_LIElastic modulus variations reflected observed alterations in the actomyosin network. C_LI

biophysics↗

bioRxiv2024

Migration, proliferation, and elasticity of bladder cancer cells on lectin-coated surfaces

The alterations in migration, proliferation, and mechanics of cells observed during cancer progression can potentially be linked to enhanced tumor invasiveness. These properties are frequently attributed to the ability to form distant metastasis; however, the direct mutual connection between these properties is not always proven. Here, we studied the migratory, proliferative, and mechanical phenotype of three bladder cancer cells originating from various stages of cancer progression, i.e., non-malignant cell cancer of ureter (HCV29 cells), bladder carcinoma (HT1376 cells) and transitional bladder carcinoma (T24 cells). The results were linked with the organization of actin filaments because of their major role in cell migration. The results classified cells into non-malignant, non-invasive, and invasive, revealing the significant impact of actin filaments in bladder cancer invasion. Based on the reported changes in cancer cell glycosylation, the potential applicability of the observed cancer-related changes to identify invasive cells was demonstrated for the lectin-coated surfaces, which is the potential surface modification for biosensors.

biophysics↗