71 results match your criteria: "Institute of Biological and Chemical Systems-Biological Information Processing[Affiliation]"

Engineering Vascularized Transplantable Soft Tissue Free Flaps in Sheep Using the Arteriovenous Loop Technique.

Tissue Eng Part A

September 2025

Department of Hand, Plastic and Reconstructive Surgery, Microsurgery, Burn Center, BG Center Ludwigshafen, Ludwigshafen, Germany.

The aim of this study was to grow axially vascularized soft tissue flaps in sheep using the arteriovenous loop (AVL) technique to be transplanted for defect reconstruction. This technique may be a promising alternative to conventional free flaps to further reduce flap donor site morbidity. In this pilot study, AVLs ( = 12) were created in the groins of six sheep, placed into an isolation chamber, and embedded in Matriderm®.

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Modelling the melting of DNA oligomers with non-inert dangling ends.

Front Mol Biosci

August 2025

Institute of Biological and Chemical Systems - Biological Information Processing, Karlsruhe Institute of Technology, Karlsruhe, Germany.

In this work, we investigate the dependence of the melting temperature of low-valency DNA constructs on the length of non-inert dangling ends, controlling their sequence composition. We compare two computational models to evaluate their effectiveness and limitations in predicting the melting behavior of DNA oligomers (bivalent linkers) and more complex structures (trivalent nanostars), benchmarking the results against experimental spectroscopic data. Our results suggest that the length of non-inert dangling ends has minimal impact on the melting point of the DNA duplex for the duplexes we studied, informing the future design of DNA supramolecular constructs.

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Optical Micromanipulations Based on Model Predictive Control of Thermoviscous Flows.

Small

August 2025

Institute of Biological and Chemical Systems-Biological Information Processing, Karlsruhe Institute of Technology (KIT), 76344, Eggenstein-Leopoldshafen, Germany.

High-precision micromanipulation techniques, including optical tweezers and hydrodynamic trapping, have garnered wide-spread interest. Recent advances in optofluidic multiplexed assembly and microrobotics demonstrate significant progress, particularly by iteratively applying laser-induced, localized flow fields to manipulate microparticles in viscous solutions. However, these approaches still face challenges such as undesired hydrodynamic coupling and instabilities when multiple particles are brought into close proximity.

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Conservation of dark CPD photolyase function in blind cavefish.

Nat Commun

August 2025

Institute of Biological and Chemical Systems - Biological Information Processing, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany.

DNA damage is generated by various environmental stressors and so DNA repair systems must inevitably adapt to changing environments. Photolyases represent a highly conserved class of enzymes which repair UV-induced covalent crosslinks between adjacent pyrimidine bases (CPD and 6-4 photoproducts) via photoreactivation. In the blind cavefish Phreatichthys andruzzii which has evolved for millions of years completely isolated from UV radiation and visible light, we have documented multiple polymorphisms and loss of function mutations affecting both the 6-4phr and DASHphr photolyase genes while strangely, the CPDphr gene remains highly conserved.

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Mechanically Tunable DNA Hydrogels as Prospective Biosensing Modules.

Macromol Rapid Commun

May 2025

Institute of Biological and Chemical Systems - Biological Information Processing, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany.

Sequence-programmable DNA building blocks offer high degree of freedom in designing arbitrarily complex networks of tunable viscoelastic properties. Yet, the deployment of DNA-based functional materials remains limited due to insufficient control over the emerging structures and their mechanics. In an ongoing effort to place structure-property relations in stimuli-responsive DNA materials on a firm foundation, here a systematic rheological study of self-assembling DNA networks is presented, comprised of short DNA nanomotifs, namely trivalent nanostars and bivalent linkers, where the latter differ in their composition on a single base-pair level.

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Zebrafish as a model organism in One Health Toxicology: Impact of solvents and exposure routes on the toxicity of platinum anticancer drugs.

Environ Int

March 2025

Institute of Biological and Chemical Systems - Biological Information Processing, Karlsruhe Institute of Technology, 76344 Eggenstein-Leopoldshafen, Germany. Electronic address:

Zebrafish are widely used not only as a model in ecotoxicology but also to study the potential impact of chemicals on human health. Typically, zebrafish are exposed to chemicals dissolved in egg water or other defined media, which is the standard routine for ecotoxicology testing. This straightforward exposure method is usually also employed to monitor adverse effects in zebrafish to predict potential hazards and modes of action in humans.

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Syndromes associating both eyeball and periocular developmental anomalies, combining iris chorioretinal (ocular) coloboma and ptosis, are described in very rare clinical entities such as Baraitser-Winter cerebrofrontofacial syndrome (BWCFF). We report on six individuals from 3 unrelated families presenting with autosomal dominant eye malformations, including ocular coloboma, ptosis and craniofacial features suggesting BWCFF. However, no neurodevelopmental disorders (NDD) as usually observed in this syndrome were detected.

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Hyaluronan (HA) levels are dynamically regulated homeostatically through biosynthesis and degradation. HA homeostasis is often perturbed under disease conditions. HA degradation products are thought to contribute to disease pathology.

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While in situ experiments are gaining importance for the (mechanical) assessment of metamaterials or materials with complex microstructures, imaging conditions in such experiments are often challenging. The lab-based computed tomography system Xradia 810 Ultra allows for the in situ (time-lapsed) mechanical testing of samples. However, the in situ loading setup of this system limits the image acquisition angle to 140°.

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Article Synopsis
  • The low-density lipoprotein receptor (LDLr) is crucial for lipid metabolism regulation, particularly in mammalian and zebrafish brains.
  • Researchers investigated the expression of ldlr genes in zebrafish, finding ldlra expressed later in development and ldlrb present from the early stages.
  • The study revealed that these genes, along with pcsk9, are prevalent in adult zebrafish brains, influencing how LDL particles are handled during brain injuries and raising questions about cholesterol balance in brain health.
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Background/objectives: Brazilian red propolis has attracted attention for its pharmacological properties. However, signs of toxicity were recently observed in long-term studies using the hydroalcoholic extract of red propolis (RPHE), likely due to polyprenylated benzophenones. This study aimed to develop a benzophenone-free red propolis extract (BFRP) and validate an HPLC-PDA method to quantify its main constituents: isoliquiritigenin, vestitol, neovestitol, medicarpine, and 7--methylvestitol.

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Inherited retinal diseases (IRDs) are a rare group of eye disorders characterized by progressive dysfunction and degeneration of retinal cells. In this study, we characterized the raifteirí (raf) zebrafish, a novel model of inherited blindness, identified through an unbiased ENU mutagenesis screen. A mutation in the largest subunit of the endoplasmic reticulum membrane protein complex, emc1 was subsequently identified as the causative raf mutation.

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The complex interplay between vascular signaling and neurogenesis in the adult brain remains a subject of intense research. By exploiting the unique advantages of the zebrafish model, in particular the persistent activity of neural stem cells (NSCs) and the remarkable ability to repair brain lesions, we investigated the links between NSCs and cerebral blood vessels. In this study, we first examined the gene expression profiles of vascular endothelial growth factors aa and bb (vegfaa and vegfbb), under physiological and regenerative conditions.

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Regeneration, the complex process of restoring damaged or absent cells, tissues, and organs, varies considerably between species. The zebrafish is a remarkable model organism for its impressive regenerative abilities, particularly in organs such as the heart, fin, retina, spinal cord, and brain. Unlike mammals, zebrafish can regenerate with limited or absent scarring, a phenomenon closely linked to the activation of stem cells and immune cells.

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Citrus fruits are a diverse and economically important group of fruit crops known for their distinctive flavors and high nutritional value. Their cultivation and consumption contribute significantly to the global agricultural economy and offer a wide range of health benefits. Among the genetic diversity of citrus species, Citrus x limon (L.

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This study explores the potential of controlling organismal development with light by using reversible photomodulation of activity in bioactive compounds. Specifically, our research focuses on plinabulin 1, an inhibitor of tubulin dynamics that contains a photochromic motif called hemipiperazine. The two isomeric forms, Z-1 and E-1, can partially interconvert with light, yet show remarkable thermal stability in darkness.

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Techniques for high-definition micromanipulations, such as optical tweezers, hold substantial interest across a wide range of disciplines. However, their applicability remains constrained by material properties and laser exposure. And while microfluidic manipulations have been suggested as an alternative, their inherent capabilities are limited and further hindered by practical challenges of implementation and control.

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We developed a simple screening system for the evaluation of neuromuscular and general toxicity in zebrafish embryos. The modular system consists of electrodynamic transducers above which tissue culture dishes with embryos can be placed. Multiple such loudspeaker-tissue culture dish pairs can be combined.

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Role of melanocortin system in the locomotor activity rhythms and melatonin secretion as revealed by agouti-signalling protein (asip1) overexpression in zebrafish.

J Pineal Res

January 2024

Department of Fish Physiology and Biotechnology, Instituto de Acuicultura de Torre de la Sal, IATS-CSIC, Fish Neurobehaviour Lab, Castellon, Spain.

Temporal signals such as light and temperature cycles profoundly modulate animal physiology and behaviour. Via endogenous timing mechanisms which are regulated by these signals, organisms can anticipate cyclic environmental changes and thereby enhance their fitness. The pineal gland in fish, through the secretion of melatonin, appears to play a critical role in the circadian system, most likely acting as an element of the circadian clock system.

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The nucleus is highly organized to facilitate coordinated gene transcription. Measuring the rheological properties of the nucleus and its sub-compartments will be crucial to understand the principles underlying nuclear organization. Here, we show that strongly localized temperature gradients (approaching 1°C/µm) can lead to substantial intra-nuclear chromatin displacements (>1 µm), while nuclear area and lamina shape remain unaffected.

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In diabetic nephropathy (DN), glomerular endothelial cells (GECs) and podocytes undergo pathological alterations, which are influenced by metabolic changes characteristic of diabetes, including hyperglycaemia (HG) and elevated methylglyoxal (MGO) levels. However, it remains insufficiently understood what effects these metabolic factors have on GEC and podocytes and to what extent the interactions between the two cell types can modulate these effects. To address these questions, we established a co-culture system in which GECs and podocytes were grown together in close proximity, and assessed transcriptional changes in each cell type after exposure to HG and MGO.

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The blood-brain barrier (BBB) is a physical interface between the blood and the brain parenchyma, playing key roles in brain homeostasis. In mammals, the BBB is established thanks to tight junctions between cerebral endothelial cells, involving claudin, occludin, and zonula occludens proteins. Estrogens have been documented to modulate BBB permeability.

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Insulin signaling promotes neurogenesis in the brain of adult zebrafish.

J Comp Neurol

December 2023

Université de La Réunion, INSERM, UMR 1188, Diabète athérothrombose Thérapies Réunion Océan Indien (DéTROI), Saint-Denis, La Réunion, France.

Insulin is a peptide hormone that plays a central role in the regulation of circulating blood glucose in vertebrates, including zebrafish. Increasing evidence has demonstrated the important role of insulin in many brain functions. In zebrafish, two insulin receptor genes (insra and insrb) have been identified.

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Communication is crucial for organismic interactions, from bacteria, to fungi, to humans. Humans may use the visual sense to monitor the environment before starting acoustic interactions. In comparison, fungi, lacking a visual system, rely on a cell-to-cell dialogue based on secreted signaling molecules to coordinate cell fusion and establish hyphal networks.

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Photobiology: Fish eggs go sunny side up.

Curr Biol

August 2023

Institute of Biological and Chemical Systems - Biological Information Processing (IBCS-BIP), Karlsruhe Institute of Technology (KIT) Campus North, Hermann-von-Helmholtz Platz 1, 76344 Eggenstein-Leopoldshafen, Germany; Centre for Organismal Studies (COS) Heidelberg, Ruprecht-Karls-Universität Heide

The UV radiation in sunlight can damage organisms. A new study reveals that female zebrafish deposit a chemical sunscreen into their eggs to protect their developing embryos, a feat that has been lost in fish species whose embryos never experience sunlight.

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