Biology subjects

Arkill, K. P.

Publications and source records attributed to Arkill, K. P..

3 recordsLinked to original sources

bioRxiv2026

The development of ToF-SIMS for in-situ glycosaminoglycan analysis

Glycosaminoglycans (GAGs) are linear polysaccharides with essential roles in a myriad of biological processes. Despite their biological importance, methods to determine both spatial and compositional information is limited. Time-of-flight secondary ion mass spectrometry (ToF-SIMS) provides spatially resolved compositional information of biological molecules without enzymatic digestion or label incorporation, enabling unbiased analysis independent of enzyme or label selectivity, overcoming many current limitations in GAG analysis. Here, we present the identification and validation of GAG discriminatory ions from biological samples by comparison of spectra from purified GAGs and cells with genetically modified GAG biosynthetic pathways. Ions discriminatory of specific GAG sub-families are identified and related to GAG structural components. The analysis is applied to human induced pluripotent stem cells engineered to lack heparan sulphate (HS), where compensatory changes in GAG display that link to function were observed. Furthermore, the broad applicability and spatial resolution of the technique is highlighted through detection of a disease-induced reduction in HS within the individual glomeruli of diabetic mice.

biochemistry↗

bioRxiv2023

Vault particles are common contaminants of extracellular vesicle preparations

Extracellular vesicles (EVs) may contain a variety of molecular cargo including proteins and nucleic acids. Vault particle components have been repeatedly reported in the literature as EV cargo. Here, we demonstrated by small RNA sequencing that vault RNA (vtRNA) were highly abundant in EV pellets enriched by differential centrifugation. EVs were prepared by commonly used enrichment methods and biochemical assays used to determine whether vault particle components were bona fide EV cargo. EVs were isolated by differential centrifugation, size exclusion chromatography (SEC) and Dynabead immunocapture. RNase and proteinase treatment of EV preparations demonstrated that most vtRNA and major vault protein (MVP) were not enclosed and protected within the EV membrane. Vault-like particles were visualised in differential centrifugation pellets by cryo-transmission electron microscopy. EVs enriched by size exclusion chromatography and those isolated by immunocapture post-ultracentrifugation showed co-purification of MVP, whereas EVs isolated by direct immunocapture from conditioned medium were MVP-negative. Taken together, commonly used isolation techniques, such as differential centrifugation and SEC, can lead to contamination of EVs with vault particles. The current study highlights the importance of determining the topology of putative EV-associated components to determine if they are EV cargo or contaminants that have been co-purified.

cell biology↗

bioRxiv2021

Quantifying spinal cord vascular permeability in the mouse using intravital imaging

Sensory perception and motor dexterity is coordinated by in part distinct anatomical centres in the spinal cord. Importantly the spinal cord is the first modulatory relay hub for coordinating sensory and motor inputs to allow control of an organisms response to a sensory experience and to orientate proprioceptive outputs. This is whilst communicating with higher centres within the brain to undertake greater complex neurophysiological function such as pain perception. This begins to outline the complexity of the nervous system communication. To allow this integral system to function efficiently neuronal homeostasis needs to be maintained with energy expenditure matched by proficient delivery of nutrients. This factor introduces the vascular system that extensively interacts in a multifaceted manner with differing aspects of the nervous system. Part of this multi-factoral interaction is through the heterogenic cellular makeup of the vascular network that delivers and modulates the molecular transport of such nutrients to spinal cord tissues, but also controlling penetration and migration of harmful pathogens and agents. Therefore the spinal cord is susceptible to any alterations in the microvessel integrity (e.g. vascular leakage) and/or function (e.g. cessated blood flow) of this vascular network, which principally occurs in times of pathology. Typically investigations into microvessel function have utilised histological and/or tracer based in-vivo assays. Methodologies such as evans blue extravasation have been used inconjunction with in-vitro cell biology assays such as transwell assays to determine microvessel integrity or function that only provides snapshots of developing vasculopathy. Adopting in-vivo imaging approaches, allow for real time functional measurements of the ongoing physiological function within the spinal cord, providing direct measurement of the vascular processes in play, including vascular architecture, blood flow and/or permeability. This technique in mouse allow for direct visualisation of cellular and/or mechanistic influence upon vascular function through utilising disease, transgenic and/or viral approaches. This combination of attributes allows for in depth real time understanding of the function of the vascular network within the spinal cord.

neuroscience↗