3 research outputs found

    Investigating the role of Sarco-Endoplasmic Reticulum Ca2+-ATPase(SERCA)in airway development

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    Background: Disorders of lung development cause death and disability in the young and old: novel insights into developmental regulators can aid therapeutic strategies. The Ca2+ATPase SERCA, already implicated in asthma and cystic fibrosis, appears to play a key role in lung development. SERCA inhibition with cyclopiazonic acid (CPA) in vitro, reduces both airway branching and peristalsis reversibly and dose dependently, whilst also halting myogenesis. It is unclear however, whether changes in branching are mediated via SERCA dependent contractility, or whether SERCA is a direct regulator of airway branching. Aims: (i) to further explore the CPA-induced embryonic lung phenotype by assaying gene expression and cell proliferation; and (ii) to determine effects of genetic perturbation of SERCA function in vivo on airway branching morphogenesis, in the absence of contractility (using a Drosophila model). Methods: Embryonic mouse (E11.5) lung explants were cultured +/- CPA at an air/fluid interface. Standard techniques were used to rear Drosophila and SERCA expression manipulated using conditional, heat-sensitive mutants and RNAi targeted to the trachea. Positively labelled, loss-of-function ‘flip-out’ RNAi and mutant clones were produced using heat-shock induced FLP-recombinase. Gene expression was assayed using real-time RT-PCR and SERCA function assessed using calcium dyes and genetic indicators. Embryonic and larval fly airways were imaged using fluorescent proteins and immunostaining, with live or fixed-sample confocal microscopy. Immunofluorescent staining was used to assess protein expression and cell proliferation. Results: SERCA inhibition with CPA significantly up or down regulated mRNA levels of key genes involved in lung branching morphogenesis, myogenesis and angiogenesis in vitro. CPA treatment also reduced cell proliferation dose-dependently in the lung epithelium and mesenchyme. In the fly embryo, neither conditional SERCA mutants nor targeted RNAi significantly affected tracheal morphology. However, residual SERCA mRNA and protein function was evident at this stage of development. Tracheal maturation, in the form of gas filling was significantly impaired though, in embryos expressing a conditional SERCA mutation. In larvae, development of the dorsal air sac primordium (ASP) was severely disrupted by targeted SERCA RNAi and this phenotype could be reproduced when sufficient numbers of loss-of–function clones were present. SERCA inhibition reduced the number of mitotic cells in the ASP and correspondingly, SERCA deficient clones comprised fewer cells than control counterparts: SERCA regulation of airway cell proliferation was therefore evident across species. Fewer SERCA deficient cells reached the tip of the ASP during morphogenesis compared to controls, whereas a greater proportion remained in the stalk, findings that indicate a cell-autonomous defect in cell migration. Changes in morphology were independent of changes in expression of the key ASP signalling pathways MAP kinase and Notch. Expression of the ASP tip-cell marker escargot was expanded in SERCA deficient larvae, with a number of positive cells being abnormally present in the stalk. This finding could be explained by a failure of these cells to migrate to the tip, alternatively by changes in cell fate. Given key roles of tip cells in morphogenetic signalling, escargot may play a role in SERCA inhibition-induced dysmorphogenesis. Conclusions: SERCA has an essential, conserved role in airway branching morphogenesis across species: this role appears independent of contractility. SERCA regulates cell migration and proliferation processes in the airway, findings that may have wider relevance, e.g. in proliferative disease, metastasis and tissue regeneration. Given evidence in plants and fungi of Ca2+ cycling regulating budding, findings here may indicate a role for SERCA as a generic regulator of iterative branching across biology, with clear implications for further research

    Visual Processing and Latent Representations in Biological and Artificial Neural Networks

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    The human visual system performs the impressive task of converting light arriving at the retina into a useful representation that allows us to make sense of the visual environment. We can navigate easily in the three-dimensional world and recognize objects and their properties, even if they appear from different angles and under different lighting conditions. Artificial systems can also perform well on a variety of complex visual tasks. While they may not be as robust and versatile as their biological counterpart, they have surprising capabilities that are rapidly improving. Studying the two types of systems can help us understand what computations enable the transformation of low-level sensory data into an abstract representation. To this end, this dissertation follows three different pathways. First, we analyze aspects of human perception. The focus is on the perception in the peripheral visual field and the relation to texture perception. Our work builds on a texture model that is based on the features of a deep neural network. We start by expanding the model to the temporal domain to capture dynamic textures such as flames or water. Next, we use psychophysical methods to investigate quantitatively whether humans can distinguish natural textures from samples that were generated by a texture model. Finally, we study images that cover the entire visual field and test whether matching the local summary statistics can produce metameric images independent of the image content. Second, we compare the visual perception of humans and machines. We conduct three case studies that focus on the capabilities of artificial neural networks and the potential occurrence of biological phenomena in machine vision. We find that comparative studies are not always straightforward and propose a checklist on how to improve the robustness of the conclusions that we draw from such studies. Third, we address a fundamental discrepancy between human and machine vision. One major strength of biological vision is its robustness to changes in the appearance of image content. For example, for unusual scenarios, such as a cow on a beach, the recognition performance of humans remains high. This ability is lacking in many artificial systems. We discuss on a conceptual level how to robustly disentangle attributes that are correlated during training, and test this on a number of datasets
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