The present thesis looks at the behaviour of internalised cell surface-derived membrane marker in comparison with the behaviour of endocytosed HRP (horse-radish peroxidase) as a fluid-phase contents marker. The pooling and/or segregation in the endosome was measured by determining co-localization with HRP. Colocalization of the two markers in the endosome is studied by using the ability of HRP to catalyse the crosslinking of membrane marker in endosomes with DAB (3,3'-diaminobenzidine), rendering the membrane marker detergent insoluble. To study the kinetic behaviour of membrane marker, radioactive galactose was covalently bound to cell-surface glycoconjugates on mouse macrophage-cells, P388D₁, as catalysed by galactosyltransferase. This provided a general membrane marker. After endocytosis-derived redistribution of membrane marker between the cell surface and endosomal membrane, a steady state was established with about 16% of the label on internal membranes. The bulk of the label on the cell surface was removable by subsequent treatment with β-galactosidase.

La maladie d’Alzheimer (MA) se caractérise par une perte mnésique progressive. La quantité de cholestérol est plus élevée dans les cerveaux de patients atteints de la MA. De plus, l’existence d’un site de liaison entre le cholestérol (SLC) et l’Amyloid Precursor Protein (APP) a été démontrée par résonance magnétique nucléaire. Les mutations effectuées dans le SLC de l’APP abolissent totalement l’interaction entre les peptides et des liposomes chargés en cholestérol. Tous les mutants du SLC produisent beaucoup moins d’Aβ40 et Aβ42 sans modifier les produits de clivage de l’APP. Nous avons mis en évidence deux catégories de mutations : les mutations juxtamembranaires qui augmentent la sécrétion de fragments courts d’Aβ et les mutations transmembranaires, incluant la mutation familiale italienne, qui diminuent la sécrétion de peptides courts d’Aβ. Ces résultats suggèrent un décalage du clivage des mutants par la γ-sécrétase et/ou une modification de sa processivité conduisant à la formation de peptides de courtes tailles. Parallèlement, nous avons montré que des cultures primaires de neurones exprimant l’ApoE4 sécrètent en plus grande quantité les peptides amyloïdes Aβ38, 40 et 42 comparé à des neurones exprimant l’ApoE3. Les neurones ApoE4 expriment plus fortement les protéines tau et phospho-tau, mais plus faiblement l’ApoE « full lenght » par rapport aux neurones ApoE3. Le SLC et le génotype ApoE4 contribuent donc à l’augmentation de la sécrétion de peptides amyloïdes. Il serait intéressant de connaître les mécanismes cellulaires impliquant le SLC de l’APP, le cholestérol et son transporteur l’ApoE. / Alzheimer’s disease (AD) is characterized by progressive loss of memory. The amount of cholesterol is higher in the brains of patients with AD. In addition, the existence of a cholesterol binding site (CBS) on APP sequence was demonstrated by nuclear magnetic resonance. Mutations in the CBS of APP completely abolish the interaction between peptides and liposomes loaded with cholesterol. All CBS mutants produce much less Aβ40 and Aβ42 when expressed in HEK293T cells without altering the other APP cleavage products. We identified two mutations: juxtamembrane mutations that increase the secretion of short fragments of Aβ and transmembrane mutations, including the Italian family mutation, which decrease the secretion of short Aβ peptides. These results suggest a shift in the cleavage of mutants by γ-secretase and / or a modification of its processivity leading to the formation of short peptides. Thus, the CBS is a key actor in the secretion of amyloid peptides. At the same time, we have shown that primary cultures of ApoE4-expressing neurons secrete amyloid peptides Aβ38, 40 and 42 in greater quantities compared to neurons expressing ApoE3. ApoE4 neurons express more strongly the tau and phospho-tau proteins, but more weakly the ApoE "full lenght" protein compared to the ApoE3 neurons. The CBS and the ApoE4 genotype therefore contribute to the increase of the amyloid peptides secretion. It would be interesting to know the cellular mechanisms involving the CBS of APP, cholesterol and its carrier ApoE.

STARD3 est une protéine endosomale de la famille START (Steroidogenic Acute Regulatory (StAR) Related lipid Transfer), qui lie le cholestérol. STARD3 module l’organisation de la cellule en formant des sites de contact membranaire entre les endosomes et le réticulum endoplasmique (RE). Le lien entre les sites de contact membranaire et le transport du cholestérol n’était pas compris. Dans ce travail, nous montrons que STARD3 en interagissant avec les protéines VAPs (VAMP–Associated Proteins) bâtit une machine moléculaire autonome qui transporte le cholestérol au niveau des contacts RE–endosomes. Ce transport permet la formation de membranes internes dans les endosomes et est potentiellement impliqué dans le fonctionnement de ces organites. De plus, nous avons étudié la fonction de STARD3 dans la maladie Niemann Pick type C, qui est caractérisée par une anomalie du transport de cholestérol dans les endosomes. / STARD3 is an endosomal sterol-binding protein which belongs to the START protein family. Remarkably, STARD3 modulates the cellular organization by creating membrane contact sites between the endoplasmic reticulum (ER) and endosomes. The link between ER-endosome contact sites and cholesterol transport was not understood. In this work, we showed that STARD3 and its ER–resident partner, VAMP–associated protein (VAP), assemble into a machine that allows a highly efficient transport of cholesterol within ER–endosome contacts. This cholesterol transport provides building blocks for endosome inner membranes formation, and is probably involved in endosome dynamics. Furthermore, we studied STARD3 function in Niemann Pick type C disease, a condition characterized by an impairment of endosomal cholesterol export.

Recycling embosoms (REs) are transient intermediates of endosomal network, constantly generated from early/sorting endosomes (EEs/SEs). Conventionally, these organelles function in recycling of many growth/nutrient/signalling receptors from SEs to the cell surface and maintain the cellular homeostasis in all cell types. Recent studies have shown that REs slightly diverted their function in specialized cells such as melanocytes for the delivery of melanogenic cargo to a set of lysosome-related organelles (LROs) called melanosomes. However, it is unknown how melanocytes modulate the trafficking routes of REs towards the biogenesis of melanosomes. Any alterations in this process result in occulocutaneous albinism, commonly observed in autosomal recessive disorder, Hermansky-Pudlak Syndrome (HPS). HPS is caused by mutations in nine genes in human and fifteen genes in mouse and the protein products of these genes were grouped in multiple endosomal protein complexes; BLOC (Biogenesis of Lysosome-related Organelles Complex)-1, -2, -3, AP (Adaptor Protein)-3 and HOPS (homotypic fusion and protein sorting). Studies from our laboratory and others have shown that REs deliver the melanin-synthesizing enzymes to melanosome in BLOC-1 and BLOC-2 dependent manner. On the other side, studies in fibroblasts have shown that the adaptor AP-1 and microtubule-dependent motor, KIF13A also regulates the formation of REs. In these studies, it was proposed that AP-1 binds to the cargo tails and interacts with motor KIF13A to generate the RE tubules, where BLOC-1 initiates the biogenesis. Nevertheless, the mechanism behind the biogenesis of REs and how these molecules synergistically control these processes is largely unknown. Additionally, the role of BLOC-2 in REs biogenesis never been implicated. Here we have attempted to study the mechanism of RE biogenesis and their role in pigment granule formation using HeLa and mouse melanocytes as model systems. In general, Rab GTPases (Rabs) regulate the several process of membrane trafficking including cargo sorting, membrane domain organization, tethering and fusion. We hypothesized that the biogenesis of RE is also regulated by one of the endosome localized Rab GTPases. Our RNAi screening against Rabs involved in regulating the RE length/number showed Rab22A as a potential candidate. Thus, we aim to study the role of Rab22A in RE biogenesis and its regulation in melanocyte pigmentation. The current study entitled as “Understanding the role of Rab22A in recycling endosome biogenesis and melanocyte pigmentation” is divided into five chapters. Chapter-I outlines the review of literature on cell biology of intracellular organelles such as endocytic network and melanosomes. Chapter-II details the experimental procedures used in the study. Chapter-III to Chapter-V describes the results and discussion. Chapter-III: Identification of endosomal Rab GTPases required for the dynamics of recycling endosomes Endosomal Rabs are known to regulate various functions such as vesicle biogenesis, transport, tethering and fusion, but their role in generation of tubulo-vesicular carriers of endocytic system, REs is unknown. It has been shown that REs possibly derived from EEs/SEs and characterized by the association/localization of multiple proteins such as transferrin receptor (TfR), SNARE STX13, Rab11 and motor KIF13A. In this study, we have used YFP-KIF13A as a marker to label the REs. YFP-KIF13A in HeLa cells localized to long tubular structures throughout the cell and also to the clusters of peripheral endosomes. To identify the endosomal Rabs that regulate the RE dynamics (both length and number), we have transfected the HeLa cells with shRNA against endosomal Rabs such as Rab4A, Rab5A, Rab5B, Rab5C, Rab7A, Rab9A, Rab11A, Rab14A and Rab22A. Post transfection and shRNA selection, cells were transfected with YFP-KIF13A, analyzed and quantified the RE dynamics using ImageJ. Here, we have measured two parameters for the identification of Rab/s that potentially regulates the REs biogenesis: first, average number of tubules per cell and second, average length of tubules per cell. These studies identified Rab22A as a potential candidate, depletion of this Rab affects both number and average length of KIF13A-positive tubules. As described above, REs deliver several melanocyte specific cargoes to melanosomes in melanocytes. However, the function of Rab22A in controlling these transport steps to melanosome/its biogenesis or pigmentation has not been addressed. Thus, we have studied the mechanism of Rab22A in RE biogenesis and its role in pigmentation in the following sections. Chapter-IV: Characterization of Rab22A function in regulating the recycling endosomes Initially, we tested whether Rab22A localizes to the REs. Our co-expression studies show that Rab22A localizes to KIF13A- or STX13-positive RE compartments in HeLa or melanocytes, respectively. In general, Rab GTPases mediate their function through cycling between GTP (membrane bound) and GDP (cytosol) bound state. These states can be achieved by point mutation of active site residues in the protein. We have generated Rab22A constitutive active mutant (Rab22AQ64L, defective in GTP hydrolysis) and dominant negative mutant (Rab22AS19N, defective in GTP binding) to understand the role of Rab22A in regulating REs. Interestingly, overexpression of Rab22AQ64L mutant in HeLa cells increases the average number of KIF13A-positive REs relative to the wild-type Rab22A (Rab22AWT). As predicted, overexpression of Rab22AS19N mutant reduces the number as well as length of RE tubules relative to the control HeLa cells. Consistent to these studies, Rab22A-knockdown did not affect the endogenous KIF13A protein levels or its recruitment to endosomes, however recycling of TfR (measured through Tf-Alexa 594) was significantly affected in these cells. These studies suggest that Rab22A possibly regulates the formation or function of REs. Likewise, overexpression of Rab22AQ64L and Rab22AS19N mutants in melanocytes resulted in reduction of total melanin content in the cells. To confirm these results, we have performed immunofluorescence microscopy (IFM) analysis, which showed Rab22AQ64L localized to the enlarged vacuolar structures, positive for melanosomal cargo TYRP1 (tyrosinase-related protein 1), whereas Rab22AS19N localized to the cytosol. Further, Rab22A depletion in melanocytes causes the hypopigmentation in the cells concurrently reduces the stability of TYRP1 but not other melanocyte specific proteins, indicating a role for Rab22A in regulating TYRP1 transport to melanosomes. Altogether, our studies suggests that Rab22A regulates the TfR recycling in HeLa cells and TYRP1 transport in melanocytes by controlling the RE dynamics. Chapter-V: Molecular mechanism of recycling endosome biogenesis: a role for Rab22A Rabs perform their function by recruiting specific effector/s to the membrane upon Rab activation. It is unknown, how Rab22A regulates REs through its effectors. We hypothesize that Rab22A may regulate the recruitment and function of BLOC-1 and BLOC-2 complexes during RE formation. To validate these hypothesis, we carried out the knockdown of individual BLOC-1 and -2 subunits (destabilize the entire complex) separately in HeLa and studied the dynamics of RE through YFP-KIF13A expression. As expected, the length and number of KIF13A-postive tubules were significantly reduced in both BLOC-1- and BLOC-2-deficient HeLa cells and was phenocopying the Rab22A knockdown cells. Moreover, subcellular fractionation in HeLa, co-fractionated Rab22A with BLOC-1 (Muted) or BLOC-2 (HPS6) subunits along with KIF13A. Additionally, endogenous subunit levels of BLOC-1 and BLOC-2 were moderately reduced in Rab22A knockdown HeLa cells. Consistent to these results, recycling kinetics of Transferrin (Tf) was altered in Rab22A depleted cells as similar to BLOC-1- or BLOC-2-deficient cells as reported earlier. Likewise, Rab22A knockdown in melanocytes affected STX13-positive tubules and also the stability of endogenous BLOC-1 subunit, Pallidin, suggesting that Rab22A possibly works with BLOC-1 and BLOC-2 independent of cell types. To understand the regulation among these molecules, we overexpressed Rab22A in BLOC-1-deficient cells and analyzed the cells for BLOC-1-deficient rescue phenotypes such as pigmentation and cargo localization. However, Rab22A could not compensate the BLOC-1 function, suggesting that Rab22A possibly functions upstream of BLOC-1. Our subcellular and membrane associated fractionation studies of homogenates depleted with Rab22A, BLOC-1 and BLOC-2 showed that subunit levels of BLOC-1 and BLOC-2 in the membrane pool were significantly reduced upon Rab22A depletion compared to control cells. However, membrane association of Rab22A in BLOC-1 deficient cells was not affected. Further, our biochemical interaction studies showed that Rab22A interacts physically with BLOC-1 and BLOC-2 subunits as well as with KIF13A. Thus, these studies indicate that Rab22A possibly recruits and interacts with BLOC-1 and BLOC-2 for the generation of REs. We have summarized the study by proposing a model wherein Rab22A localizes to the limiting membrane of endosomes that are positive for KIF13A and then recruits and associates with BLOC-1 and BLOC-2 complexes which subsequently pulled by KIF13A for the generation of RE tubules.

Endosomal dysfunction has been mechanistically linked to Alzheimer’s Disease (AD). To date, no in vivo biomarkers for this cellular deficit exist. Yet such biomarkers are required for determining its prevalence in AD and tracking its time course—both in disease progression and potential clinical trials. With this goal in mind, we made use of an assortment of mouse models bearing AD-related endosomal trafficking defects through selective deletion of retomer core proteins. We collected CSF and brain exosomes from these retromer-deficient models and performed a battery of molecular inquiries which included lipidomic and proteomic screens, as well as hypothesis-driven biochemistry. The results of this comprehensive investigation include the first characterization of the murine CSF lipidome and the deepest characterization to date of the murine CSF proteome. Herein, we report that VPS26a haploinsufficiency in the brain imparts no detectable protein changes in the CSF as measured by labeled LC-MS/MS at three months of age. This deficit does, however, cause a reliable reduction of CSF sphingomyelin d18:1/18:1, which is exacerbated by age, extending to other sphingomyelins and other lipid classes including dihydrosphingomyelins and monohexosylceramides. Complete knockout of its paralog VPS26b promotes an enrichment of BACE1-cleaved APP CTFs (Beta-CTFs) in brain-derived exosomes and may alter exosomal biogenic pathways. Similar trends were seen in a neuronal-specific knockout (via Camk2-Cre recombinase) of retromer’s linchpin, VPS35. Most importantly, an unbiased proteomic screen of CSF collected from mice with a selective knock out of VPS35 in forebrain neurons (engineered using the Camk2 system) uncovered a total of 71 hits (52 parametric and 19 nonparametric) from the 1505 proteins detected. Pathway analysis and follow-up studies identified two distinct molecular categories with previously established relevance to AD: BACE1 substrates and MAPT (more commonly referred to as tau). We report that, both in vivo and in vitro, neuronal-selective knockout of VPS35 causes increased secretion of the N-terminal fragments (NTFs) of BACE1 substrates APLP1 and CHL1 as well as total tau, and importantly, that these events occur independent of cell death. Further, we find evidence of convergence of these pathways in both mouse and human CSF. However, as these BACE1 substrates likely accumulate in plaques, we propose CSF total tau as a biomarker of endosomal dysfunction with utility over the entire course of AD progression. We have identified and validated a series of in vivo biomarkers that are reflective of AD-associated endosomal dysfunction. While clearly sensitive to this cellular pathology, future work is required to determine their specificity. Additionally, follow-up studies are required to show that interventions which rescue endosomal dysfunction affect this molecular profile. The identified biomarkers hold great promise for early detection of endosomal dysfunction in AD and for tracking its course, during the disease progression and for clinical trials. Furthermore, the unexpected but validated finding, showing that increased CSF tau is reflective of AD-associated endosomal dysfunction, suggests that endosomal dysfunction is a universal deficit shared among AD patients in its earliest stages of disease.

Thèse (Ph. D.)--Université Laval, 2004. / Titre de l'écran-titre (visionné le 18 octobre 2005). Bibliogr.

Thesis (Ph. D.)--University of Washington, 2001. / Vita. Includes bibliographical references (leaves 98-107).

Clathrin-mediated endocytosis (CME) plays a central role in the regulation of multiple cellular processes such as uptake of nutrients, recycling of housekeeping receptors and transporters, as well as for cell surface removal and downregulation of signaling receptors. Once endocytosed, cargo passes through early endosomes where sorting mechanisms traffic the cargo to the recycling pathway or to degradation in the lysosome. The general objectives of this doctoral research were to identify and characterize new players of the clathrin-mediated trafficking pathway to reveal differences between the abundant components of the trafficking machinery in two tissues, and to examine the mechanisms of endosomal sorting. / We used subcellular proteomics to reveal the differences in components of clathrin-coated vesicles (CCVs) isolated from brain and liver and to identify new molecules participating in clathrin trafficking. We demonstrated that the ratio between the clathrin adaptor proteins AP-1 and AP-2 is different in brain and liver, which indicates differential functions between the two tissues. We also discovered that clathrin-light chains, which have been proposed for many years to be regulatory proteins in the assembly of CCVs, were less abundant relative to clathrin-heavy chain in liver and in non-brain tissues compared to brain. / We identified a new DnaJ domain-containing protein, receptor-mediated endocytosis protein 8 (RME-8) that was detected in liver CCVs specifically. Further characterization revealed that the RME-8 DnaJ domain binds to the chaperone heat-shock cognate 70 (Hsc70) in an ATP-dependent manner. RME-8 is a ubiquitously expressed protein that tightly associates with endosomes, and its depletion causes intracellular trafficking defects. Moreover, we demonstrated that RME-8 depletion also leads to a decrease in levels of epidermal growth factor receptor (EGFR), as a result of an increase in EGFR degradation. RME-8 knock-down causes decreased EGFR levels even in cancer cells lines where EGFR is generally protected from degradation. / Globally this doctoral project revealed new insights on specialized functions for c1athrin-mediated trafficking in different tissues and allowed the identification and characterization of a novel protein implicated in sorting decisions occurring on endosomes.

Plants defence responses are often associated with the development of the so-called hypersensitive response (HR), a form of PCD that confines the pathogen to the infection site. The sharp boundary of the HR suggests the existence of efficient mechanisms that control cell death and survival. The Arabidopsis transcription factor AtMYB30 positively regulates plant defence and HR responses by enhancing the synthesis of sphingolipid-containing Very Long Chain Fatty Acids (VLCFA) after bacterial infection. The activity of AtMYB30 is tightly controlled inside plant cells through protein-protein interactions and post-translational modifications. During my PhD, we identified a protease of the subtilase family (AtSBT5.2) as a AtMYB30-interacting partner. Interestingly, we have shown that the AtSBT5.2 transcript is alternatively spliced, leading to the production of two distinct gene products that encode either a secreted [AtSBT5.2(a)] or an intracellular [AtSBT5.2(b)] protein. The specific interaction between AtMYB30 and AtSBT5.2(b), but not AtSBT5.2(a), leads to AtMYB30 specific retention outside of the nucleus in small intracellular vesicles. atsbt5.2 Arabidopsis mutant plants, in which both AtSBT5.2(a) and AtSBT5.2(b) expression was abolished, displayed enhanced HR and defence responses. The fact that this phenotype is abolished in an atmyb30 mutant background suggests that AtSBT5.2 is a negative regulator of AtMYB30-mediated disease resistance. Importantly, overexpression of the AtSBT5.2(b), but not the AtSBT5.2(a), isoform in the atsbt5.2 mutant background reverts the phenotypes displayed by atsbt5.2 mutant plants, suggesting that AtSBT5.2(b) specifically represses AtMYB30-mediated defence.

Turnover of focal adhesions (FAs) is known to be critical for cell migration and adhesion of proliferative vascular smooth muscle cells (VSMCs). However, it is often assumed that FAs in non-migratory, differentiated vascular smooth muscle cells (dVSMCs) embedded in the wall of healthy blood vessels are static structures. Recent work from our lab has demonstrated agonist-induced actin polymerization and Src-dependent focal adhesion phosphorylation in dVSMCs, suggesting that agonist-induced FA remodeling occurs. However, the mechanisms and extent of FA remodeling are largely unknown in dVSM. Here we show, for the first time, that a distinct subpopulation of dVSM FA proteins, but not the entire FA, remodels in response to the alpha-agonist phenylephrine. VASP and Zyxin displayed the largest redistributions while beta-integrin and FAK showed undetectable redistribution. Vinculin, metavinculin, Src, CAS, and paxillin displayed intermediate degrees of redistribution. Redistributions into membrane fractions were especially prominent, suggesting endosomal mechanisms. Deconvolution microscopy, quantitative colocalization analysis, and proximity ligation assays revealed that phenylephrine increases the association of FA proteins with early endosomal markers Rab5 and EEA1. Endosomal disruption with the small molecule inhibitor primaquine inhibits agonist-induced redistribution of FA proteins, confirming endosomal recycling. FA recycling was also inhibited by cytochalasin D, latrunculin B and colchicine, indicating that the redistribution is actin and microtubule-dependent. Furthermore, inhibition of endosomal recycling causes a significant inhibition of the rate of development of agonist-induced dVSM contractions. Thus, these studies are consistent with the concept that FAs in dVSMCs, embedded in the wall of the aorta, remodel during the action of a vasoconstrictor.