Cell division is a universal cellular process responsible for the proliferation and differentiation of cells. After the chromosomes are faithfully segregated during mitosis, cells undergo cytokinesis, where one cell divides into two. Cytokinesis in many eukaryotes requires a structure known as the contractile ring, which contains actin, myosin and many other proteins assembled just beneath the plasma membrane. In this thesis, I present my studies on the function and organization of this ring. I used the powerful genetically tractable model organism the fission yeast Schizosaccharomyces pombe to study these processes in cytokinesis. First, I showed that one function of the cytokinetic ring is to regulate the assembly of the septum cell wall in a curvature dependent manner, suggesting a mechanosensitive mechanism. Second, I analyzed the substructure organization of the proteins within the ring, showing that ring proteins are arranged in clusters and in different layers. Finally, in a collaborative project, I studied the arrangement of chromosomes within the nucleus, and identified a protein required for linking centromeres to the spindle pole body at the nuclear envelope. In general, my thesis provides new insights into the spatial mechanisms of cytokinesis and chromosome organization.

Inflammatory Breast Cancer (IBC) is a rare, lethal, and understudied form of breast cancer. Although affecting 1-2% of the population, the remission rate is half that of the spectrum of other breast cancers, and most cases present in the advanced stages due to rapid undetectable development. Of the diagnosed cases, systemic chemotherapeutics are relatively ineffective in comparison to non-IBC breast cancer cases, indicating other unique mechanisms driving IBC progression. Historically, the specific sensitivities of a particular tumor type or subtype have been linked to genetic alterations that represent addiction hubs, such as hyperactivation of oncogenes due to mutation. Although some efforts have been made to characterize the molecular fingerprint of inflammatory breast cancers (IBCs), unfortunately, no clinical application has emerged from these studies. Thus, we decided to utilize a different strategy to identify the Achilles' heel of IBC cells. Using shRNA libraries, we performed an unbiased genome-wide loss-of-function screen comparing the gene functions required for survival of IBC and non-IBC cells. Histone deacetylase 6 (HDAC6) emerged as one of the top genes required for IBC cell survival and was further validated. HDAC6 is vital in the cell's unfolded protein response (UPR) to clear misfolded or toxic protein, and IBC cells proved to be preferentially sensitive to this aspect of HDAC6 inhibition, displaying increased protein accumulation, ER stress indicators, and subsequent apoptosis upon failure to clear or refold accumulated proteins. These data indicate HDAC6 is a crucial gene required for IBC cell line survival, in part due to its function in IBC cell UPR. Furthermore, emerging orally bioavailable agents for HDAC6 inhibition make it a promising candidate towards tailored therapeutic implementation in IBC patient trials.

The division of one cell to form two cells, or cytokinesis, is fundamental to the development of all known multi-cellular organisms, as well as the propagation of life between generations. The intracellular mechanisms that mediate the physical deformation of the cell membrane during division have proven to be remarkably robust, with multiple processes functioning together to achieve bisection. Here, I present my doctoral work, which seeks to illuminate the dynamic molecular interplay that coordinates and drives cytokinesis in the Caenorhabditis elegans single-cell zygote. In Chapter 1, I begin with an introduction on cytokinesis and the many proteins known to regulate cell division. Chapter 2 presents a detailed review of three intracellular signaling molecules that mediate the spatial control of cytokinesis, known as Rho family small GTPases. In Chapter 3, I present work in which we inactivated specific cytokinesis protein functions at precise stages of the division process, in order to map out the first “temporal atlas” of essential cytokinetic functions. In Chapter 4, I present evidence that the GTPase CDC-42 and the cortical polarity machinery sequester cytokinesis-inhibiting proteins away from the division plane and protect the fidelity of cytokinesis. Chapter 5 lays out preliminary evidence that another GTPase, RAC-1, is a suppresser of cytokinesis and must be inactivated in the division plane specifically by a spindle-associated regulatory protein. Through this body of work, I have attempted to elucidate the underpinnings of the complex intracellular orchestra that drives cytokinesis. This work provides valuable insight, not only into how this vital process occurs, but also how the disruption of its components could lead to the development of complex diseases like cancer.

Upon entry into G2 and mitosis (G2/M), dynein dissociates from its interphase cargos and forms mitotic-specific interactions that direct dynein to the nuclear envelope, cell-cortex, kinetochores, and spindle poles to ensure equal segregation of genetic material to the two daughter cells. Although the need for precise regulation of dynein’s activity during mitosis is clear, questions remain about the mechanisms that govern the cell-cycle dependent dynein interactions. Frequently dynein cofactors provide platforms for regulating dynein activity either by directing dynein to specific sites of action or by tuning the motor activity of the dynein motor. In particular the dynein cofactor Nde1 may play a key role in defining dynein’s mitotic activity. During interphase, Nde1 is involved in the dynein-dependent processes of Golgi positioning and minus-end directed lysosome transport (Lam et al., 2009; Yi et al., 2011), but as the cell progresses into G2/M, Nde1 adopts mitotic specific interactions at the nuclear envelope and kinetochores. It is unknown how Nde1’s cell-cycle specific localization is regulated and how, if at all, Nde1 is ultimately able to influence dynein’s recruitment and activity at each of these sites. One candidate is cell-cycle specific phosphorylation of Nde1 by a G2/mitotic specific kinase, cyclinB/Cdk1 (Alkurayaet al. 2011). To study the potential function of the phosphorylation by Cdk1, we assayed the localization of GFP Cdk1Nde1 phospho-mimetic and phospho-mutant constructs at the NE and kinetochores. We demonstrate Cdk1 phosphorylation of Nde1 is required for Nde1 localization to both the NE and to the kinetochore, and also the phosphorylation of Nde1 directly activates physical interactions between Nde1 and its nuclear envelope and the kinetochore-binding partner, CENP-F. Furthermore, physiological studies of Nde1 phosphorylation constructs show that over-expression of GFP Nde1 phospho-mutant causes a significant delay in time from NEBD to anaphase onset, specifically demonstrating a late prometaphase/metaphase arrest. Therefore, we conclude Cdk1 phosphorylation of Nde1 not only regulates its localization to the nuclear envelope and kinetochore but also plays an important functional role in Nde1’s mitotic activity in vivo. In addition to understanding how the cell cycle specific activity of Nde1 is regulated, to fully comprehend how dynein functions during mitosis it is necessary to understand how Nde1 is able to modulate dynein’s activity. Nde1 is typically believed to act as a bridge between dynein and specific cellular cargo by physically interacting both with the cargo and dynein/Lis1 to specify the sites of dynein’s activity. Therefore, to understand how Nde1 functions with Lis1 and dynein during mitosis, we created point mutations in the N-terminal coiled-coil domain that specifically disrupted either the Nde1-Lis1 interaction or the Nde1-dynein interaction. We find that disrupting the Nde1-dynein interaction has more severe phenotypic effects compared to disrupting the Nde1-Lis1 interaction: expression of GFP Nde1 del dynein mutant caused a significant delay in anaphase onset while GFP Nde1 del Lis1 only caused a slight increase in cell cycle duration before anaphase onset. Phenotypic analysis suggests that the effects of abolishing the Nde1-dynein interaction on mitotic progression may be due to defects in maintaining kinetochore-microtubule stability during metaphase. Nde1 plays a role in this dynein-dependent mitotic activity through recruitment of a subfraction of dynein to the kinetochore by Nde1’s coiled-coil domain. While the phenotypic effect of removing the Lis1-Nde1 interaction is less severe than removing the dynein-Nde1 interaction, the interaction between Lis1 and Nde1 plays an important role in Nde1’s mitotic behavior as it is affects Nde1’s localization at the kinetochore, specifically by influencing Nde’1 interaction with its kinetochore recruitment partner, CENP-F. The entirety of this work demonstrates that Nde1 acts as a link between cellular cargo and dynein behavior as phospho-regulation of Nde1 throughout the cell cycle allows Nde1’s to interact with unique mitotic cargoes and influence the recruitment and activity of dynein at the kinetochore.

Both an intuitive observation and maybe the most mysterious process of biology, aging describes the progressive deterioration of cellular functions with time. Asymmetric cell divisions stand at the center of ability to reset age in offspring and for stem cells to self-renew. This requires the asymmetric segregation of age-determinants, many of which have been identified in the budding yeast Saccharomyces cerevisiae. We here use budding yeast to explore fundamental aspects underlying the asymmetric inheritance of mitochondria and the concurrent rejuvenation of daughter cells. We show that in addition to the preferential inheritance of high-functioning mitochondria to daughter cells, a distinct population of high-quality organelles must also be retained within the mother cell. We find that both physical retention and qualitative maintenance of a distinct mitochondrial population at the mother cell tip depends on Mitochondrial F-box protein (Mfb1p) and that MFB1-deletion leads to premature aging. Our findings outline a critical balance between the need for daughter cell rejuvenation and the requirement to conserve replicative potential within the mother cell. The particular mechanism by which Mfb1p functions further lead us to uncover a critical role of globally maintained cellular polarity in form of an axial budding pattern in lifespan regulation, the functional significance of which thus far remained essentially unexplored. We also find that the asymmetric localization of Mfb1p depends on potentially novel structures of the actin cytoskeleton and the loss of Mfb1p-polarization with age may accurately predict remaining cellular lifespan.

A number of viruses exhibit microtubule-based bidirectional transport following cell entry. This behavior raises three questions: First, what mediates their transport along microtubules? Second, how do viruses recruit the motor proteins? Finally, how do they go to the right place by bidirectional transport in a variety of cell types with different microtubule organizations? We studied these questions with Adenovirus 5 (Ad5), a virus with well characterized, dynein-mediated minus transport mechanism. One form of plus end directed motor, Kif5C, has been reported to disrupt Ad5 capsids at the Nuclear Pore Complexes(NPC), but the mechanisms and roles of microtubule plus end-directed Ad5 transport prior to this stage are largely unknown. Here we performed a RNAi screen of 38 microtuble plus end-directed kinesins, which implicated Kif5B (kinesin-1 family) in plus-end directed Ad5 transport, along with several other forms of kinesin. Kif5B knockdown caused an accumulation of Ad5 particles near the centrosomes in human pulmonary epithelial A549 cells. This effect was strongly enhanced by blocking Ad5 nuclear pore targeting with Leptomycin B and supports a role for Kif5B in Ad5 transport prior to NPC docking. Kif5B RNAi was rescued by expression of any of the three Kif5 orthologues. We also found that Ad5 directly interacts with kinesin-1 via the capsid subunit Penton Base in a PH-independent manner. Together with our earlier studies, these findings reveal that Ad5 has evolved distinct recruitment mechanisms for cytoplasmic dynein and at least one form of kinesin-1 during early infection. Despite clear evidence for short-range linear microtubule-associated Ad5 transport, we found the overall behavior of most Ad5 particles to be stochastic at a larger time scale, by mean-square-displacement (MSD) analysis. We named this behavior "assisted diffusion''. In consistent with this mechanism, Ad5 was able to maintain a normal nuclear targeting after we displaced centrosomes away from the nucleus by inhibiting CDK1 in late G2 cells. We also directly observed Ad5 switching from microtubule based transport to nuclear targeting from a microtubule near the nucleus. Kif5B RNAi dramatically inhibited this novel microtubule-based random-walk/“assisted-diffusion” mechanism. By super resolution microscopy, we found a more local distribution of NPC attached Ad5 over the entire nuclear surface under conditions of Kif5B knock down. We propose that adenovirus uses independently-recruited kinesin and dynein to fully explore the cytoplasm to search for and dock at the nucleus, a mechanism of potential importance for physiological cargoes as well.

Nuclear positioning occurs in different cellular contexts: from dividing yeast to more specialized cells like neuronal glial progenitor and skeletal muscle cells. Interestingly, abnormal nuclear positioning is associated with diseases such as muscular dystrophy where nuclei occupy a central rather than peripheral location. Moreover, rearward nuclear positioning is typical of migratory cells. Active nuclear movement in most cases involves coupling of cytoskeletal components with the nucleus by a group of transmembrane proteins in the nuclear envelope called the LINC (linker of nucleoskeleton and cytoskeleton) complex. It is composed of the inner nuclear membrane SUN (Sad1p, UNC-84) proteins associated with nuclear lamins and the outer nuclear membrane KASH (Klarsicht, ANC-1, Syne Homology) proteins, which interact with the cytoskeleton. In my thesis, the murine fibroblast cell line NIH3T3 was used as a model system to study nuclear positioning in states of active movement and static homeostatic positioning. Nuclear positioning and centrosome reorientation are hallmarks of cell polarity in migrating fibroblasts. The Gundersen lab has established that the nucleus moves rearward to orient the centrosome in serum starved fibroblast monolayers stimulated by the serum-derived factor lysophosphatidic acid (LPA). LPA stimulates the GTPase Cdc42, which in turn activates the Cdc42 effector MRCK to phosphorylate myosin II and activate actin retrograde flow to move the nucleus to the rear. A second Cdc42 effector, Par6 functions with Par3 and dynein to maintain the centrosome in the cell centroid. The nucleus is moved rearward by the attachment of retrograde dorsal actin cables to the nucleus through transmembrane actin-associated nuclear (TAN) lines. TAN lines are composed linear arrays of the LINC complex proteins nesprin-2G (N2G) and SUN2 and dorsal actin cables. Disrupting TAN lines components blocks nuclear movement and efficient cell migration. Interestingly, TAN lines are analogous to other membrane adhesions, such as focal adhesions, in that they are transmembrane structures linked to the actin cytoskeleton and transmit force. Given the large number of proteins composing structures such as focal adhesions, we predicted there would be additional components in TAN lines necessary for their formation and function. Thus, I set out to identify and study cytoplasmic factors required for TAN line formation and/or function during active nuclear positioning in fibroblast. A collaborator detected N2G as a hit in a yeast two-hybrid screen for FHOD1 interactors. FHOD1 is an actin regulator and belongs to the formin family. Like other formin family members, it has an FH2 actin binding domain, an FH1 domain and DID and DAD domains that interact to autoinhibit FHOD1. Unlike other formins, FHOD1 is not activated by GTPase binding and contains a second actin binding domain (ABS domain), giving it actin bundling activity. We show that spectrin repeats (SRs) 10-13 of N2G and the N-terminus of FHOD1 interacts with each other directly by biochemical assays with purified proteins. SiRNA against FHOD1 and overexpression of either FHOD1 or N2G interacting domains prevented LPA-stimulated nuclear movement in wounded monolayers of NIH3T3 fibroblasts, suggesting that the interaction between FHOD1 and N2G is required for nuclear movement and centrosome reorientation. FHOD1 was required for TAN line formation, but was dispensable for the formation of dorsal actin cables and retrograde actin flow. By re-expressing an artificial construct containing the N2G-binding domain of FHOD1 and the actin-binding domain of α–actinin in FHOD1 depleted cells, we show that the FHOD1 ABS domain provides N2G with an additional contact to actin filaments required for nuclear movement. This study thus identifies FHOD1 as a new TAN line component and suggests that the interaction of FHOD1 with N2G may reinforce TAN lines so that they can resist the force necessary to move the nucleus. The above study identifies a new component in a pathway that actively moves the nucleus. We have far less knowledge about the mechanism that maintains the nucleus in position when it is not moving. For example, it is unknown whether the static nuclear positioning is an active process or simply an inactivation of mechanisms that actively move nuclei. To answer this question, I developed a novel method to artificially displace the nucleus in adherent cells by centrifugation and used this system to identify active mechanisms of homeostatic nuclear positioning. By subjecting wounded monolayers of starved NIH3T3 fibroblast on coverslips to centrifugal force perpendicular to the wound, I find that nuclei are displaced towards the direction of centrifugal force, so that on one wound edge, the nuclei are in the cell rear while on the other, in the cell front. After returning centrifuged cells to the incubator, I used fixed and live cell recordings to show that the displaced nuclei actively re-center within one hour, although nuclei moving rearward did so faster than those moving forward. Treating centrifuged cells with cytoskeletal drugs, revealed an actin/myosin II-dependent rearward recentration and a microtubule (MT)/dynein-dependent forward recentration. I knocked down LINC complex components to test their involvement in these movements. N2G was required for both rearward and forward movement while SUN1 and SUN2 were required for forward and rearward movement, respectively. Overexpression of different N2G constructs in N2G-depleted cells showed that different regions of N2G were necessary for each direction of movement: N-terminal constructs rescued rearward nuclear recentration whereas C-terminal constructs rescued forward recentration. Based on the minimal N2G construct that rescued forward (MT dependent) nuclear recentration, I identified a dynein and dynactin site in the C terminus of N2G. To test whether the homeostatic nuclear positioning mechanisms were active in uncentrifuged cells, I depleted cells of nesprin-2 and then re-expressed nesprin-2 constructs capable of interacting with actin, MTs or both cytoskeletal elements. Nuclei in nesprin-2-depleted cells were no longer maintained at the cell centroid and only re-expression of a construct that contained sites for interaction with both actin and MTs rescued this defect. Thus, both actin- and MT- interaction domains of N2G are required for homeostatic nuclear positioning. To test whether the actin and MT activities of N2G were important for cell migration, I depleted NIH3T3 fibroblasts of nesprin-2 and re-expressed N2G constructs capable of interaction with actin, MTs or both and tested these cells in single and collective cell migration assays. I found that only the MT-dependent activity of N2G is required for the directionality of single cell migration while both N- and C- terminal (actin- and MT- dependent) N2G are required for the velocity of collective cell migration. These results show that different cytoskeletal linkages are used in different modes of cell migration. My thesis studies identify the first cytoplasmic factor required for TAN lines structure, establish a novel method to artificially displace the nucleus in adherent cells, and reveal different mechanisms of LINC complex coupling cytoskeletons during active and homeostatic nuclear positioning, as well as specific cytoskeleton-dependent contributions of nuclear envelope protein N2G during cell migration.

The retina is one of the most metabolically active tissue in the body, rendering it sensitive to vascular dysfunction. Consequently, diseases that disrupt normal retinal blood supply, including retinal vein occlusions (RVO) and diabetic retinopathy, are the leading causes of blindness in working-age adults. Despite available therapies, an estimated 50% of patients do not respond to treatment. We employed a mouse model of retinal vein occlusion (RVO), achieved by tail-vein injection of rose bengal, followed by laser photocoagulation of retinal veins. In vivo analyses – optical coherence tomography (OCT), fluorescein angiography, and electroretinograms (ERGs) - were conducted with the Micron IV system (Phoenix Research Labs). RVO induces acute retinal edema, which peaks during the first 24 hours following injury. Over a 7 day time course the edema resolves, revealing a permanent retinal thinning due to death of retinal neurons. We identified caspase-9, a protease traditionally associated with apoptosis, as an essential mediator of edema. Increased levels of activated caspase-9 were detected in vascular endothelial cells 1 hour following RVO. We tested RVO in mice with inducible endothelial-cell-specific deletion of caspase-9 (iC9 ECKO). Compared to littermate controls, iC9 ECKO mice develop less edema, and sustain less retinal degeneration after RVO injury. ERG analysis showed preservation of retinal function in iC9 ECKO mice. To study whether inhibiting caspase-9 would provide protection against RVO we utilized a highly specific caspase-9 inhibitor, which we can deliver to the retina using simple eyedrops. Treatment of wildtype mice with the caspase-9 inhibitor immediately after induction of RVO provided morphologic, biochemical and functional retinal protection. Inhibition of caspase-9 reduces edema, protects retinal morphology, and helps prevent vision loss following RVO injury. Our studies indicate that endothelial caspase-9 plays an essential role in regulating edema pathogenesis. Moreover, our novel cell permeant caspase-9 inhibitor abrogates the edema and may be a potential therapy for individuals suffering from vascular eye disease.

Cellular membranes were once considered static and passive structures, but are now appreciated as a fluidic and dynamic assembly of macromolecules that play an active role in cellular function. Membrane composition has been proposed to play a critical role in modulating protein function by affecting everything from post-translational modifications to conformation, but the physiologic relevance of the relationship between protein and membrane has been difficult to establish. For example, membrane-associated proteins such as Flotillin-1 (Flot1) have been implicated to scaffold proteins into cholesterol-rich membranes, as well as play a role in a wide array of functions such as endocytosis and axon pathfinding; however, genetic elimination of Flot1 expression had little to no reported consequence, leaving to question the physiologic importance of scaffolding proteins to membrane microdomains. Using genetic and biochemical approaches, I sought to understand how the immediate lipid environment can influence the function of a transmembrane protein, and how this might impact brain function. Specifically, I examined how a cholesterol-rich environment can affect the function of the cell surface neurotransmitter transporter for dopamine, the dopamine transporter (DAT), and how this interaction may influence the ability of an organism to respond to the psychostimulant amphetamine (AMPH). Although neurotransmitter transporters (NTTs) such as DAT and the serotonin transporter (SERT), have been predicted to reside in membrane rafts, it has been difficult to establish the role of microdomain localization in transporter function. DAT localizes to the plasma membrane, where it modulates the strength and duration of neurotransmission by clearing dopamine (DA) from the perisynaptic space. Defects in DAT have been implicated in a range of psychiatric and neurological disorders, from schizophrenia to Parkinson’s disease. Additionally, as a target of psychostimulants, such as AMPH and cocaine (COC), the role of DAT in addiction is of societal interest. Given that Flot1 was required for scaffolding heterologously expressed DAT to cholesterol-rich membranes in cell-based systems, and was selectively necessary for the non-exocytic release of DA through DAT in response to AMPH, I sought to test the hypothesis that the Flot1-mediated membrane localization of DAT was significant for the ability of mice to respond to AMPH. To this end, I created a series of genetic models to determine how the presence of Flot1 impacts DAT function in the brain. I found that Flot1 is not only important for scaffolding DAT into cholesterol-rich membranes, but that the ability of DAT to partition into these membranes was necessary for DAergic neurons, DAT, and ultimately mice, to respond to AMPH. Given that the other parameters of DA neuron function, as well as the ability of the animals to respond to COC was unaffected by DAT partitioning, my findings demonstrate that AMPH and COC exert different mechanisms of action in vivo. Moreover, I found that the cholesterol-rich membrane environment promoted a conformation of DAT that was favorable for reverse transport of DA through DAT, namely increasing the ability of its N-terminus to bind to the phospholipid, PIP2. This dissertation provides the first glimpse into not only how membrane localization can affect protein conformation and function but also the physiologic relevance of these Flot1-dependent membrane microdomains in brain.

Cancer cell metabolism is reorganized around the needs of proliferating cells, particularly the management of organic metabolites and the balance of redox state. Here, we show that pancreatic cancer requires exogenous sources of cysteine for tumor growth and maintenance due to its critical role in redox balance. Using a multidisciplinary approach, we find that cancer cells rely on imported cystine (oxidized cysteine) to detoxify lipid reactive oxygen species (ROS) and avert ferroptosis, a form of non-apoptotic cell death. Cystine–derived glutathione was necessary for this protection, but its depletion was not sufficient to induce ferroptosis. Correspondingly, genetic inactivation of system xc–, the cystine/glutamate antiporter, in established pancreatic tumors induced stabilization or regression, extending survival in an autochthonous mouse model. We observed distinctive lesions of non-apoptotic cell death that may represent an in vivo manifestation of ferroptosis, highlighting a novel, cancer-specific dependency on a potentially druggable membrane channel.