Correlative super-resolution fluorescence and electron microscopy using conventional fluorescent proteins in vacuo

Super-resolution light microscopy, correlative light and electron microscopy, and volume electron microscopy are revolutionising the way in which biological samples are examined and understood. Here, we combine these approaches to deliver super-accurate correlation of fluorescent proteins to cellular structures. We show that YFP and GFP have enhanced blinking properties when embedded in acrylic resin and imaged under partial vacuum, enabling in vacuo single molecule localisation microscopy. In conventional section-based correlative microscopy experiments, the specimen must be moved between imaging systems and/or further manipulated for optimal viewing. These steps can introduce undesirable alterations in the specimen, and complicate correlation between imaging modalities. We avoided these issues by using a scanning electron microscope with integrated optical microscope to acquire both localisation and electron microscopy images, which could then be precisely correlated. Collecting data from ultrathin sections also improved the axial resolution and signal-to-noise ratio of the raw localisation microscopy data. Expanding data collection across an array of sections will allow 3-dimensional correlation over unprecedented volumes. The performance of this technique is demonstrated on vaccinia virus (with YFP) and diacylglycerol in cellular membranes (with GFP)

Correlative and integrated light and electron microscopy of in-resin GFP fluorescence, used to localise diacylglycerol in mammalian cells

Fluorescence microscopy of GFP-tagged proteins is a fundamental tool in cell biology, but without seeing the structure of the surrounding cellular space, functional information can be lost. Here we present a protocol that preserves GFP and mCherry fluorescence in mammalian cells embedded in resin with electron contrast to reveal cellular ultrastructure. Ultrathin in-resin fluorescence (IRF) sections were imaged simultaneously for fluorescence and electron signals in an integrated light and scanning electron microscope. We show, for the first time, that GFP is stable and active in resin sections in vacuo. We applied our protocol to study the subcellular localisation of diacylglycerol (DAG), a modulator of membrane morphology and membrane dynamics in nuclear envelope assembly. We show that DAG is localised to the nuclear envelope, nucleoplasmic reticulum and curved tips of the Golgi apparatus. With these developments, we demonstrate that integrated imaging is maturing into a powerful tool for accurate molecular localisation to structure

Lipid species affect morphology of endoplasmic reticulum: a sea urchin oocyte model of reversible manipulation

The endoplasmic reticulum (ER) is a large multifunctional organelle of eukaryotic cells. Malfunction of the ER in various disease states, such as atherosclerosis, Type 2 diabetes, cancer, Alzheimer’s and Parkinson’s diseases and amyotrophic lateral sclerosis, often correlates with alterations in its morphology. The ER exhibits regionally variable membrane morphology that includes, at the extremes, large relatively flat surfaces and interconnected tubular structures highly curved in cross-section. Much evidence suggests that ER morphology is controlled by shaping proteins that associate with membrane lipids. To investigate the role of these lipids in ER morphology, we developed a sea urchin oocyte model which is a relatively quiescent cell in which the ER consists mostly of tubules. We altered levels of endogenous diacylglycerol, phosphatidylethanolamine and phosphatidylcholine by microinjection of enzymes or lipid delivery by fusion with liposomes and evaluated shape changes with two- and three-dimensional confocal imaging and three-dimensional electron microscopy techniques. Decreases and increases in the levels of lipids such as diacylglycerol or phosphatidylethanolamine characterized by negative spontaneous curvature correlated with conversion to sheet structures or tubules respectively. The effects of endogenous alterations of diacylglycerol were reversible upon exogenous delivery of lipids of negative spontaneous curvature. These data suggest that shaping proteins require threshold amounts of such lipids and that localized deficiencies of the lipids could contribute to alterations of ER morphology. The oocyte modeling system should be beneficial to future studies directed at understanding the precise spatial and compositional requirements of lipid species in interactions leading to alterations of organelle shaping

High PD-1/PD-L1 Checkpoint Interaction Infers Tumor Selection and Therapeutic Sensitivity to Anti-PD-1/PD-L1 Treatment

Many cancers are termed immunoevasive due to expression of immunomodulatory ligands. Programmed death ligand-1 (PD-L1) and cluster of differentiation 80/86 (CD80/86) interact with their receptors, programmed death receptor-1 (PD-1) and cytotoxic T-lymphocyte antigen-4 (CTLA-4), respectively, on tumor-infiltrating leukocytes eliciting immunosuppression. Immunotherapies aimed at blocking these interactions are revolutionizing cancer treatments, albeit in an inadequately described patient subset. To address the issue of patient stratification for immune checkpoint intervention, we quantitatively imaged PD-1/PD-L1 interactions in tumor samples from patients, employing an assay that readily detects these intercellular protein-protein interactions in the less than or equal to 10 nm range. These analyses across multiple patient cohorts demonstrated the intercancer, interpatient, and intratumoral heterogeneity of interacting immune checkpoints. The PD-1/PD-L1 interaction was not correlated with clinical PD-L1 expression scores in malignant melanoma. Crucially, among anti-PD-1-treated patients with metastatic non-small cell lung cancer, those with lower PD-1/PD-L1 interaction had significantly worsened survival. It is surmised that within tumors selecting for an elevated level of PD-1/PD-L1 interaction, there is a greater dependence on this pathway for immune evasion and hence, they exhibit more impressive patient response to intervention. SIGNIFICANCE: Quantitation of immune checkpoint interaction by direct imaging demonstrates that immunotherapy-treated patients with metastatic NSCLC with a low extent of PD-1/PD-L1 interaction show significantly worse outcome.This work was supported, in part, by Department of Education, Basque Government- IT1270-19, Elkartek grant (BG18), and the Spanish Ministry grant (MINECO) PROJECTS of EXCELLENCE (BFU2015-65625-P). P.J. Parker was supported by a core grant to the Francis Crick Institute, from Cancer Research UK (FC001130), the UK Medical Research Council (FC001130), and the Wellcome Trust (FC001130).Peer reviewe

Role of lipid signalling pathways in an intra and an extracellular phenomenon

This dissertation is in two parts. The first part investigates the role of lipid signalling pathways in an intracellular phenomenon i.e. the formation of the nuclear envelope. The second part is a study of lipid signalling pathways in extracellular phenomenon, i.e. HeLa cell adhesion and spreading on a gelatin substrate. The disassembly and formation of the nuclear envelope are crucial steps in the progression of mitosis. Nuclear envelope dynamics involve many steps and since vesicular transport, binding and fusion of vesicles are essential for the formation of the nuclear envelope it was our interest to explore whether there were any parallel pathways, such as found in the secretary pathways, that were also used in the formation of the nuclear envelope. There is little information on the proteins of membrane vesicles that reconstitute the nuclear envelope and practically none about their lipid composition. It was therefore important to determine their lipid structure in order to proceed with investigating whether, during the formation of the nuclear envelope, similar signalling pathways to those in the vesicle trafficking operate. Cytoplasmic membrane vesicle fractions (MVs) from sea urchin eggs which, contribute to the nuclear envelope were studied. The phospholipid composition of the membrane vesicles, MV1, MV2 and MV3 was determined using a novel approach for direct quantification of phospholipids from two-dimensional 31 P-1H nuclear magnetic resonance spectroscopy with isotropic mixing. MV2 and MV3 have similar compositions typical of the ER and the Golgi membranes. However, MV1 is mainly composed of phosphatidylinositol with phosphatidylcholine being the minor phospholipid present in MV1. Furthermore, we determined that phosphatidylinositol specific phospholipase C (PI-PLC) promoted nuclear envelope formation. However, in the absence of MV1, PI-PLC, did not induce nuclear envelope formation. Inhibition of membrane vesicle fusion in a dose dependent manner, by wortmannin (a specific inhibitor of the PI-3kinase pathway) suggested that the PI-3 kinase branch of the phosphatidylinositol pathway may be involved in the formation of the nuclear envelope. These experiments indicate that the inositol phospholipid pathways, as in constitutive membrane trafficking, are also involved in the formation of the nuclear envelope. Furthermore, it is the first time that a biological membrane, MV1, with such an unusual composition has been reported and that it has been demonstrated the phosphatidylinositol hydrolysis is involved in the formation of the nuclear envelope. In the second part the goal was to determine which lipoxygenase metabolites were involved in facilitating HeLa cell adhesion and spreading to a gelatin substrate. Reverse phase HPLC methods demonstrated that HeLa cell homogenates converted arachidonic acid into 12-, 15- and 5-hydroperoxyeicosatetraenoic (HETEs), indicating that 12, 15 and 5 lipoxygensases are active in HeLa cells. In order to investigate which lipoxygenase pathway are required to induce cell spreading the lipoxygenase pathway was inhibited by 25uM nordihydroguaiaretic acid (NDGA), a specific inhibitor of the lipoxygenases and MK866, a specific inhibitor of leukotriene biosynthesis. The effect of the different enantiomers of 12-BETE and 15-HETE on the reversal of NDGA inhibition was determined. The leukotrienes that overcome the inhibition of cell spreading by NDGA and MK866 were also determined. It can be concluded that 12,15 and 5 lipoxygenase enzymes are present and active in HeLa cells; and 12-HETE, 15-HETE, leukotrienes LTB4, LTD4 and LTC4 play an active role in HeLa cell spreading on a gelatin substrate