Analysis of ER Flux in Cultured Induced Neurons using Keima ER reporters
By onAssociated with preprint: https://doi.org/10.1101/2023.06.26.546565
Analysis of ER structures in Cultured Induced Neuron axons
By onAssociated with preprint: https://doi.org/10.1101/2023.06.26.546565
Microscopy-based bead assay
By onThis protocol describes the procedure to perform microscopy-based bead assay.
Characterizing spatial and temporal properties of ER-phagy receptors
By onAssociated with preprint: https://doi.org/10.1101/2023.06.26.546565
SNP Genotyping and ApoE Genotyping
By onProtocol outlines DNA extraction from blood, quality control, SNP, and APOE genotyping. Adapted from PRoBaND SNP Genotyping and ApoE Genotyping Protocol by Malek et al. for Parkinson's Disease study.
DAB ANTIBODY (IHC) STAINING PROTOCOL
By onThis is the basic protocol for antibody staining of formalin fixed paraffin embedded (FFPE) tissue.
CoxII degradation assay to assess mitophagy
By onThis protocol details the procedure to assess mitophagy by analyzing COXII degradation via Western blotting.
Expansion and maintenance of human induced pluripotent stem cells (iPSCs)
By onThis protocol describes the maintenance and expansion of iPSCs in the adherent culture via single-cell passaging.
R Code used in “Sex-Specific Microglial Responses to Glucocerebrosidase Inhibition: Relevance to GBA1-Linked Parkinson’s Disease”
By onR Code used in "sex-specific microglial responses to glucocerebrosidase inhibition: Relevance to GBA1-linked Parkinson’s disease."
Primary data associated with Figure 3–Figure Supplement 4 in doi: 10.1101/2022.04.25.489459
By onRaw immunoblotting data and tabular data for quantitation used to generate Figure 3–Figure Supplement 4 in doi: 10.1101/2022.04.25.489459 ("A Feed-forward Pathway Drives LRRK2 kinase Membrane Recruitment and Activation").
CamkIIa-cre;Ercc1-/fl mice
By onNeurons in the forebrain show elevated DNA damage and potential senescence, suggesting age-related cellular changes in the brain's higher cognitive functions.
Protocol for in vivo electrophysiological and optogenetic manipulation of basal ganglia neurons in awake head-fixed mice
By onStep by step procedure for in vivo electrophysiological and optogenetic manipulation of basal ganglia neurons in awake head-fixed mice.
Feeder-free culturing of hPSCs
By onThis collection describes the standard procedure of feeder-free culturing of human pluripotent stem cells (hPSCs) using mTeSR-plus or StemFlex
Standard Operating Procedure (SOP) for systemic administration of 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP) in non-human primates
By onThis protocol details standard operating procedure (SOP) for systemic administration of 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP) in non-human primates.
Coating plates
By onThis protocol describes the process of coating plates using either VTN, Matrigel or Geltrex for use in culturing of feeder-free human pluripotent stem cells (hPSCs)
Proteomic analysis of iNeurons lacking ER-phagy receptors
By onProteomic analysis of iNeurons and cells lacking ER-phagy receptors FAM134C, FAM134A, FAM134B, TEX264, and CCPG1 showed distinct protein profiles, highlighting their roles in ER-phagy pathways.
Binding of Rab29 to the LRRK2 Armadillo domain by Microscale Thermophoresis
By onMicroscale thermophoresis is a powerful tool to measure the affinities of interactions between proteins. We present here our method for determining the binding of Rab29 GTPase to the LRRK2 N-terminal Armadillo domain.
Nicotine-Mediated Rescue of α-Synuclein Toxicity Requires Synaptic Vesicle Glycoprotein 2 in Drosophila
By onBackground: Parkinson's disease (PD) is characterized by α-synuclein aggregation and loss of dopamine neurons. Risk of PD arises due to a combination of genetic and environmental factors, which may interact, termed gene-environment (G×E) interactions. An inverse association between smoking and the risk of PD is well established, and a previous genome-wide G×E interaction study identified genetic variation in the synaptic-vesicle glycoprotein 2C (SV2C) locus as an important mediator of the degree to which smoking is inversely associated with PD. Objective: We sought to determine the mechanism of the smoking-SV2C interaction in a Drosophila model of PD. Methods: Flies expressing human α-synuclein in all neurons develop the hallmarks of PD, including motor dysfunction, loss of dopaminergic (DA) neurons, and formation of α-synuclein inclusions. We assessed the effects of increasing doses of nicotine on these parameters of neurodegeneration, in the presence or absence of knockdown of two Drosophila orthologues of SV2, hereafter referred to as SV2L1 and SV2L2. Results: The α-synuclein-expressing flies treated with nicotine had improved locomotion, DA neuron counts, and α-synuclein aggregation. However, in α-synuclein-expressing flies in which SV2L1 and SV2L2 were knocked down, nicotine failed to rescue neurodegeneration. Conclusions: This work confirms a G×E interaction between nicotine and SV2, defines a role for this interaction in α-synuclein proteostasis, and suggests that future clinical trials on nicotine should consider genetic variation in SV2C. Furthermore, this provides proof of concept that our model can be used for the mechanistic study of G×E, paving the way for the investigation of additional G×E interactions or the identification of novel G×E. © 2022 The Authors. Movement Disorders published by Wiley Periodicals LLC on behalf of International Parkinson and Movement Disorder Society.