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2 results on '"Alessandra Zappulo"'

1. RNA localization is a key determinant of neurite-enriched proteome

Author

Alessandra Zappulo, David van den Bruck, Camilla Ciolli Mattioli, Vedran Franke, Koshi Imami, Erik McShane, Mireia Moreno-Estelles, Lorenzo Calviello, Andrei Filipchyk, Esteban Peguero-Sanchez, Thomas Müller, Andrew Woehler, Carmen Birchmeier, Enrique Merino, Nikolaus Rajewsky, Uwe Ohler, Esteban O. Mazzoni, Matthias Selbach, Altuna Akalin, and Marina Chekulaeva

Subjects
Science
Abstract

Subcellular localization of RNAs and proteins is important for polarized cells such as neurons. Here the authors differentiate mouse embryonic stem cells into neurons, and analyze the local transcriptome, proteome, and translated transcriptome in their cell bodies and neurites, providing a unique resource for future studies on neuronal polarity.

Published
2017
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2. Spatio-temporal, optogenetic control of gene expression in organoids

Author

Anna Oliveras Martinez, Cledi Alicia Cerda Jara, Guido Mastrobuoni, Andrew Woehler, Stefan Kempa, Anastasiya Boltengagen, Tale Hessler, Ricardo Wurmus, Alessandra Zappulo, Agnieszka Rybak-Wolf, Lisa Emmenegger, Nikolaus Rajewsky, Ivano Legnini, and Robert P. Zinzen

Subjects
biology, RNA, Computational biology, Optogenetics, Transcriptome, Cardiovascular and Metabolic Diseases, Gene expression, Organoid, biology.protein, CRISPR, Sonic hedgehog, Technology Platforms, Function and Dysfunction of the Nervous System, Gene
Abstract

Organoids derived from stem cells become increasingly important to study human development and to model disease. However, methods are needed to control and study spatio-temporal patterns of gene expression in organoids. To this aim, we combined optogenetics and gene perturbation technologies to activate or knock-down RNA of target genes, at single-cell resolution and in programmable spatio-temporal patterns. To illustrate the usefulness of our approach, we locally activated Sonic Hedgehog (SHH) signaling in an organoid model for human neurodevelopment. High-resolution spatial transcriptomic and single-cell analyses showed that this local induction was sufficient to generate stereotypically patterned organoids in three dimensions and revealed new insights into SHH’s contribution to gene regulation in neurodevelopment.With this study, we propose optogenetic perturbations in combination with spatial transcriptomics as a powerful technology to reprogram and study cell fates and tissue patterning in organoids.

Published
2022

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