Student assistant (Hiwi)
We are also looking for a student assistant (Hiwi). Hiwi’s job will involve cell culture work (e.g. generation of mESC lines with CRSPR/CAS approach), NGS library preparation, cloning, and organizational tasks. Expected length of employment is 6 months or longer. Working hours (~10 hr/week) can be arranged around Master courses schedule. Hiwi 's position can also be combined with an internship or Master project on the mechanisms of subcellular localization and translation in neurons. Ideal candidate should be a Master student at one of Berlin universities, majoring in Biochemistry, Biology, Chemistry or related subjects, have experience in cell culture, cloning and speak fluent English. To apply, please send your motivation letter, CV and contact details of at least two referees, as a single pdf file, to marina.chekulaeva(at)mdc-berlin.de.
Postdoc position in RNA biology in neurons
The Chekulaeva lab at the Berlin Institute for Medical Systems Biology is looking for a motivated postdoc to work in RNA biology in neurons. The neuron is a highly polarized cell, consisting of cell body, or soma, and neurite extensions. Such polarity is crucial to neuronal function and relies largely on asymmetric subcellular translation and localization of RNAs and proteins. Not surprisingly, many neurological disorders are associated with a failure to localize and translate mRNAs at specific subcellular sites. We have previously developed a neurite/soma fractionation scheme in combination with mass spectrometry, RNA-seq and ribosome profiling, to identify proteins and RNAs that are differentially localized and translated between neurites and soma (Zappulo et al. 2017; Ciollli Mattioli et al. 2019; Ludwik et al. 2019). This work has also identified RBPs, miRNAs and RNA modifications with potential regulatory roles in local mRNA metabolism. Our lab is interested in understanding the functions of these factors in RNA localization and local translation. We are also applying our methodology to motor neurons disorders, such as ALS, to investigate how changes in RNA metabolism contribute to the mechanism of neurodegeneration.
The project will involve a combination of biochemical, imaging and systems biology methods (RNA-seq, Ribosome profiling, PAR-CLIP, RNA-IP, Crspr/CAS-mediated knockouts and tagging, reporter assays) in cultured cells (mESC, hESC and hiPSC differentiation systems, primary neurons). The successful applicant will work in a collaborative and enthusiastic research environment, with excellent funding, access to the state-of-the-art research platforms (bioinformatics, genomics, proteomics, imaging, mouse), and support with reaching scientific independence. For more information see www.chekulaevalab.org;
Ideal candidate should have PhD degree in biology, biochemistry or molecular biology, experience in molecular biology techniques and cell culture, interest in RNA biology and mechanisms of gene regulation, and speak fluent English. Experience in hiPSC and hESC culture and RNA biology techniques are an advantage. To apply, please send your motivation letter and CV with contact details of at least two referees, as a single pdf file, to marina.chekulaeva(at)mdc-berlin.de
1) Ciolli Mattioli C, Rom A, Franke V, Imami K, Arrey G, Terne M, Woehler A, Akalin A, Ulitsky I, and Chekulaeva M# (2018). Alternative 3' UTRs direct localization of functionally diverse protein isoforms in neuronal compartments. Nucleic Acids Research gky1270, http://dx.doi.org/10.1093/nar/gky1270
2) Zappulo A*, van den Bruck D*, Ciolli Mattioli C*, Franke V*, Imami K, McShane E, Moreno-Estelles M, Calviello L, Filipchyk A, Peguero-Sanchez E, Müller T, Wohler A, Birchmeier C, Merino E, Rajewsky N, Ohler U, Mazzoni E, Selbach M, Akalin A, and Chekulaeva M (2017). RNA localization is the key determinant of neurite-enriched proteome. Nature Communications 8(1):583. http://dx.doi.org/10.1038/s41467-017-00690-6