Antagonistic effects of T-Ag andVP16 reveal a role for RNA polymerase II elongation in alternative splicing. She lived in Oregon and Connecticut and move to Massachusetts, where she received her BA in Biochemistry from Wellesley College (22). Jens joined the Bando Lab in 2023 as a visiting graduate student to understand how distinct histone mutations influence gliomagenesis and also aims to exploit the dependence of pLGGs on the MAPK pathway. Simchovitz A, Hanan M, Yayon N, Lee S, Bennett ER, Greenberg DS, Kadener S, Soreq H. A Parkinson's disease CircRNAs Resource reveals a link between circSLC8A1 and oxidative stress. How do circRNAs work at the molecular level? Antibodies allow protein visualization by immunostaining, biochemical study by immunoprecipitation and western blot, and proteomic study by IP-MS. We have taken a number of approaches to address the spatial and temporal regulation of signaling pathway activities in the gut epithelium. Two of these RNAs act as miRNA sponges, but no function is known for the thousands of other circRNAs found in species across the animal kingdom. and Torres H.N. We showed that their translation is mediated by IRES-like sequences, is enhanced in response to starvation and happens in association with membranes and in synapses. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. Aaron is an Attending Pediatric Neuro-Oncologist at the Dana-Farber/Boston Childrens Cancer and Blood Disorders Center. We have also generated stable nuclease-dead Cas9 activator (dCas9a) cell lines that can be used, after transfection with gRNAs, to perform overexpression screens - thus complementing loss of function screens. Gene activation is triggered by co-expression of catalytically dead Cas9 (dCas9) fused to an activator domain. . Verified email at brandeis.edu - Homepage. Acquiring answers to these fascinating questions requires a deep understanding of the mechanisms by which cells integrate signals received from their inner selves, neighboring cells, other organs and the environment. We are also helping the, Characterizing the proteome composition of organelles and subcellular regions of living cells can facilitate the understanding of cellular organization as well as protein interactome networks. In this context, the most important question looking forward are: Afik S. 1, Bartok O. As an underlying mechanism, the balance or critical reaction hypothesis have been proposed. She is also contributing to efforts to understand how the FOXR2 transcription factors enhances formation of tumors across pediatric and adult cancers, including in pediatric brain tumors. Belacortu Y., Weiss R., Kadener S. and Paricio N. Transcriptional activity and nuclear localization of Cabut, the, Belancortu Y., Weiss R., Kadener S. and Paricio N. Expression of, Van der Linden A.M., Beverly M., Kadener S., Rodriguez J., Wasserman S., Rosbash M. and Sengupta P. Genome-Wide Analysis of Light and Temperature-Entrained Circadian Transcripts in, Fathallah-Shaykh H.M., Bona J.L. Second, we showed that the calcium channel TrpA1 is expressed in ISCs and is required for their proliferation. * Corresponding authors. More. Sebastian Kadener Associate Professor of Biology Research Description Molecular Neurobiology and RNA metabolism Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. Despite the importance of antibodies in biology study, antibodies are not available for most fly proteins. Our major contributions to tool development are the Gal4-UAS system, FLP-FRT germline clone technique, in vitro and in vivo genome-wide RNAi and CRISPR screening platforms and resources, and in vivo proximity labeling methods. Sayan is a graduate student in the Molecular and Cell Biology program at Brandeis and he is investigating the role of circRNA in aging and neurodegeneration. Thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell level. Mezan S., Feuz JD, Deplancke B. and Kadener S. PDF signaling is an integral part of the. The current model postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback loops. Jazmin is currently investigating how circRNA levels change at synapses and whether they are modulated by neuronal activity. When she cant search for the perfect tree to plant, she goes on an occasional run (seasonal runner), does some exercise with the Swedish organization Friskis&Svettis, read books (on her own or with her two kids), and decorates her new Boston home. Control of alternative pre-mRNA splicing by RNA Pol II elongation: faster is not always better. Michael earned a BA in cellular biology and neuroscience from Rutgers University. in Physics. *, Eliaz D.*, Cohen Chalamish S., Tschudi C., Unger R., Hashem Y., Kadener S. and Michaeli S. Pseudouridylation in. and Torres H.N. Lic. Metazoan MicroRNAs (2018) David P. Bartel CELL Non-canonical functions of microRNA pathway enzymes - Drosha, DGCR8, Dicer and Ago proteins Antagonistic effects of T-Ag andVP16 reveal a role for RNA polymerase II elongation in alternative splicing. Pathways that are misregulated in animals that develop organ wasting in the context of these various tumor models are identified using a combination of transcriptomics, e.g. Fun fact:In her free time, Marissa loves to go on bike rides, do yoga and walk her dog. and Torres H.N. Pamudurti N., Bartok O., Jens O., Ashwal-Fluss R., Stottmeister C., Ruhe L., Hanan M., Wyler E., Perez-Hernandez D., Ramberger E., Shenzis S., Samson M., Dittmar G., Landthaler M., Chekulaeva M., Rajewsky N. and Kadener S. Translation of circRNAs. The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. using proximity labeling to identify all proteins secreted by the tumors. One point of focus for DRSC-BTRR efforts is establishment of CRISPR pooled screening in cell lines from mosquito vectors of infectious diseases. An early ancestor in the evolution of splicing: a. Nogues G., Kadener S., Cramer P., de la Mata M., Fededa J.P., Blaustein M., Srebrow A. and Kornblihtt A.R. Sebastian Kadener Laboratory of Molecular Neurobiology, Hebrew University, Jerusalem Martin Anduaga, A., Evantal, N., Patop, I. L., Bartok, O., Weiss, R. and Kadener, S. (2019). 2012- Lab manager at Ami Citri laboratory at the Hebrew University of Jerusalem 2010- 2012 Postdoc at the Hebrew University of Jerusalem at Sebastian Kadener Lab; research topic-studying neodegenerative diseases using fruit flies as a model 2000-2003 Research assistant at QBI company; I was part of research Patop IL, Wst S, Kadener S. Craving for Introns. Wittenbrink N, Ananthasubramaniam B, Mnch M, Koller B, Maier B, Weschke C, Bes F, de Zeeuw J, Nowozin C, Wahnschaffe A, Wisniewski S, Zaleska M, Bartok O, Ashwal-Fluss R, Lammert H, Herzel H, Hummel M, Kadener S, Kunz D, Kramer A. Levin-Klein R., Fraenkel S., Lichtenstein M., Matheson L., Bartok O., Nevo Y., Kadener S., Corcoran A., Cedar H., Bergman Y. Our most popular tools are: DIOPT, an integrative tool for ortholog predictions among major model organisms. Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. Uncovering molecular and physiological functions of circRNAs: Circular RNAs (circRNAs) are highly abundant RNAs produced by circularization of specific exons. Simchovitz A, Hanan M, Niederhoffer N, Madrer N, Yayon N, Bennett ER, Greenberg DS, Kadener S, Soreq H. Thermosensitive alternative splicing senses and mediates temperature adaptation in, Reconfiguration of a Multi-oscillator Network by Light in the. Title. A slow RNA polymerase II affects alternative splicing in vivo. Working under the mentorship of Dr. Beth Lawlor, April focused on understanding how hijacking of normal developmental pathways lead to heterogeneity and cell state plasticity in Ewing sarcoma. Lic. Allada R., Kadener S., Nandakumar N. and Rosbash M. A recessive mutant of, Portal D., Espinosa J.M., Lobo G.S., Kadener S., Pereira C.A., de la Mata M., Tang Z., Lin R.J., Kornblihtt A.R., Baralle F.E., Flawia M.M. Selected for Faculty of 1000 (Factor 3 Recommended). I am studying potential applications of the CRISPR/Cas13 system. I am in the Class of 2024 studying neuroscience and biology. Molecular Interaction Search Tool) for mining, visualization and analysis of network data, for mining protein post-translational modification (PTM) data and comparison of PTM data across species and. snguyen [at]brandeis [dot]edu Michelle Chukwu Research Technician Fun fact: One of the first things Jens did when he arrived in Boston was to buy a bike. These tools, which are available via. Verified email at brandeis.edu - Homepage. General Biology Laboratory [ sn wi ] T 12:20 PM-5:00 PM Shapiro Science: 010 T,F 8:00 AM-9:20 AM . Its very important for us! Lacadie S.A., Tardiff D.F., Kadener S. and Rosbash M. In vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation mutants. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. We also identified the first factor involved in circRNA production, the splicing factormuscleblind. I am studying translational activators of the circadian clock in Drosophila. Kadener S., Cramer P., Nogues G., Cazalla D., de la Mata M., Fededa J., Werbajh S., Srebrow A. and Kornblihtt A. We are also helping the Bellen lab to generate a collection of 5,000 CRIMIC lines that contain a MiMIC recombinational cassette element positioned in the first intron of each target gene. Lerner I. Zaffagni M, Kadener S. NEAT1 is overexpressed in Parkinson's disease substantia nigra and confers drug-inducible neuroprotection from oxidative stress. Nucleic Acids Research47(11): e95; 1-16 (2017). He then pursued a PhD in chemistry at Caltech (17) under the mentorship of Dr. Jackie Barton. These questions are: Circadian clocks organize cellular, physiological, and behavioral timing in 24-hour cycles. We demonstrated that shRNAs are more efficient and specific than long dsRNA when expressed as transgenes, and generated a genome scale collection of >13,000 lines covering 75% of the genome in our optimized VALIUM vectors (85% of highly conserved genes). Mezan S., Feuz JD, Deplancke B. and Kadener S. PDF signaling is an integral part of the. Studying the function of circRNAs in the brain. A slow RNA polymerase II affects alternative splicing in vivo. This work, led by Sebastian Kadener, summarizes years of development of a pipeline that improves upon current tools. I am interested in studying circular RNA formation. Our lab is interested in determining how molecular and neural circadian components regulate each other and generate a system that is both robust and plastic. Now the stage is set for the most exciting questions, which we are currently working in the lab, by combining molecular, computational and RNA biology with advances techniques in genetics and neurosciences. He is returning to Brandeis as an Associate Professor of Biology. Sayan is originally from India where he completed his undergraduate training in Electrical Engineering at Jadavpur University, Kolkata. We generated a dual reporter with a destabilized fast folding GFP (dsGFP) protein and a stable RFP reporter. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. In a collaboration with Sebastian Kadener's lab at Brandeis, we generated a new set of PspCas13b and RfxCas13d expression constructs that can be used to target RNA in cells and in vivo. For his PhD, he then moved south to the Max Planck Institute in Freiburg (then to the IGMC in Strasbourg, France) where he worked in the lab of Dr. Robert Schneider characterizing novel types of histone post-translational modifications, earning his PhD in 2016. This collection is available to the community through the Bloomington Drosophila Stock Center. He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. Fun fact:Almost all of Johns socks are Christmas themed! We are particularly interested on the role of circular RNAs (circRNAs) at the molecular and neural levels as well as the mechanisms underlying circadian clocks. Protocol. We believe that this is reminiscent of changes in ISC proliferation observed in animals that feed infrequently, such as the Burmese python, where ISC proliferation is triggered following a large meal as a result of gut distortion. Send us removal request. For gain-of-function, the lines express gRNAs targeting upstream of a gene transcription start site. Patop, Ines Lucia; Kadener, Sebastian . Despite the importance of antibodies in biology study, antibodies are not available for most fly proteins. The tagged endogenous proteins can then be isolated for further analysis by MS. To analyze protein-protein interactions or identify components that localize to discrete subcellular compartments, we developed tools based on APEX, an engineered ascorbate peroxidase derived from plants, and BioID, a mutant form of the biotin ligase BirA from E coli and demonstrated their use for in vivo studies. Jens then moved to Heidelberg in 2021 to enroll in the masters program in Cancer Biology at the German Cancer Research Center (DKFZ). Have to interact to coordinate proliferation and differentiation to form tissues and organs communicate during development and in mature.... 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