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Sebastian Kadener Principal Investigator M.Sc., The University of Buenos Aires, Buenos Aires, Argentina Ph.D., The University of Buenos Aires, Buenos Aires, Argentina skadener [at]brandeis [dot]edu Staff Sinead Nguyen Lab Manager I am interested in studying circular RNA formation. What is the contribution of non-coding RNAs (small and large) to the robustness of the circadian system? Ines Patop. and Kadener S. Mathematical Model of the, Kadener S., Menet J., Sugino K., Horwich M.D., Weissbein U., Nawathean P., Vagin V., Zamore P., Nelson S. and Rosbash M. A role for miRNAs in the, Kadener S., Rodriguez J., Abruzzi K. and Rosbash M. Genome-wide identification of targets of the, Kadener S., Schoer R., Menet J. and Rosbash M. Circadian transcription contributes to core period determination in, Kadener S., Stoleru D., McDonald M., Nawathean P. and Rosbash M. , Rosbash M., Bradley S., Kadener S., Li Y., Luo W., Menet J.S., Nagoshi E., Palm K., Schoer R., Shang Y. and Tang C.H. Our laboratory is interested in understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. *, Afik S., Menet J., Wolfson V., Weissbein U., Haimovich D., Gafni C., Friedman N., Rosbash M. and Kadener S. . Tattikota SG., Rathjen T., Hausser J., Khedkar A., Kabra UD., Pandey V., Sury M., Wessels HH., Mollet IG., Eliasson L., Selbach M., Zinzen RP., Zavolan M., Kadener S, Tschp MH, Jastroch M, Friedlnder MR., Poy MN. During her time at Brandeis, Maddie worked in the lab of Sebastian Kadener studying RNA metabolism and the circadian rhythm. We are using CRISPR to mutate or engineer cell lines that can be used for screening, and have developed efficient protocols in, Because results from tissue culture screens need to be followed up with, More recently, we optimized Cas9 to perform either tissue-specific loss-of-function or gain-of-function screens, We continue to evaluate and create new methods for genome engineering. She also enjoys amateur photography. 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. High-accuracy determination of internal circadian time from a single blood sample. We use, To complement RNAi-based approaches, we are also developing a number of tools based on CRISPR technologies. Feel free to send suggestions. Understanding how circadian rhythms are generated, maintained, and adapted to changing conditions is key, as several diseases such as cancer and depression are associated with misalignment of the circadian clock with the environment. J. Biol. Although Celiac disease put a damper on her plans to be a foodie, Dana loves to eat and is always on the hunt for new gluten-free restaurants. 178: We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. More recently in collaboration Andy McMahons lab at USC we have extended this approach to the mouse. Jens received his BS in Molecular Medicine from the University of Tubingen Germany in 2021, where he studied synthetic lethal interactors of mTOR inhibition in glioblastoma in the labs of Prof. Ghazaleh Tabatabai and Dr. Daniel Merk. de la Mata M., Alonso C.R., Kadener S., Fededa J.P., Blaustein M., Pelisch F., Cramer P., Bentley D. and Kornblihtt A.R. Rabin A, Zaffagni M, Ashwal-Fluss R, Patop IL, Jajoo A, Shenzis S, Carmel L, Kadener S. Extensive tissue-specific expression variation and novel regulators underlying circadian behavior. 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. In this context, the most important question looking forward are: Afik S. 1, Bartok O. How do circRNAs work at the molecular level? April received her BS in Cellular and Molecular Biology from Beloit College in 2017, where she worked in the lab of Dr. Amy Briggs studying the role offpgsgenes inArabidopsis thaliana. Thermosensitive alternative splicing senses and mediates temperature adaptation in Drosophila. DIOPT has been well received by the scientific community and has been integrated into FlyBase, PomBase, MARRVEL (Model organism Aggregated Resources for Rare Variant ExpLoration) and AGR (Alliance of Genome Resources); integrates annotation information for orthologs of multiple species in unified interfaces; allows scientists to mine the validation and phenotype data for. Maddie received her MS and BS in Biology from Brandeis University in 2021. Understanding how circadian rhythms are generated, maintained, and adapted to changing conditions is key, as several diseases such as cancer and depression are associated with misalignment of the circadian clock with the environment. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. 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. Hanan M, Simchovitz A, Yayon N, Vaknine S, Cohen-Fultheim R, Karmon M, Madrer N, Rohrlich TM, Maman M, Bennett ER, Greenberg DS, Meshorer E, Levanon EY, Soreq H, Kadener S. Past, present, and future of circRNAs. Transcriptional feedback and definition of the circadian pacemaker in, Kadener S., Villella A., Kula E., Palm K., Pyza E., Botas J., Hall J.C. and Rosbash M. Neurotoxic protein expression reveals connections between the circadian clock and mating behavior in. Derr A, Yang C, Zilionis R, Sergushichev A, Blodgett DM, Redick S, Bortell R, Luban J, Harlan DM, Kadener S, Greiner DL, Klein A, Artyomov MN, Garber M. End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data. Olivia received her B.A. dsGFP, because of its short half-life, captures real-time signaling, while stable RFP labels cells in which signaling activity has occurred. 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. Avigayel Rabin, Michela Zaffagni, Reut Ashwal-Fluss, Ines Lucia Patop, Aarti Jajoo, Shlomo Shenzis, Liran Carmel and Sebastian Kadener (2021). Alternative splicing regulates biogenesis of miRNAs located across exon-intron junctions. During his time at Dickinson, Sher worked in Dr. Michael Roberts lab, investigating gene targets for potential Acute Myeloid Leukemia therapies. Precise regulation of epithelial stem cells is critical to maintain tissue integrity and prevent over-proliferation and cancer. This plasticity is the result of the existence of very efficient input pathways that convey the external signals into the core oscillator machinery. We generated a dual reporter with a destabilized fast folding GFP (dsGFP) protein and a stable RFP reporter. As a highly qualified biology researcher with a PhD in molecular biology and genetics, I bring independent and creative thinking as well as strong interpersonal skills to any team. 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. Despite the importance of antibodies in biology study, antibodies are not available for most fly proteins. In mature animals, cells and organs interact to maintain homeostasis and coordinate their physiological roles. Kadener S., Fededa J.P., Rosbash M. and Kornblihtt A.R. PubMed ID: 31702556 Transcriptional activators differ in their abilities to control alternative splicing. What are the neural and molecular basis of temperature adaptation and compensation? Litovchenko M, Meireles-Filho ACA, Frochaux MV, Bevers RPJ, Prunotto A, Anduaga AM, Hollis B, Gardeux V, Braman VS, Russeil JMC, Kadener S, Dal Peraro M, Deplancke B. Host-derived circular RNAs display proviral activities in Hepatitis C virus-infected cells. We previously developed a recombination-mediated cassette exchange (RMCE) system that enables pooled CRISPR screening in Drosophila cells, as well as bioinformatics tools for identifying sgRNA designs for mosquitos and mosquito cell lines. In addition and most importantly, genome-wide libraries of transgenic RNAi lines are available that allow knockdown of any Drosophila gene in an organ or tissue-specific manner. Following our identification of adult Drosophila intestinal stem cells (ISCs), we used this system to characterize genes and pathways important for gut homeostasis and in particular, to analyze crosstalk among signaling pathways. Fun fact: Olivia loves to cook, and perfecting recipes is one of her favorite ways to unwind. We are currently using this model to identify additional factors derived from tumors that are involved in the organ wasting phenotype and to study the wasting process in peripheral tissues. * Corresponding authors. Sebastian Kadener Activities Collapse all Works (11) sort Sort The chromatin factor ROW cooperates with BEAF 32 in regulating longrange inducible genes EMBO reports 2022-12-06 | Journal article DOI: 10.15252/embr.202254720 Contributors : Neta Herman; Sebastian Kadener; Sagiv Shifman Show more detail Source : Crossref 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. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. Transcription factor Dam fusions of the major proliferative signaling pathways will be used to address questions about crosstalk and target co-regulation. Molecular Neurobiology and RNA metabolism. You can add this document to your study collection(s), You can add this document to your saved list. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. In this context, the most important question looking forward are: Afik S. 1, Bartok O. Article. Fun fact: One of the first things Jens did when he arrived in Boston was to buy a bike. Is the category for this document correct. Lacadie S.A., Tardiff D.F., Kadener S. and Rosbash M. In vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation mutants. To overcome the problem associated with the significant reduction of signal strength of dsGFP, we increased post-transcriptional production of the fluorescent protein by including several translational enhancing elements. *, Bartok O. * Corresponding authors. We renamed the center DRSC/TRiP-Functional Genomics Resources to better represent our current capabilities. Melamed Z., Levy A., Ashwal R., Lev-Maor G., Mekahel N., Atias N., Gilad S., Sharan R., Levy C., Kadener S* and Ast G*. 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. *, Bartok O. Followers. For example, little is understood about how the simultaneous growth and differentiation of different tissues and organs are coordinated and how the development of different cell types and tissues is integrated within an organ. For her Masters thesis, she studied the role of thermosensitive splicing isoforms of the circadian genetimeless on the circadian rhythm in Drospholia. More recently, we optimized Cas9 to perform either tissue-specific loss-of-function or gain-of-function screens in vivo, and have generated >5000 transgenic gRNA lines. 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). ), we have identified and validated novel mechanisms of how stem cells adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. Lerner I. Using the DRSC screening platform, the functions of the ~15,000 predicted Drosophila genes can be systematically analyzed to address questions in cell signaling, cell morphology, host-pathogen interactions, ion channel function, and many other topics. Cold Spring Harbor Laboratory Online. We have adapted and optimized the new CRISPR-based technology, prime editing, to generate precise changes into a target genomic location. Are circRNAs involved in neurodevelopmental and neurodegenerative diseases? Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. Now, in an article published in the journal Molecular Cell, the lab of Dr. Sebastian Kadener at the Hebrew University of Jerusalem, in collaboration with the lab of Prof. Nikolaus Rajewsky at the . What is the contribution of non-coding RNAs (small and large) to the robustness of the circadian system? Title. Laboratory Profile Principal Investigator: Sebastian Kadener A systemic view of circadian clocks: from gene expression to neuronal networks and behavior. Circadian clocks are also exceptionallyplasticas they can quickly and specifically adjust to specific environmental cues. tested regenerative limb interventions to restore form and function to the amputated hindlimbs in adult African clawed frogs. This collection is available to the community through the Bloomington Drosophila Stock Center. These tools, which are available viaDRSC/TRiP Functional Genomics Resources, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. The current model postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback loops. He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. Selected for Faculty of 1000 (Factor 6 Must Read). 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. Portal D., Lobo G.S., Kadener S., Prasad J., Espinosa J.M., Pereira C.A., Tang Z., Lin R.J., Manley J.L., Kornblihtt A.R., Flawia M.M. 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 Dr. Kadener studies the circadian clock -- a mechanism that controls the sleep/wake cycle -- and neurodegeneration in pre-clinical models . Associate Professor, Brandeis University. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Portal D., Lobo G.S., Kadener S., Prasad J., Espinosa J.M., Pereira C.A., Tang Z., Lin R.J., Manley J.L., Kornblihtt A.R., Flawia M.M. I am a PhD student in the lab since 2018 after graduating from The College of Wooster. Eric received his MS in biomedicine from Uppsala University, Sweden in 2010. Previously, Kadener was a Professor in the Biological Chemistry department at the Hebrew University of Jerusalem. Murugan et al. *, Afik S., Menet J., Wolfson V., Weissbein U., Haimovich D., Gafni C., Friedman N., Rosbash M. and Kadener S. . Metazoan MicroRNAs (2018) David P. Bartel CELL Non-canonical functions of microRNA pathway enzymes - Drosha, DGCR8, Dicer and Ago proteins UAS-gypsy structure and functional test. Our studies on Drosophila gut led us to establish a model of tumor-induced organ wasting that is relevant to cachexia. using proximity labeling to identify all proteins secreted by the tumors. She makes a mean pour over coffee, and her favorite animal is a tie between a sloth and a quokka. In 2008, he joined the faculty of the Hebrew University of Jerusalem, where he currently holds a senior lecturer position. 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). Sebastian Kadener E-mail (s) skadener@gmail.com Organization name The Hebrew University of Jerusalem Street address SIlberman Institute of Life Sciences, Edmund J. Safra Campus City Jerusalem ZIP/Postal code 91904 Country Israel Platform ID GPL20301 Series (1) GSE154616 Mammalian circRNA Atlas Relations BioSample SAMN15566042 SRA SRX8753063 Zaffagni M, Kadener S. NEAT1 is overexpressed in Parkinson's disease substantia nigra and confers drug-inducible neuroprotection from oxidative stress. Fun fact: Leslie played basketball through college and is now an avid cyclist. 178: Bartok O., Kyriacou C., Levine J., Sehgal A. and Kadener S. 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Homeostasis and coordinate their physiological roles when he arrived in Boston was to buy a bike to buy a..
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