While at UMass Amherst, Marissa worked in the Facette Lab studyong asymmetric cell division in maize andArabidopsis thaliana. RNA biology Neurosciences. We showed that miRNAs have a key role in providing robustness to the circadian system both during development and in adults. Articles Cited by Public access Co-authors. Transcriptional activators differ in their abilities to control alternative splicing. Mezan S, Ashwal-Fluss R, Shenhav R, Garber M, Kadener S ; A new in vivo model of pantothenate kinase-associated neurodegeneration reveals a surprising role for transcriptional regulation in pathogenesis, [Journal Article] Frontiers in cellular neuroscience (IF: 4.300) (2013) Pandey V, Turm H, Bekenstein U, Shifman S, Kadener S 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. 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. Selected for Faculty of 1000 (Factor 6 Must Read). We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. * Corresponding authors. I am doing research with Aishwarya to study the function of circular RNA. Biogenesis and functions of circular RNAs. First, we developed a new method to visualize the dynamic activation of pathway activities. Articles Cited by Public access Co-authors. Moreover, we also showed that the neural and molecular circadian systems compensate and interact with each other. * Corresponding authors. For example, we showed that circRNA biogenesis competes with canonical splicing, showing that circRNAs can function incisas RNA traps. 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. Sebastian Kadener Prof. Nac. Despite the importance of antibodies in biology study, antibodies are not available for most fly proteins. Bartok O., Kyriacou C., Levine J., Sehgal A. and Kadener S. Adaptation of molecular circadian clockwork to environmental changes: a role for alternative splicing and miRNAs. I am studying potential applications of the CRISPR/Cas13 system. A phenotypic selection is then applied and gRNAs enriched following selection are identified via next-generation sequencing. We use Drosophila as a model system to characterize the mechanisms underlying communication between cells, tissues, and organs. *, Afik S., Menet J., Wolfson V., Weissbein U., Haimovich D., Gafni C., Friedman N., Rosbash M. and Kadener S. . Circadian clocks are also exceptionallyplasticas they can quickly and specifically adjust to specific environmental cues. Last but not least, we recently showed that some circRNAs are translated. Adam is currently studying approaches to therapeutically target cancers that harbor mutations in the Mismatch Repair pathway. Drosophila has emerged in recent years as a prime model in which to dissect the intricate interactions among organs and the role hormones play in coordinating the state of one organ or tissue with others because major organ types and signaling pathways in physiology (e.g. Patop, Ines Lucia; Kadener, Sebastian . Riley is currently working to understand genetic and epigenetic mechanisms of resistance in brain tumors, focusing on resistance to BET-bromodomain inhibitors and vulnerabilities induced by loss of mismatch repair proteins. Following. Circadian clocks are remarkably robust: they are able to keep time without timing cues and are resilient to large variations in environmental conditions. de la Mata M., Alonso C.R., Kadener S., Fededa J.P., Blaustein M., Pelisch F., Cramer P., Bentley D. and Kornblihtt A.R. He is returning to Brandeis as an Associate Professor of Biology. Or do you know how to improve StudyLib UI? Murugan et al. 290(2015). For doing this, we study the circadian clock from a systemic point of view, including studies at the molecular and neural levels. NanoTags, VHH05- and 127D01-tagsthat are 14 and 10 amino acids in length, and their corresponding nanobodies (NbVHH05 and Nb127D01) are excellent reagents for both, We have developed a series of bioinformatics tools that provide the research community with well-designed, user-friendly resources that impact research at all stages, from project design to data analysis and integration. Mezan S., Ashwal-Fluss R., Shenhav R., Garber M. and Kadener S. Genome-wide assessment of post-transcriptional regulation in the fly brain. Bartok O., Teesalu M., Pandey V., Hanan M., Poukkula M., Havula E., Moussaieff A., Vodala S., Nahmias Y., Kadener S.* and Hietakangas V.* Cabut-dependent repressive branch of the sugar sensing transcriptional network regulates glyceroneogenesis. Studying transcription, chromatin and gene expresion in the brain. Clonally stable VK allelic choice instructs IgK repertoire. 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); Gene2Function integrates annotation information for orthologs of multiple species in unified interfaces; RSVP allows scientists to mine the validation and phenotype data for in vivo RNAi and sgRNA stocks; MIST (Molecular Interaction Search Tool) for mining, visualization and analysis of network data, iProteinDB for mining protein post-translational modification (PTM) data and comparison of PTM data across species and DRscDB for mining and comparison of single-cell RNA-seq data across species. Lacadie S.A., Tardiff D.F., Kadener S. and Rosbash M. In vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation mutants. He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. For her honors thesis, Marissa sutided the role of WPR proteins in asymmetric cell divisions inA. thalianaroots. Antibodies allow protein visualization by immunostaining, biochemical study by immunoprecipitation and western blot, and proteomic study by IP-MS. Fun fact: Outside the lab, Adam is an avid soccer fan and enjoys watching the English Premier League. Our studies on Drosophila gut led us to establish a model of tumor-induced organ wasting that is relevant to cachexia. 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. We now have available for screening: genome-wide RNAi libraries and subset RNAi libraries (Kinase/Phosphatase; Ubiquitination; Transmembrane proteins; Transcription factors; RNA-binding proteins; Autophagy-related proteins; G-protein coupled receptors; Membrane-bound organelles; and Orthologs of human proteins for which there are FDA-approved drugs); Overexpression libraries (UAS-ORFs); and reagents for both gain-of-function (UAS-miR) and loss-of-function (UAS-miR-sponges) miRNA screens. 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 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. 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. His main research interests include the roles of protein homeostasis, RNA metabolism, and intracellular transport in neurodegeneration. Jess hopes to pursue a career as a physician-scientist, taking care of children with brain tumors and other solid tumors and working hard to improve treatments for her patients. * Corresponding authors. CRISPR-generated mutant cell lines, in combination with RNAi, provide a robust platform for combinatorial screening. What are the general mechanism of the circadian clock to deal with genetic and/or environmental perturbations? Cramer P., Srebrow A., Kadener S., Werbajh S., de la Mata M., Melen G., Nogues G. and Kornblihtt AR. 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. Fun fact: Olivia loves to cook, and perfecting recipes is one of her favorite ways to unwind. 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. and Torres H.N. S Kadener, P Cramer, G Nogus, D Cazalla, M de la Mata, JP Fededa, . *, Bartok O. Among the next significant questions to address are how complex phenotypes arise in the context of the whole organism and how the programs regulating these phenotypes are influenced by genetic background and environment. 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. 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. Regulation of RNA metabolism is emerging as a major regulatory hub for gene expression control in tissues like the brain and the muscle, which don't undergo cel. Sebastian Kadener. Eric received his medical degree in 2016 and defended his PhD thesis in 2018. 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. J. Biol. 2018-10-18 DOI. Fun fact:In her free time, Marissa loves to go on bike rides, do yoga and walk her dog. Are circRNAs involved in neurodevelopmental and neurodegenerative diseases? . Im an undergraduate in the Class of 2023 majoring in Chemical Biology at Brandeis. Associate Professor, Brandeis University. High-accuracy determination of internal circadian time from a single blood sample. Elife 8. The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. Community support Reprint. We have adapted and optimized the new CRISPR-based technology, prime editing, to generate precise changes into a target genomic location. dsGFP, because of its short half-life, captures real-time signaling, while stable RFP labels cells in which signaling activity has occurred. How do circRNAs work at the molecular level? This dual reporter can be used in either fixed or live tissues to monitor spatio-temporal activity of signaling pathways at an unprecedented resolution. Explore trending content on Musk Viewer For doing this, we study the circadian clock from a systemic point of view, including studies at the molecular and neural levels. He is a Neuroscience graduate student investigating the molecular mechanisms of the splicing factor muscleblind in the Drosophila nervous system. Jess earned her PhD in Neuroscience working in the laboratory of Dr. Thomas Clandinin, utilizing the Drosophila visual system and forward genetics to study synapse development and axon degeneration. 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. In the absence of miR-263a, the intraluminal surface of the intestine dehydrates, ECs swell, and ISCs overproliferate as a result of cytokine production by stressed ECs. This plasticity is the result of the existence of very efficient input pathways that convey the external signals into the core oscillator machinery. Patop IL, Wst S, Kadener S. Craving for Introns. Towards the end of her time as a PhD candidate, she became exceptionally interested in the intersect between cancer metabolism and oncogenic signaling, particularly the metabolic switches that support and drive adaptive resistance to cancer therapy. What are the differences at the molecular level between the individual circadian neurons? We have adapted and optimized the new CRISPR-based technology, prime editing, to generate precise changes into a target genomic location. Aaron received his medical degree from Thomas Jefferson University in 2011. and Kornblihtt A.R. 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. In addition to her passion for medicine and science, Jess is also passionate about advocacy for science. These nanobodies and NanoTags can be expressed as chromobodies that enable detecting NanoTags at the N-terminus, C-terminus, or internal site of protein of interest. Adam then moved to Boston for his postdoc in the lab of Dr. Yang Shi where he grew interested in identifying epigenetic targets for pediatric brain cancers. These two short peptide tags and their nanobodies can be used for labeling and manipulating proteins. In a collaboration with Sebastian Kadeners 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. Studies from our lab and others have documented that many signaling pathways trigger stem cells to adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. In addition, these gRNA fly stock resources can be used for genome engineering of the promoter or coding regions. A polar mechanism coordinates different regions of alternative splicing within a single gene. News. 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. Molecular Neurobiology and RNA Metabolism Laboratory. Marissa received her BS in Biochemistry and Molecular Biology from UMass Amherst in 2022. There, she studied the oncogenic role of certain signaling molecules in the Hedgehog signaling pathway, and became extremely interested in advancing cancer therapy research. Mezan S., Ashwal-Fluss R., Shenhav R., Garber M. and Kadener S. Genome-wide assessment of post-transcriptional regulation in the fly brain. Dana joined the Bandopadhayay Lab in 2021 where is she working to apply single-cell methods to evaluate the heterogeneity of pediatric gliomas, and to understand spatial associations. Alexander M. van der Linden, Matthew Beverly, Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Piali Sengupta. Chem. Biol., The University of Buenos Aires, Buenos Aires, Argentina, Ph.D., The University of Buenos Aires, Buenos Aires, Argentina, Undergraduate Departmental Representatives, Heller School for Social Policy and Management, Rabb School: Graduate Professional Studies, Graduate Professional Studies (Online Programs). 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. Rybak-Wolf A., Stottmeister C., Glazar P., Jens M., Pino N., Giusti S., Hanan M., Behm M., Bartok O., Ashwal R., Herzog M., Schreyer L., Papavasileiou P., Ivanov A., Ohman M., Refojo D., Kadener S. and Rajewsky N. Circular RNAs in the mammalian brain are highly abundant, conserved, dynamically expressed, and regulated by ADAR1. Protocol. The latest Tweets from Kadener Lab (@kadenerlab): "https://t.co/VOExAyFxj9" Interestingly, JAK/STAT signaling in the muscle or fat body directly triggers the expression of ImpL2, which in turn impairs local insulin signaling and its associated energy balance. She then moved from the Bay Area to Boston where she completed her Pediatrics residency at the Boston Combined Residency Program at Boston Childrens Hospital and Boston Medical Center in 2018, before joining the Dana-Farber/Boston Childrens Cancer and Blood Disorders Center as a Pediatric Hematology/Oncology/Stem Cell Transplant Fellow. In the Bando Lab, Adam is studying how alterations in chromatin factors lead to pediatric gliomagenesis with the ultimate goal of discovering novel therapeutic approaches. Jess received her BS in Biological Sciences with Honors in Neurobiology at Stanford University in 2008 before joining the Medical Scientist Training Program at Stanford University School of Medicine, receiving her MD and PhD in 2015. We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. For his honors thesis, Sher characterized the role of the MAPK/ERK signaling modulator SPRY2 in regulating the transcriptome of the HL-60 Acute Myeloid Leukemia cell line. Thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell level. Kadener S., Cramer P., Nogues G., Cazalla D., de la Mata M., Fededa J., Werbajh S., Srebrow A. and Kornblihtt A. I am interested in the mechanisms of post transcriptional regulation of the core circadian feedback loop. 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. Stelzer Y., Bar S., Bartok O., Afik S., Ronen D., Kadener S.* and Benvenisty N.* Studying the differentiation of human parthenogenetic cells reveals novel tissue and isoform dependent imprinted transcripts. Clonally stable VK allelic choice instructs IgK repertoire. PANGEA: A New Gene Set Enrichment Tool for Drosophila and Common Research Organisms 10.1261/rna.068692.118 References. Fsica, Tcnico Sup. 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. Selected for Faculty of 1000 (Factor 3 Recommended). 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. Title. M.Sc., The University of Buenos Aires, Buenos Aires, Argentina Ph.D., The University of Buenos Aires, Buenos Aires, Argentina. In addition to ImpL2, we have also identified two additional factors produced from yki-gut tumors that contribute to tissue wasting: the Pvr receptor tyrosine kinase ligand Pvf1 and the IL6-like cytokine Unpaired 3 (Upd3). I am interested in studying circular RNA formation. Before joining the Bando Lab, John worked as a High Frequency Trader. Additionally, they study the role of circular RNAs (circRNAs) at the molecular and neural levels as well as the mechanisms underlying circadian clocks. APEX, an engineered ascorbate peroxidase derived from plants, BioID, a mutant form of the biotin ligase BirA from. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. As part of his bachelors program, he joined the group of Prof. Tony Kourzarides at the University of Cambridge in 2019 as a visiting undergraduate student to investigate the role and pharmacological inhibition of histone acetyl transferases in leukemia. Cs. BOX 39.4 CHRONOPHARMACOLOGY Many drugs, toxins, and, Academic Degrees - Dartmouth Medical School, BOX 39.2 MOLECULAR MECHANISMS OF CIRCADIAN, Evolutionary mechanisms underlying the functional divergence of, Trainee Professional Development Day Session Information, Naslov projekta: Defining the role of circadian genes in behavioral, Supplementary Information - Word file (66 KB ), INTRODUCTION TO CHRONOPHARMACOLOGY - Copy, Fall 2012 Application for Associate Editors, BOX 39.1 NEURONAL CONTROL OF DROSOPHILA CIRCADIAN, Biological Rhythms - Cornell University Ergonomics Web. How do circRNAs work at the molecular level? 178: Software. Feel free to send suggestions. 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). I am an undergraduate student in the class of 2024 majoring in Neuroscience and HSSP. Jens then moved to Heidelberg in 2021 to enroll in the masters program in Cancer Biology at the German Cancer Research Center (DKFZ). . Lerner I. Cold Spring Harbor Laboratory Online. 369. Biol., The University of Buenos Aires, Buenos Aires, Argentina, Ph.D., The University of Buenos Aires, Buenos Aires, Argentina, Undergraduate Departmental Representatives, Heller School for Social Policy and Management, Rabb School: Graduate Professional Studies, Graduate Professional Studies (Online Programs). Hu, Comjean, Attrill, Antonazzo, Jim Thurmond, Li, Chao, Mohr, Brown, Perrimon From a number of screens (receptome-wide RNAi screen, miRNA screens, etc. Fun fact: Anna is a gardening nerd on hold, as she does not have a garden in Boston. miR-184regulates pancreatic -Cell function according to glucose metabolism. *, Afik S., Menet J., Wolfson V., Weissbein U., Haimovich D., Gafni C., Friedman N., Rosbash M. and Kadener S. . SRA: Mus musculus; 1: GPL21103; GSE154616; TXT; SRA Run Selector; Sebastian Kadener: Sep 09, 2021 We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. 312. * Corresponding authors. This collection is available to the community through the Bloomington Drosophila Stock Center. From 2002 to 2008, Sebastian Kadener was a postdoc working in the Michael Rosbash laboratory. 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