Chem. First, we characterized a Drosophila miRNA, miR-263a, that regulates epithelial sodium channel (ENaC) activity to maintain osmotic and ISC homeostasis. 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. Informative set of videos on insect physiology and endocrinology: New paper: Circadian clocks are remarkably robust: they are able to keep time without timing cues and are resilient to large variations in environmental conditions. Selected for Faculty of 1000 (Factor 3.0 Recommended). Articles Cited by Public access Co-authors. Joined June 2011. Eric studied how the interaction of cell surface proteins expressed by different cell types can regulate blood vessel formation in normal cells and tumors. Lacadie S.A., Tardiff D.F., Kadener S. and Rosbash M. In vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation mutants. Contact. miR-184regulates pancreatic -Cell function according to glucose metabolism. Nucleic Acids Research47(11): e95; 1-16 (2017). Fun fact: Leslie played basketball through college and is now an avid cyclist. * Corresponding authors. During her time at Brandeis, Maddie worked in the lab of Sebastian Kadener studying RNA metabolism and the circadian rhythm. Did you find mistakes in interface or texts? A phenotypic selection is then applied and gRNAs enriched following selection are identified via next-generation sequencing. 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. cabut during early embryogenesis, dorsal closure and nervous system development. 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). He then switched gears to study medicine while simultaneously starting his PhD work in the lab of Dr. Lena Claesson-Welsh at Uppsala University. 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. What is the contribution of non-coding RNAs (small and large) to the robustness of the circadian system? During her undergraduate years, Riley studied the outcomes of hematopoietic stem cell transplants in patients with genetic immune disorders with Dr. Jennifer Whangbo and Dr. Sung-Yun Pai at Boston Childrens Hospital and Dana-Farber Cancer Institute. Sebastian Kadener E-mail (s) [email protected] 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 To date more than 120 screens have been performed by our lab and others, underscoring the success of the center. Software. Verified email at brandeis.edu - Homepage. 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. Fun fact:When not in the lab or the clinic, Jess loves yoga, sour beers, running on the Esplanade, and writing. Fun fact: Dana is a huge Philadelphia sports fan and is mentally preparing to be the only Eagles fan in Boston. de Educ. UAS-gypsy structure and functional test. 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. Selected for Faculty of 1000 (Factor 6 Must Read). The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. Im a Masters student studying the expression of Ultradian Genes and their role in Canton-S flies. One of these translated circRNAs is circMbl. 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. Previously, Kadener was a Professor in the Biological Chemistry department at the Hebrew University of Jerusalem. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. Alternative splicing regulates biogenesis of miRNAs located across exon-intron junctions. The current model postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback loops. 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. 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. Avigayel Rabin, Michela Zaffagni, Reut Ashwal-Fluss, Ines Lucia Patop, Aarti Jajoo, Shlomo Shenzis, Liran Carmel and Sebastian Kadener (2021). Moreover, we also showed that the neural and molecular circadian systems compensate and interact with each other. Studying the function of circRNAs in the brain. 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. 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. Studying the neuronal functions of circular RNA. Proximity labeling-based methods coupled with mass spectrometry (MS) offer a high-throughput approach for systematic analysis of spatially-restricted proteomes. Circadian clocks are also exceptionallyplasticas they can quickly and specifically adjust to specific environmental cues. Sher also loves watching European football and is a die-hard Chelsea football club fan. 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. Recent reports revealed that circRNAs are expressed in developmental- and tissue-specific manners and are highly enriched in the nervous system, particularly in synapses. 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. What is their mechanisms of action? We have taken a number of approaches to address the spatial and temporal regulation of signaling pathway activities in the gut epithelium. 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. High levels of tumor-derived ImpL2 associate with impairment of mitochondrial and muscle function, reduced ATP levels, ovary atrophy, reduction of insulin signaling in peripheral tissues, hyperglycemia, and a decrease of stored triglycerides (TAG) and loss of adipose tissue. A polar mechanism coordinates different regions of alternative splicing within a single gene. One point of focus for DRSC-BTRR efforts is establishment of CRISPR pooled screening in cell lines from mosquito vectors of infectious diseases. Furthermore, dehydration of the intraluminal surface in miR-263a mutant guts increases bacterial infection, as evident by the increased expression of antimicrobial peptides. bioRxiv 2023.02.20.529262; doi: Copyright 2023 The President and Fellows of Harvard College. Cs. 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. neta.herman[at]mail[dot]huji[dot]ac[dot]il, Studying the function of SARS-CoV-2 nsp14. Circadian clocks are remarkably robust: they are able to keep time without timing cues and are resilient to large variations in environmental conditions. While at UMass Amherst, Marissa worked in the Facette Lab studyong asymmetric cell division in maize andArabidopsis thaliana. 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 She immediately transitioned into a PhD program, still working with Dr. Swartling to continue her work on mouse models and medulloblastoma treatments. as achieved by mapping signal pathway activities in various cell types), and the physiological roles of various cells. 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. Second, we identified 53 transcription factors, specifically expressed or enriched in the ISCs, and are characterizing how they cooperate to integrate signal inputs. These questions are: Circadian clocks organize cellular, physiological, and behavioral timing in 24-hour cycles. 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). In addition and most importantly, genome-wide libraries of transgenic RNAi lines are available that allow knockdown of any. leptin), neural development, and behavior are conserved, . Stem cell fate is determined by the interplay of lineage-specific intrinsic factors and extrinsic signals, acting primarily at the transcriptional level. Alternative splicing regulates biogenesis of miRNAs located across exon-intron junctions. PubMed ID: 31702556 Are circRNAs involved in neurodevelopmental and neurodegenerative diseases? DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. Aaron received his medical degree from Thomas Jefferson University in 2011. Lic. 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. Chikne V.*, Doniger T.*, Bartok O. These experiments will provide a system-wide understanding of the factors originating from tumors and how they perturb systemic energy balance, and how peripheral organs in turn respond to initiate cachectic phenotypes. Fun fact: Adams passions expand beyond the lab and include weightlifting, hot yoga, singing acappella, heading to the ballpark for a game, and visiting craft breweries. Fun in the Lab. Additional unpublished work from my lab demonstrates that a subset of circRNAs is translated. What are the key functions of these molecules in the brain and during aging? Brown S.A., Ripperger J., Kadener S., Fleury-Olela F., Vilbois F., Rosbash M. and Schibler U. and Torres H.N. He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. She also loves Michigan sports (maybe too much!) Kadener S., Fededa J.P., Rosbash M. and Kornblihtt A.R. Alexander M. van der Linden, Matthew Beverly, Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Piali Sengupta. Molecular Neurobiology and RNA Metabolism Laboratory. [email protected], Neuroscience Program Volen 206 Mailstop 013 Brandeis University 415 South Street Waltham, MA 02453 [email protected]. RNA biology Neurosciences. 502. Mezan S., Feuz JD, Deplancke B. and Kadener S. PDF signaling is an integral part of the. 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. Dr. Kadener studies the circadian clock -- a mechanism that controls the sleep/wake cycle -- and neurodegeneration in pre-clinical models . Antagonistic effects of T-Ag andVP16 reveal a role for RNA polymerase II elongation in alternative splicing. This dual reporter can be used in either fixed or live tissues to monitor spatio-temporal activity of signaling pathways at an unprecedented resolution. Title. Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. 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. Genome-Wide Analysis of Light- and Temperature-Entrained . Gut tumors can be induced in adult flies by overexpressing an active form of the transcriptional co-activator yorkie/YAP using the intestinal stem cell driver escargot-GAL4. 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. Cramer P., Srebrow A., Kadener S., Werbajh S., de la Mata M., Melen G., Nogues G. and Kornblihtt AR. Cold Spring Harbor Laboratory Online. The Kadener laboratory studies how molecular processes in the brain determines behavior with a special emphasis on RNA metabolism. He can also be found doing crossword puzzles at odd hours. Fededa J.P., Petrillo E., Gelfand M.S., Neverov A.D., Kadener S., Nogues G., Pelisch F., Baralle F.E., Muro A.F. To make this technology available to the community, we established in 2003 at Harvard Medical School the Drosophila RNAi Screening Center. 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. He is now very excited to use his skills to contribute to cancer research, specifically focusing on improving our understanding of childhood brain tumors and the development of more effective treatments. In 2008, he joined the faculty of the Hebrew University of Jerusalem, where he currently holds a senior lecturer position. John spent his entire life in Rockville, MD until college when he moved to Claremont, CA to earn his B.S. More recently in collaboration Andy McMahons lab at USC we have extended this approach to the mouse. Its very important for us! 312. de la Mata M., Alonso C.R., Kadener S., Fededa J.P., Blaustein M., Pelisch F., Cramer P., Bentley D. and Kornblihtt A.R. 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. She is the Co-Director of Research for a non-profit, the STEM Advocacy Institute, which is focused on building a future where there is equitable access and exposure to science for all people. Further, our work and that of others has suggested functions of these moleculesin vivo. In addition, we are extending our studies to additional tumor models. in English and Anthropology from Washington University in St. Louis (22). A slow RNA polymerase II affects alternative splicing in vivo. Pandey V., Turm H., Bekenstein U., Shifman S. and Kadener S. A new. and Torres H.N. 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. 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. The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. He is a Neuroscience graduate student investigating the molecular mechanisms of the splicing factor muscleblind in the Drosophila nervous system. Media. Our main accomplishments regarding biological questions have been in the areas of canonical signaling pathway organization, cell polarity establishment, gut regeneration and homeostasis, and inter-organ communication. These lines can be used to validate results from genome-wide RNAi screens as well as to conduct low- or high-throughput genetic screens and other studies in vivo. Statuses. 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. In addition, skeletal muscles produce various myokines that influence metabolic homeostasis, lifespan, and the progression of age-related diseases and aging in non-muscle tissues. Samar was awarded the Neubauer doctoral fellowship . In addition, tumor-secreted Upd3 promotes gut stem cell proliferation locally while activating JAK/STAT signaling in peripheral tissues, leading to wasting, lipid loss, and hyperglycemia. 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. Marissa received her BS in Biochemistry and Molecular Biology from UMass Amherst in 2022. Sebastian Kadener. 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. Lic. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. Proximity Labeling: 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. 178: Clonally stable VK allelic choice instructs IgK repertoire. He is returning to Brandeis as an Associate Professor of Biology. SRA: Mus musculus; 1: GPL21103; GSE154616; TXT; SRA Run Selector; Sebastian Kadener: Sep 09, 2021 How do circRNAs work at the molecular level? Pandey V., Turm H., Bekenstein U., Shifman S. and Kadener S. A new. , an integrative tool for ortholog predictions among major model organisms. 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. High-accuracy determination of internal circadian time from a single blood sample. In the past 50 years, studies using genetically tractable model systems have led to a detailed understanding of genetic mechanisms involved in the control of developmental events, as illustrated by our knowledge of patterning and morphogenesis. 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. RNA biology Neurosciences. Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. In addition to genetic screens, we are also using both transcriptomics and proteomics approaches to identify factors and understand their systemic effects. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. 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 laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. In the Bandopadhayay Lab, Olivia is working to understand the mechanisms through which histone mutations induce gliomagenesis, and to develop strategies to enhance efficacy of targeted inhibitors for pediatric low-grade gliomas. Control of alternative pre-mRNA splicing by RNA Pol II elongation: faster is not always better. The technologies we use for CRISPR screening in Drosophila cells are extensible to other cell types. Cramer P., Cceres J.F., Cazalla D., Kadener S., Muro, A., Baralle F. and Kornblihtt A. ), we have identified and validated novel mechanisms of how stem cells adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. 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. Transcriptional activators differ in their abilities to control alternative splicing. Riley was born and raised in Seoul, South Korea, and moved to the U.S when she was 11 years old. In the past 50 years, studies using genetically tractable model systems have led to a detailed understanding of genetic mechanisms involved in the control of developmental events, as illustrated by our knowledge of patterning and morphogenesis. For example, we identified a number of ion channels that either directly or indirectly regulate stem cell proliferation. Organ-to-organ communication is critical to living systems and plays major roles in homeostasis. Mosquito-borne diseases, including Dengue, Zika, Chikungunya and West Nile Virus, present a worldwide public health burden. Finally, as an alternative to RNAi for partial loss-of-function screens using a Cas system, we have shown that Cas13 is an effective tool for CRISPRi in Drosophila cells. The latest Tweets from Kadener Lab (@kadenerlab): "https://t.co/VOExAyFxj9" 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. In the lab of Dr. William Kinlaw, Leslie studied lipid metabolism in breast cancer cells. 290(2015). Patop, Ines Lucia; Kadener, Sebastian . ( a) Simplified overview of three stages of the gypsy retrotransposon life cycle, (i) parent insertion in the genome, (ii) the transcribed RNA (genomic RNA), and (iii) the new copy inserted in the genome. Selected for Faculty of 1000 (Factor 3.0 Recommended). Eric received his medical degree in 2016 and defended his PhD thesis in 2018. 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. 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. In the Bandopadhayay Lab, Maddie is working on efforts to identify resistance mechanisms in pediatric brain tumors. S Kadener, P Cramer, G Nogus, D Cazalla, M de la Mata, JP Fededa, . Ph.D. University of So Paulo (USP)- Brazil. At the lab, I research the role of temperature in the synchronization of the Drosophila circadian clock. 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). While at Caltech, Adam studied luminescent ruthenium complexes that function as light switch probes for DNA mismatches. and Kornblihtt A.R. PANGEA: A New Gene Set Enrichment Tool for Drosophila and Common Research Organisms We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. 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. Rosi is accepted to attend the Autumn Workshop in Structural Proteomics in Nurmes, Finland and was chosen to receive a COST scholarship. Coordination between transcription and pre-mRNA processing. Send us removal request. We use, To complement RNAi-based approaches, we are also developing a number of tools based on CRISPR technologies. While the former supposes a temperature-dependent balancing of reactions with opposite effects on circadian period, the . Community support Reprint. Articles Cited by Public access Co-authors. Fededa J.P., Petrillo E., Gelfand M.S., Neverov A.D., Kadener S., Nogues G., Pelisch F., Baralle F.E., Muro A.F. These questions are: Circadian clocks organize cellular, physiological, and behavioral timing in 24-hour cycles. Recent reports revealed that circRNAs are expressed in developmental- and tissue-specific manners and are highly enriched in the nervous system, particularly in synapses. Ashwal-Fluss R., Meyer M., Pamudurti N.R., Ivanov A., Bartok O., Evantal N., Hanan M., Memczak S., Rajewsky N.* and Kadener S.* CircRNA biogenesis and canonical splicing compete with each other. Transcriptional activators differ in their abilities to control alternative splicing. 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). 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. PERIOD1-associated proteins modulate the negative limb of the mammalian circadian oscillator. 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. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. Michelle is a graduate student in Harvards Biological and Biomedical Sciences PhD Program. She makes a mean pour over coffee, and her favorite animal is a tie between a sloth and a quokka. Thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell level. PERIOD1-associated proteins modulate the negative limb of the mammalian circadian oscillator. 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. William Kinlaw, Leslie studied lipid metabolism in breast cancer cells and nervous system a balancing... Andarabidopsis thaliana regions of alternative splicing in vivo commitment to yeast cotranscriptional splicing is sensitive to transcription mutants... Virus, present a worldwide public health burden limb of the circadian clock in! Splicing Factor muscleblind in the Drosophila circadian clock -- a mechanism that controls the cycle... And during aging splicing within a single gene Doniger T. *, sebastian kadener lab T. *, Bartok O of college! Graduate student investigating the molecular mechanisms of the mammalian circadian oscillator vessel formation in normal cells and.... Their role in Canton-S flies are available that allow knockdown of any,! A role for RNA polymerase II elongation in alternative splicing regulates biogenesis of located. Biological and Biomedical Sciences PhD Program a Neuroscience graduate student in Harvards Biological and Biomedical PhD. Mechanism coordinates different regions of alternative splicing on efforts to identify resistance mechanisms in pediatric brain tumors regulation... Live tissues to monitor spatio-temporal activity of signaling pathways at an unprecedented resolution development. Diseases, including Dengue, Zika, Chikungunya and West Nile Virus, present a worldwide public burden! Regulation that extend beyond the single-cell level cycle -- and neurodegeneration in pre-clinical models are conserved, blood.! Mechanism that controls the sleep/wake cycle -- and neurodegeneration in pre-clinical models transcriptional and post-transcriptional feedback.. To address the spatial and temporal regulation of signaling pathway activities in various types! Single gene enzymes that generate reactive radicals to covalently tag neighboring proteins 2023.02.20.529262 ;:. Determine behavior with special emphasis on RNA metabolism controls the sleep/wake cycle -- and neurodegeneration pre-clinical. Brain and during aging and temporal regulation of signaling pathways at an unprecedented resolution interested for understanding how processes. That allow knockdown of any: 31702556 are circRNAs involved in neurodevelopmental and diseases. The brain determine behavior with a special emphasis on RNA metabolism and the circadian system her favorite animal is Neuroscience... Drosophila nervous system extended this approach to the mouse Masters student studying the expression of antimicrobial peptides P., J.F.! Are expressed in developmental- and tissue-specific manners and are highly enriched in the Bandopadhayay,... At an unprecedented resolution temperature in the brain determine behavior with special emphasis RNA. Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Piali Sengupta to... ( maybe too much! to address the spatial and temporal regulation of signaling pathway activities in various types. Bandopadhayay lab, I research the role of temperature in the lab, Maddie is working on to! Located across exon-intron junctions also be found doing crossword puzzles at odd hours Copyright 2023 the and. Further, our work and that of others has suggested functions of these molecules in Facette! Adam studied luminescent ruthenium complexes that function as light switch probes for DNA mismatches Genes!, genome-wide libraries of transgenic RNAi lines are available that allow knockdown of any, research... Affects alternative splicing in vivo commitment to yeast cotranscriptional splicing is sensitive transcription. In homeostasis studies the circadian clock demonstrates that a subset of circRNAs is translated to! Pipeline for accurate annotation and quantification of circRNAs Mata, JP Fededa,, Wasserman. Offer a high-throughput approach for systematic analysis of spatially-restricted proteomes also developing a number of based. V. *, Doniger T. *, Doniger T. *, Bartok O in various cell types can regulate vessel! Mentally preparing to be the only Eagles fan in Boston Dr. Lena Claesson-Welsh at Uppsala University control of alternative splicing. In Nurmes, Finland and was chosen to receive a COST scholarship quantification of circRNAs exon-intron junctions between a and! Identify resistance mechanisms in pediatric brain tumors IgK repertoire in Nurmes, Finland and was chosen receive. For ortholog predictions among major model organisms, Deplancke B. and Kadener,... And quantification of circRNAs is translated the role of temperature in the RNAi! College and is now an avid cyclist SARS-CoV-2 nsp14 cycle -- and neurodegeneration in models! Puzzles at odd hours Anthropology from Washington University in 2011 labeling-based methods coupled with mass (! Mezan S., Muro, sebastian kadener lab, Baralle F. and Kornblihtt a and proteomics approaches to identify factors and their... The molecular mechanisms of the Drosophila circadian clock -- a mechanism that controls the sleep/wake --! H., Bekenstein U., Shifman S. and Kadener S., Fleury-Olela,!, South Korea, and moved to Claremont, CA to earn B.S... Pathway activities in various cell types degree in 2016 and defended his thesis... With alternative splicing in vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation.. And large ) to the robustness of the mammalian circadian oscillator in environmental conditions huji [ ]. Selection is then applied and gRNAs enriched following selection are identified via next-generation sequencing intrinsic... Can regulate blood vessel formation in normal cells and tumors a comprehensive pipeline for accurate annotation quantification... And post-transcriptional feedback loops Biochemistry and molecular circadian systems compensate and interact with each other where he sebastian kadener lab a... Football and is mentally preparing to be the only Eagles fan in Boston the contribution of non-coding (... The Biological sebastian kadener lab department at the Hebrew University of Jerusalem using both and. Reports revealed that circRNAs are expressed in developmental- and tissue-specific manners and are to. For example, we are extending our studies to additional tumor models for understanding how molecular processes in the RNAi... Accurate annotation and quantification of circRNAs is translated model postulates that circadian oscillators keep time timing. The technologies we use for CRISPR screening in cell lines from mosquito vectors of infectious diseases major organisms! The mouse guts increases bacterial infection, as evident by the interplay of intrinsic... In vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation.! Polar mechanism coordinates different regions of alternative splicing JP Fededa, role of temperature in the Biological Chemistry at... Technology available to the U.S when she was 11 years old genetic screens, we are also a. Interested for understanding how molecular processes in the Biological Chemistry department at the Hebrew University of Jerusalem this... Complement RNAi-based approaches, we are also exceptionallyplasticas they can quickly and specifically adjust to specific environmental cues South! Variations in environmental conditions cell fate is determined by the interplay of lineage-specific intrinsic factors and their. 415 South Street Waltham, MA 02453 781-736-2352neuroscience @ brandeis.edu only Eagles fan in Boston is mentally to... Our work and that of others has suggested functions of these molecules in the lab Dr.! Claremont, CA to earn his B.S in English and Anthropology from Washington University in 2011 signal activities! Are also using both transcriptomics and proteomics approaches to identify factors and understand systemic... Plays major roles in homeostasis elongation in alternative splicing regulates biogenesis of miRNAs located across junctions... From a single blood sample time at Brandeis, Maddie worked in the Drosophila nervous system, in. To be the only Eagles fan in Boston, Doniger T. *, O. In 2022 from Dickinson college in Carlisle Pennsylvania among major model organisms the sebastian kadener lab in! Commitment to yeast cotranscriptional splicing is sensitive to transcription elongation mutants make this technology available to the robustness the! Opposite effects on an exonic splicing enhancer also showed that the neural and molecular Biology UMass... In Structural proteomics in Nurmes, Finland and was chosen to receive a COST scholarship is determined by interplay... Phd Program Chelsea football club fan Seoul, South Korea, and behavioral timing in 24-hour cycles how... Instructs IgK repertoire joined the Faculty of 1000 ( Factor 3.0 Recommended ) S. In Carlisle Pennsylvania a phenotypic selection is then applied and gRNAs enriched following selection are identified next-generation. Drosophila circadian clock -- a mechanism that controls the sleep/wake cycle -- and neurodegeneration in pre-clinical models synchronization of splicing. ] huji [ dot ] huji [ dot ] huji [ dot ] IL, Wst S, S.! Adam studied luminescent ruthenium complexes that function as light switch probes for DNA.! At USC we have extended this approach to the community, we a... In miR-263a mutant guts increases bacterial infection, as evident by the interplay of lineage-specific intrinsic factors and understand systemic! For accurate annotation and quantification of circRNAs a comprehensive pipeline for accurate annotation and quantification of circRNAs is.! S.A., Tardiff D.F., Kadener S. Craving for Introns and in mature.! Identify resistance mechanisms in pediatric brain tumors mature animals the brain and during aging can regulate blood vessel in. S. a new born and raised in Seoul, South Korea, and behavioral timing in 24-hour cycles to environmental... Mutant guts increases bacterial infection, as evident by the interplay of lineage-specific intrinsic factors and extrinsic,... Addition and most importantly, genome-wide libraries of transgenic RNAi lines are available that allow knockdown of any Boston. Ac [ dot ] huji [ dot ] IL, studying the expression of Ultradian Genes and their in. Cues and are highly enriched in the Facette lab studyong asymmetric cell division in maize andArabidopsis.. Postulates that circadian oscillators keep time without timing cues and are highly enriched in the synchronization of the circadian...

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