Chen TC, Tallo-Parra M, Cao QM, Kadener S, Bttcher R, Prez-Vilar G, Boonchuen P, Somboonwiwat K, Dez J, Sarnow P. A lncRNA survey finds increases in neuroprotective LINC-PINT in Parkinson's disease substantia nigra. Alternative splicing regulates biogenesis of miRNAs located across exon-intron junctions. He plans to continue his career as a physician-scientist in pediatric oncology. These tools, which are available via. * Corresponding authors. RNAseq of specific organs and more recently, whole-body snRNAseq, allow us to define the transcriptional signatures corresponding to homeostatic states, various stress conditions, and changes to the diet and environment. 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. Jens is co-mentored by Dr. David Jones at the DKFZ. Third, we found that the stretch activated calcium channel Piezzo regulates ISC proliferation and differentiation. Sebastian Kadener. We use Drosophila as a model system to characterize the mechanisms underlying communication between cells, tissues, and organs. J. Biol. Dec 2017. Second, we identified 53 transcription factors, specifically expressed or enriched in the ISCs, and are characterizing how they cooperate to integrate signal inputs. CRISPR-generated mutant cell lines, in combination with RNAi, provide a robust platform for combinatorial screening. More. Rosenstiel332781-736-4915skadener@brandeis.edu, Department of Biology Volen 206MS 008 Brandeis University 415 South Street Waltham, MA 02453. cabut during early embryogenesis, dorsal closure and nervous system development. I am researching the role of circular RNAs (circRNAs) in aging processes in Drosophila melanogaster. Or do you know how to improve StudyLib UI? 1 / 3 Looking for Postdoctoral researchers 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. Furthermore, dehydration of the intraluminal surface in miR-263a mutant guts increases bacterial infection, as evident by the increased expression of antimicrobial peptides. Selected for Faculty of 1000 (Factor 6 Must Read). I am interested in understanding how proteins and miRNAs regulate and can be regulated by circRNAs. Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. 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. Nucleic Acids Research47(11): e95; 1-16 (2017). . What are the differences at the molecular level between the individual circadian neurons? Fun fact: Outside the lab, Adam is an avid soccer fan and enjoys watching the English Premier League. 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. 502. 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. for mining and comparison of single-cell RNA-seq data across species. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. Cramer P., Cceres J.F., Cazalla D., Kadener S., Muro, A., Baralle F. and Kornblihtt A. Molecular Neurobiology and RNA metabolism. What is their mechanisms of action? In the Bandopadhay Lab, Marissa is working to study drivers of Diffuse Midline Gliomas, including the mechanisms through which MYC isoforms are activated. dsGFP, because of its short half-life, captures real-time signaling, while stable RFP labels cells in which signaling activity has occurred. and Torres H.N. 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. We have adapted and optimized the new CRISPR-based technology, prime editing, to generate precise changes into a target genomic location. 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. In his spare time, Eric enjoys any combination of the three Bs: Boardgames, Beer and Broncos (Denver). 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. Sebastian Kadener. 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. 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. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. Coordination between transcription and pre-mRNA processing. You can add this document to your study collection(s), You can add this document to your saved list. Cramer P., Srebrow A., Kadener S., Werbajh S., de la Mata M., Melen G., Nogues G. and Kornblihtt AR. Weiss R., Bartok O., Mezan S., Malka Y and Kadener S. Synergistic Interactions between the Molecular and Neuronal Circadian Networks Drive Behavioral Circadian Rhythms in. Ines Patop. Kadener S., Cramer P., Nogues G., Cazalla D., de la Mata M., Fededa J., Werbajh S., Srebrow A. and Kornblihtt A. 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. Cohen-Hadad Y., Altarescu G., Eldar-Geva T., Levi-Lahad E., Zhang M., Rogaeva, E. Gotkine M., Bartok O., Ashwal-Fluss R., Kadener S., Epsztejn-Litman S., Eiges R. Marked differences in C9orf72 methylation status and isoform expression between C9/ALS human embryonic and induced pluripotent stem cells. Ph.D. University of So Paulo (USP)- Brazil. General Biology Laboratory [ sn wi ] T 12:20 PM-5:00 PM Shapiro Science: 010 T,F 8:00 AM-9:20 AM . Kadener S., Cramer P., Nogues G., Cazalla D., de la Mata M., Fededa J., Werbajh S., Srebrow A. and Kornblihtt A. We have taken a number of approaches to address the spatial and temporal regulation of signaling pathway activities in the gut epithelium. Building on the completion of the Drosophila genome sequence, we established a platform for performing arrayed RNAi screens in cell culture to interrogate the function of nearly all fly genes using a wide variety of assays. Adam is currently studying approaches to therapeutically target cancers that harbor mutations in the Mismatch Repair pathway. Fun fact: Olivia loves to cook, and perfecting recipes is one of her favorite ways to unwind. I am an undergraduate student in the class of 2024 majoring in Neuroscience and HSSP. Advantages of CRISPRi as compared with RNAi are that the level of knockdown can be more tightly controlled and the system appears to have reduced off-target effects. In addition, we are extending our studies to additional tumor models. 2018-10-18 DOI. I am analyzing the effect of circRNA on aging in Drosophila, majoring in biochemistry and neuroscience. These two short peptide tags and their nanobodies can be used for labeling and manipulating proteins. April joined the Bandopadhayay Lab in 2023 and is working on understanding the mechanisms and relationships of driver mutations commonly found in pediatric brain tumors in the hopes of developing new therapeutic strategies for these tumors. 290(2015). Control of alternative pre-mRNA splicing by RNA Pol II elongation: faster is not always better. This dual reporter can be used in either fixed or live tissues to monitor spatio-temporal activity of signaling pathways at an unprecedented resolution. Genome-Wide Analysis of Light- and Temperature-Entrained . 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. Olivia received her B.A. Fsica, Tcnico Sup. 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. 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. 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. 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. Sher also loves watching European football and is a die-hard Chelsea football club fan. 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. In addition, recently we generated the first set of animals in which specific circRNAs are downregulated. Contact the author . Adam grew up in Ethiopia and moved to Bremen, Germany where he received his B.Sc and M.Sci in Biochemistry and Cell Biology from Jacobs University which was his very first exposure to the exciting field of epigenetics. 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. Further, our work and that of others has suggested functions of these moleculesin vivo. 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. Selected for Faculty of 1000 (Factor 3 Recommended). 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. The current model postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback loops. S Kadener, P Cramer, G Nogus, D Cazalla, M de la Mata, JP Fededa, . Selected for Faculty of 1000 (Factor 3 Recommended). Lic. A slow RNA polymerase II affects alternative splicing in vivo. What are the general mechanism of the circadian clock to deal with genetic and/or environmental perturbations? * Corresponding authors. Alternative splicing regulates biogenesis of miRNAs located across exon-intron junctions. Our Funds. Sebastian Kadener's lab | Brandeis University Overview Advance your research members publications research projects Featured research (2) Using Drosophila to uncover molecular and. 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). The Kadener laboratory studies how molecular processes in the brain determines behavior with a special emphasis on RNA metabolism. In response to tissue damage reagents such as paraquat and bleomycin, TrpA1 mediates calcium influx, which in turn activates Ras/MAPK pathway and induces stem cell proliferation. To make this technology available to the community, we established in 2003 at Harvard Medical School the Drosophila RNAi Screening Center. *, Eliaz D.*, Cohen Chalamish S., Tschudi C., Unger R., Hashem Y., Kadener S. and Michaeli S. Pseudouridylation in. Fun fact: Maddie is a multimedia artist and during quarantine, Maddie collaged all of the wooden furniture in her apartment. Gene Expression Omnibus (GEO) is a database repository of high throughput gene expression data and hybridization arrays, chips, microarrays. 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. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. Fun fact: Anna is a gardening nerd on hold, as she does not have a garden in Boston. S Kadener, P Cramer, G Nogus, D Cazalla, M de la Mata, JP Fededa, . . Fun fact:When not in the lab or the clinic, Jess loves yoga, sour beers, running on the Esplanade, and writing. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Adam received his BS with honors in chemistry from Trinity College (12), where he worked in the lab of Dr. Tim Curran exploring the coordination of tungsten to diphenylacetylene -turn peptidomimetics. View 129 related references Ask authors/readers for more resources. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Send us removal request. My diverse. He is also contributing to efforts to characterize chromatin complexes as therapeutic targets for pediatric brain tumors. 178: Statuses. 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. 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. 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 Stem cell fate is determined by the interplay of lineage-specific intrinsic factors and extrinsic signals, acting primarily at the transcriptional level. Im working on aging-related circRNA knockdown fly behavior and physiology. Marissa received her BS in Biochemistry and Molecular Biology from UMass Amherst in 2022. 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. He is a Neuroscience graduate student investigating the molecular mechanisms of the splicing factor muscleblind in the Drosophila nervous system. Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. For example, we showed that circRNA biogenesis competes with canonical splicing, showing that circRNAs can function incisas RNA traps. High-accuracy determination of internal circadian time from a single blood sample. Selected for Faculty of 1000 (Factor 3.0 Recommended). A defining property of circadian clocks is temperature compensation, characterized by the resilience of circadian free-running periods against changes in environmental temperature. 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. Ph.D. University of So Paulo ( USP ) - Brazil affects alternative splicing by a transcriptional through! To coordinate proliferation and differentiation to form tissues and organs the new CRISPR-based technology, prime,. To characterize the mechanisms underlying communication between cells, tissues, and perfecting recipes is one of her ways! Continue his career as a model system to characterize the mechanisms underlying communication between cells,,... Of these moleculesin vivo circRNA knockdown fly behavior and physiology PM-5:00 PM Shapiro Science: 010,... And optimized the new CRISPR-based technology, prime editing, to generate precise into! T 12:20 PM-5:00 PM Shapiro Science: 010 T, F 8:00 AM-9:20 am Adam an. 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