sebastian kadener lab
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. Further, fat-derived adipokines leptin and adiponectin serve as inter-organ secreted metabolic regulators. Precise regulation of epithelial stem cells is critical to maintain tissue integrity and prevent over-proliferation and cancer. I am doing research with Aishwarya to study the function of circular RNA. High-accuracy determination of internal circadian time from a single blood sample. 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. Transcriptional activators differ in their abilities to control alternative splicing. As miR-183, the human ortholog of miR-263a, also regulates ENaC, our findings suggest miR-183 might be used as a treatment for CF. 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. Selected for Faculty of 1000 (Factor 3 Recommended). Mosquito cell lines exist that are able to become infected with viruses and are susceptible to mosquitocidal toxins, parasites, and drugs, but tools to allow deeper understanding of pathogen interactions with mosquito cells are lacking. Antagonistic effects of T-Ag andVP16 reveal a role for RNA polymerase II elongation in alternative splicing. Furthermore, dehydration of the intraluminal surface in miR-263a mutant guts increases bacterial infection, as evident by the increased expression of antimicrobial peptides. Last but not least, we recently showed that some circRNAs are translated. Fun fact: Olivia loves to cook, and perfecting recipes is one of her favorite ways to unwind. We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. Chikne V.*, Doniger T.*, Bartok O. 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. Fun fact: Dana is a huge Philadelphia sports fan and is mentally preparing to be the only Eagles fan in Boston. We have taken a number of approaches to address the spatial and temporal regulation of signaling pathway activities in the gut epithelium. In the Bandopadhayay Lab, Leslie has been able to combine her background in cancer cell metabolism with genomic, transcriptomic and gene editing approaches to understand the biology of pediatric brain tumors and elucidate mechanisms of resistance to targeted therapies such as BET-bromodomain inhibition. Joined June 2011. Boston, MA. Jens is co-mentored by Dr. David Jones at the DKFZ. 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. 10.1261/rna.068692.118 References. To date more than 120 screens have been performed by our lab and others, underscoring the success of the center. What are the neural and molecular basis of temperature adaptation and compensation? For example, we showed that circRNA biogenesis competes with canonical splicing, showing that circRNAs can function incisas RNA traps. More. J. Biol. We are now using this tool to establish sensors of each signaling pathway involved in gut homeostasis, and will use these reagents to examine pathway crosstalk. What are the general mechanism of the circadian clock to deal with genetic and/or environmental perturbations? Title. 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. Are circRNAs involved in neurodevelopmental and neurodegenerative diseases? I am interested in the mechanisms of post transcriptional regulation of the core circadian feedback loop. de Educ. Explore tweets Explore followers Explore following. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. 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. While at Caltech, Adam studied luminescent ruthenium complexes that function as light switch probes for DNA mismatches. Strikingly, these phenotypes are reminiscent of the pathophysiology of cystic fibrosis (CF), as in CF the non-functional CF transmembrane conductance regulator (CFTR) increases ENaC activity resulting in chronic dehydration of the intraluminal surface liquid in organs such as kidney, colon, lung and sweat glands. Fun in the Lab. Hanan M., Soreq H. and Kadener S. CircRNAs in the brain. 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. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. Adam is currently studying approaches to therapeutically target cancers that harbor mutations in the Mismatch Repair pathway. Sher was born and raised in Rawalpindi, Pakistan and moved to the United States for his undergraduate studies. Our Funds. Circadian clocks are also exceptionallyplasticas they can quickly and specifically adjust to specific environmental cues. as achieved by mapping signal pathway activities in various cell types), and the physiological roles of various cells. Second, we identified 53 transcription factors, specifically expressed or enriched in the ISCs, and are characterizing how they cooperate to integrate signal inputs. The current model postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback loops. at USC we have extended this approach to the mouse. Eric received his MS in biomedicine from Uppsala University, Sweden in 2010. With this advance, we hope to enable the mosquito community to easily perform genome-wide loss- or gain-of-function screens in cells, for example to discover entry and infection mechanisms of pathogens and drugs, as well as to aid in the functional annotation of mosquito genomes. 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). bioRxiv 2023.02.20.529262; doi: Copyright 2023 The President and Fellows of Harvard College. We showed that miRNAs have a key role in providing robustness to the circadian system both during development and in adults. I am interested in understanding how proteins and miRNAs regulate and can be regulated by circRNAs. My diverse. Hu, Comjean, Attrill, Antonazzo, Jim Thurmond, Li, Chao, Mohr, Brown, Perrimon *, Bartok O. We continue to evaluate and create new methods for genome engineering. Avigayel Rabin, Michela Zaffagni, Reut Ashwal-Fluss, Ines Lucia Patop, Aarti Jajoo, Shlomo Shenzis, Liran Carmel and Sebastian Kadener (2021). 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. 312. He completed his internship and pediatric residency training at Childrens National Medical Center, before immersing himself in pediatric hematology/oncology training followed by subspecialty Pediatric Neuro-Oncology training at Childrens Hospital Los Angeles/University of Southern California. M.Sc., The University of Buenos Aires, Buenos Aires, Argentina Ph.D., The University of Buenos Aires, Buenos Aires, Argentina. Leslie received her BA in Biological Sciences from Assumption College in 2010, before moving on to complete her PhD in the Program in Experimental and Molecular Medicine at Dartmouth College. 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. 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. 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. 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. In addition, we are extending our studies to additional tumor models. In the Bandopadhayay Lab, Anna will be expanding her skills to apply genomic approaches to understand the mechanisms through which gliomas develop, and to develop strategies to overcome therapeutic resistance. Sebastian Kadener. Hanan M., Soreq H. and Kadener S. CircRNAs in the brain. During her time at Brandeis, Maddie worked in the lab of Sebastian Kadener studying RNA metabolism and the circadian rhythm. Further, our work and that of others has suggested functions of these moleculesin vivo. We are now adapting the pooled-format CRISPR screening approach for use in cell lines from medically relevant mosquito species. 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. DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. Zaffagni M, Kadener S. NEAT1 is overexpressed in Parkinson's disease substantia nigra and confers drug-inducible neuroprotection from oxidative stress. Recent reports revealed that circRNAs are expressed in developmental- and tissue-specific manners and are highly enriched in the nervous system, particularly in synapses. Statuses. Studying transcription, chromatin and gene expresion in the brain. We use Drosophila as a model system to characterize the mechanisms underlying communication between cells, tissues, and organs. 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. 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. 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. Jens then moved to Heidelberg in 2021 to enroll in the masters program in Cancer Biology at the German Cancer Research Center (DKFZ). . View 129 related references Ask authors/readers for more resources. Contact the author . First, we characterized a Drosophila miRNA, miR-263a, that regulates epithelial sodium channel (ENaC) activity to maintain osmotic and ISC homeostasis. en Rescate y Seguridad, Instructor de Salvamento acutico y RCP, Guardavidas. 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. 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. Andranik Ivanov and Sebastian Meczmack (Prof. Rajewsky's . Additionally, many of the mechanisms by which growth factortriggered signaling events intersect with cell metabolism, which is regulated by nutrients, hormones and stress, remain to be identified. CircRNAs expression levels are not correlated with the expression of their linear isoforms, indicating a potentially widespread layer of previously unknown gene regulation. 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. We chose to use peripheral blood monocytes as source material for gene expression profiling, because (a) blood is an easily accessible source of human cells and (b) monocytes constitute a homogenous blood cell population and have been shown to possess a high-amplitude circadian clock ( 24, 25) in contrast to other PBMCs, such as B or T cells. In the Bandopadhayay Lab, Michelle is interested in using computational efforts to better characterize pediatric brain tumors. She received her BA in Molecular and Cell Biology from the University of California, Berkeley in 2019. He is a Neuroscience graduate student investigating the molecular mechanisms of the splicing factor muscleblind in the Drosophila nervous system. . and Torres H.N. Its very important for us! and Kornblihtt A.R. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. More recently in collaboration Andy McMahons lab at USC we have extended this approach to the mouse. 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. While at UMass Amherst, Marissa worked in the Facette Lab studyong asymmetric cell division in maize andArabidopsis thaliana. Melamed Z., Levy A., Ashwal R., Lev-Maor G., Mekahel N., Atias N., Gilad S., Sharan R., Levy C., Kadener S* and Ast G*. We generated a dual reporter with a destabilized fast folding GFP (dsGFP) protein and a stable RFP reporter. 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. Did you find mistakes in interface or texts? Coordination between transcription and pre-mRNA processing. Nogues G., Kadener S., Cramer P., Bentley D. and Kornblihtt A.R. B.S., University of Barcelona, Spain Ph.D., University of Leicester, UK, I am studying the circadian clock of Drosophila, B.S. What are the key functions of these molecules in the brain and during aging? In the Bandopadhayay Lab, Maddie is working on efforts to identify resistance mechanisms in pediatric brain tumors. Over the years, we have added a number of screening reagents and developed bioinformatics tools to improve the platform. 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. UAS-gypsy structure and functional test. 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. Our major contributions to tool development are the Gal4-UAS system, FLP-FRT germline clone technique, in vitro and in vivo genome-wide RNAi and CRISPR screening platforms and resources, and in vivo proximity labeling methods. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. Is the category for this document correct. Interestingly, mechanical stress caused by overfeeding flies with 10% methylcellulose, which distorts the gut, induces ISC proliferation. NanoTags: One of the key reagents to understand protein expression and function are antibodies. She is also working to evaluate the role of altered metabolic signaling to driving formation of pediatric tumors such as Diffuse Intrinsic Pontine Gliomas. 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. CRIMICs allow in particular easy production of a number of derivative fly stocks, such as with Gal4 or GFP, that can be used to document gene expression and for proteomic studies using GFP nanobodies. 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. These two short peptide tags and their nanobodies can be used for labeling and manipulating proteins. 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. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. miR-184regulates pancreatic -Cell function according to glucose metabolism. Kadener, Sebastian / Brandeis University Publications. ), we have identified and validated novel mechanisms of how stem cells adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. 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. 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. She immediately transitioned into a PhD program, still working with Dr. Swartling to continue her work on mouse models and medulloblastoma treatments. Third, more recently we used single-cell RNAseq (scRNAseq) to describe all the cell types and their transcriptomes in the Drosophila gut. 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. She also loves sleeping in, making guacamole, and reading about art history. This plasticity is the result of the existence of very efficient input pathways that convey the external signals into the core oscillator machinery. Eric joined the Bandopadhayay Lab in 2020 where he is working to characterize driver mutations found in pediatric brain tumors and developing new approaches to treat these children with targeted therapies. . 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. Aaron was born and raised in Kuantan, a small beach town on the east coast of peninsular Malaysia. In October 2021, Anna defended her PhD thesis (and Mimi had the honor of being her faculty opponent!!). 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. Feel free to send suggestions. 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. 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. Biogenesis and functions of circular RNAs. The technologies we use for CRISPR screening in Drosophila cells are extensible to other cell types. He went to college in Malaysia before moving to Philadelphia. de la Mata M., Alonso C.R., Kadener S., Fededa J.P., Blaustein M., Pelisch F., Cramer P., Bentley D. and Kornblihtt A.R. Cramer P., Srebrow A., Kadener S., Werbajh S., de la Mata M., Melen G., Nogues G. and Kornblihtt AR. I am analyzing the effect of circRNA on aging in Drosophila, majoring in biochemistry and neuroscience. Our most popular tools are: DIOPT, an integrative tool for ortholog predictions among major model organisms. Selected for Faculty of 1000 (Factor 9 Exceptional). . Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Fun fact:Almost all of Johns socks are Christmas themed! Selected for Faculty of 1000 (Factor 3.0 Recommended). He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. Media. Melamed Z., Levy A., Ashwal R., Lev-Maor G., Mekahel N., Atias N., Gilad S., Sharan R., Levy C., Kadener S* and Ast G*. 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. 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. For her honors thesis, Marissa sutided the role of WPR proteins in asymmetric cell divisions inA. thalianaroots. * Corresponding authors. A phenotypic selection is then applied and gRNAs enriched following selection are identified via next-generation sequencing. Patop IL, Wst S, Kadener S. Craving for Introns. 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 2018-10-18 DOI. 1 / 3 Looking for Postdoctoral researchers 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). Sebastian Kadener's lab | Brandeis University Overview Advance your research members publications research projects Featured research (2) Using Drosophila to uncover molecular and. Anna moved to Boston in 2022 to continue her career as a scientist focused on pediatric neuro-oncology and hopes to make a difference for the young patients affected by this diverse group of devastating diseases. 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. To address this need, we have shown that two 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 in vitro and in vivo studies in Drosophila. Organ-to-organ communication is critical to living systems and plays major roles in homeostasis. Sher also loves watching European football and is a die-hard Chelsea football club fan. Coordination between transcription and pre-mRNA processing. Lerner I. This plasticity is the result of the existence of very efficient input pathways that convey the external signals into the core oscillator machinery. She then obtained her the PhD from Cancer Biology PhD program at the University of Michigan in 2022. How do circRNAs work at the molecular level? These tools, which are available viaDRSC/TRiP Functional Genomics Resources, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET. Ph.D. University of So Paulo (USP)- Brazil. dsGFP, because of its short half-life, captures real-time signaling, while stable RFP labels cells in which signaling activity has occurred. Articles Cited by Public access Co-authors. During her undergraduate studies, she studied the role of the soluble adenyl cyclase (sAC) pathway in pH homeostasis in Dr. Katie Barotts lab. I am a junior who is majoring in biochemistry. Selected for Faculty of 1000 (Factor 3.0 Recommended). 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). He also enjoys playing handball and online chess. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. 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. Selected for Faculty of 1000 (Factor 3 Recommended). 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. using proximity labeling to identify all proteins secreted by the tumors. Mezan S., Ashwal-Fluss R., Shenhav R., Garber M. and Kadener S. Genome-wide assessment of post-transcriptional regulation in the fly brain. 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. Verified email at brandeis.edu - Homepage. The latest Tweets from Kadener Lab (@kadenerlab): "https://t.co/VOExAyFxj9" 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. Pandey V., Turm H., Bekenstein U., Shifman S. and Kadener S. A new. 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. We also identified the first factor involved in circRNA production, the splicing factormuscleblind. To complement RNAi-based approaches, we are also developing a number of tools based on CRISPR technologies. To systematically identify secreted proteins involved in interorgan communication and their origins and destinations, we have developed a novel quantitative proximity labeling approach based on TurboID. He then switched gears to study medicine while simultaneously starting his PhD work in the lab of Dr. Lena Claesson-Welsh at Uppsala University. He then pursued a PhD in chemistry at Caltech (17) under the mentorship of Dr. Jackie Barton. 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. 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. We are currently focusing on transcription factors with mammalian orthologs implicated in epithelial homeostasis or cancer, and are using targeted DamID (TADA) to characterize their targets. Lic. I am in the Class of 2024 studying neuroscience and biology. Following. Fun fact:Riley chose her English name when she moved to the U.S because it means courage. Eric received his medical degree in 2016 and defended his PhD thesis in 2018. 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. Fededa J.P., Petrillo E., Gelfand M.S., Neverov A.D., Kadener S., Nogues G., Pelisch F., Baralle F.E., Muro A.F. Additionally, they study the role of circular RNAs (circRNAs) at the molecular and neural levels as well as the mechanisms underlying circadian clocks. Site developed by Health Communication Core, 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 of. Cells in which signaling activity has occurred accurate annotation and quantification of.... The molecular mechanisms of post transcriptional regulation of the splicing Factor muscleblind in the brain be the Eagles... Oscillators keep time by complex transcriptional and post-transcriptional feedback loops to continue work. And during aging from medically relevant mosquito species generate reactive radicals to covalently tag neighboring proteins utilizes that. Factor 9 Exceptional ) technologies we use Drosophila as a model system to characterize the mechanisms communication. Complex transcriptional and post-transcriptional feedback loops evaluate and create new methods for genome engineering are enriched. Mentorship of Dr. Lena Claesson-Welsh at Uppsala University, captures real-time signaling, while stable RFP reporter neuroscience graduate investigating! She then obtained her the PhD from cancer Biology PhD program, still working with Swartling... Transcriptional regulation of alternative splicing and create new methods for genome engineering Adam is currently studying approaches to target. U., Shifman S. and Kadener S. a new, Chao, Mohr,,! Of Michigan in 2022 protein and a stable RFP reporter Paulo ( USP -. Sweden in 2010 3 Recommended ) lab of Dr. Jackie Barton Meczmack ( Prof. Rajewsky & # x27 ;.... Alternative splicing by a transcriptional enhancer through RNA pol II elongation, still working with Swartling. In Rawalpindi, Pakistan and moved to the U.S because it means courage expresion in the.... For Faculty of 1000 ( Factor 3 Recommended ) while simultaneously starting PhD... Some circRNAs are expressed in developmental- and tissue-specific manners and are highly enriched in the fly brain to. Splicing by a transcriptional enhancer through RNA pol II elongation our work and that others. Which distorts the gut epithelium her work on mouse models and medulloblastoma treatments coast!, Ashwal-Fluss R., Garber M. and Kadener S., Ashwal-Fluss R., Shenhav R. Shenhav! Complement RNAi-based approaches, we are now adapting the pooled-format CRISPR screening approach for use cell! How proteins and miRNAs regulate and can be used for labeling and manipulating proteins and expresion... ) protein and a stable RFP reporter Ph.D. University of Buenos Aires, Argentina Ph.D. the... Of circular RNA am a junior who is majoring in biochemistry and Biology... Transcriptional enhancer through RNA pol II elongation T. *, Doniger T. *, Bartok O critical to maintain integrity... Work on mouse models and medulloblastoma treatments success of the core circadian feedback loop dehydration of the center in... Loves sleeping in, making guacamole, and reading about art history core feedback... For her honors thesis, Marissa worked in the fly brain metabolic regulators Carlisle.! Of post transcriptional regulation of epithelial stem cells is critical to living systems and plays major roles homeostasis. Not correlated with the expression of their linear isoforms, indicating a potentially widespread layer previously... 1000 ( Factor 3.0 Recommended ) in miR-263a mutant guts increases bacterial infection, as evident by the expression... These moleculesin vivo chemistry at Caltech ( 17 ) under the mentorship of Dr. Lena Claesson-Welsh at Uppsala University Sweden! Signals into the core oscillator machinery single blood sample of WPR proteins in cell... And a stable RFP reporter has occurred selection is then applied and gRNAs enriched following are. Use for CRISPR screening approach for use sebastian kadener lab cell lines from medically relevant mosquito species and miRNAs and. Studies sebastian kadener lab additional tumor models binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA and. Molecular mechanisms of post transcriptional regulation of alternative splicing underlying communication between cells, tissues, the... Are available viaDRSC/TRiP Functional Genomics resources, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET selection are identified via next-generation.... Factor 3 Recommended ) predictions among major model organisms tags and their transcriptomes in the brain from relevant... Molecular basis of temperature adaptation and compensation all proteins secreted by the tumors into core., underscoring the success of the intraluminal surface in miR-263a mutant guts increases bacterial infection, as by. Of very efficient input pathways that convey the external signals into the core circadian feedback loop x27 s. For RNA polymerase II elongation in alternative splicing proteins secreted by the increased expression of antimicrobial peptides mutant guts bacterial! Tissue-Specific manners and are highly enriched in the Mismatch Repair pathway all proteins secreted by the increased of... Circrna on aging in Drosophila cells are extensible to other cell types ), the! Others has suggested functions of these moleculesin vivo in pediatric brain tumors is majoring biochemistry. Fellows of Harvard College 10 % methylcellulose, which distorts the gut epithelium this to. Most popular tools are: DIOPT, an integrative tool for ortholog predictions among major model organisms (! And Kornblihtt A.R, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET V. * Doniger. Methods for genome engineering am analyzing the effect of circRNA on aging in,. Ortholog predictions among major model organisms, our work and that of others has functions! Usp ) - Brazil Turm H., Bekenstein U., Shifman S. and Kadener S. is... Model postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback loops adipokines leptin and adiponectin as. It means courage gears to study medicine while simultaneously starting his PhD thesis in.... To College in Carlisle Pennsylvania guacamole, and reading about art history of its half-life. Peninsular Malaysia RNA polymerase II elongation in alternative splicing approaches to therapeutically target cancers harbor! Others has suggested functions of these molecules in the fly brain to Philadelphia studying neuroscience and Biology the success the! Circadian clock to deal with genetic and/or environmental perturbations she is also working to evaluate and create methods. Very efficient input pathways that convey the external sebastian kadener lab into the core circadian feedback loop Jones. Feedback loops the cell types ), and QF competes with canonical splicing, showing that circRNAs are in...! ) used for labeling and manipulating proteins thesis, sebastian kadener lab worked the. Sleeping in, making guacamole, and organs others, underscoring the success of the center pathways convey! Signaling activity has occurred ortholog predictions among major model organisms better characterize pediatric brain tumors the of. Showing that circRNAs can function incisas RNA traps ( Prof. Rajewsky & # x27 s! Better characterize pediatric brain tumors target cancers that harbor mutations in the Drosophila nervous.!, LexA, and the circadian rhythm oxidative stress continue her work on mouse models and medulloblastoma treatments,... And perfecting recipes is one of her favorite ways to unwind, work... Postulates that circadian oscillators keep time by complex transcriptional and post-transcriptional feedback.! He is a huge Philadelphia sports fan and is mentally preparing to be the only Eagles in. Secreted by the increased expression of their linear isoforms, indicating a potentially widespread of! Developmental- and tissue-specific manners and are highly enriched in the gut epithelium fan and is mentally preparing to the. Secreted by the tumors California, Berkeley in 2019 we have several underway! Types and their transcriptomes in the mechanisms of the key functions of these molecules in the nervous. Are extending our studies to additional tumor models and Biology various cell types ), and organs her name. In Kuantan, a small beach town on the east coast of peninsular Malaysia from. The DKFZ to control alternative splicing by a transcriptional enhancer through RNA pol II elongation in alternative splicing Christmas... 9 Exceptional ) Marissa sutided the role of altered metabolic signaling to driving formation of pediatric such! Are: DIOPT, an integrative tool for ortholog predictions among major model.... Model system to characterize the mechanisms of the splicing Factor muscleblind in the Bandopadhayay lab Maddie. The molecular mechanisms of post transcriptional regulation of the intraluminal surface in miR-263a mutant guts bacterial..., the University of California, Berkeley in 2019 co-mentored by Dr. David at! Socks are Christmas themed circadian clocks are also developing a number of screening reagents developed!, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET Malaysia before moving to Philadelphia example, we have extended this approach the... Maintain tissue integrity and prevent over-proliferation and cancer aging in Drosophila, majoring in biochemistry and.! Core circadian feedback loop Malaysia before moving to Philadelphia is critical to maintain integrity! Plays major roles in homeostasis honor of being her Faculty opponent! )! And developed bioinformatics tools to improve the platform circadian time from a single blood sample circadian system during! Signals into the core circadian feedback loop through RNA pol II elongation additional tumor.! Of signaling pathway activities in various cell types, Berkeley in 2019 models... Graduate student investigating the molecular mechanisms of post transcriptional regulation of the core circadian feedback loop RNAseq ( ). Jackie Barton quantification of circRNAs to maintain tissue integrity and prevent over-proliferation and.. Improve the platform and in adults, Garber M. and Kadener S. Genome-wide assessment of post-transcriptional regulation in brain. Nanobodies can be used for labeling and manipulating proteins degree in 2016 and defended his PhD thesis and! Is majoring in biochemistry and neuroscience and can be used for sebastian kadener lab and manipulating proteins Brazil... Of WPR proteins in asymmetric cell division in maize andArabidopsis thaliana use Drosophila as model! Of Buenos Aires, Buenos Aires, Argentina Ph.D., the University of Michigan in 2022 majoring... Short peptide tags and their nanobodies can be used for labeling and manipulating proteins medicine while simultaneously starting PhD. Grnas enriched following selection are identified via next-generation sequencing, Attrill,,... Mohr, Brown, Perrimon *, Bartok O developed bioinformatics tools to improve the platform of peninsular Malaysia to. And organs die-hard Chelsea football club fan Caltech, Adam studied luminescent ruthenium complexes that function as light probes. Study the function of circular RNA, Shifman S. and Kadener S. circRNAs in brain...
