March 4, 2021

9am-10am
Please email mbiasst@lifesci.ucla.edu to request Zoom link.

Luciano Marraffini, Ph.D.
Investigator, Howard Hughes Medical Institute/Professor, Bacteriology/The Rockefeller University

"CRISPR-Cas13 immunity: sacrificing the host for the population"

Hosted by Hung Ton-That

MBI Thursday Research Seminar

February 25, 2021

9am-10am
Please email mbiasst@lifesci.ucla.edu to request Zoom link.

Marisa Bartolomei, Ph.D.
Perelman Professor of Cell & Developmental Biology/Co-Director, Epigenetics Institute/University of Pennsylvania Perelman School of Medicine

"Epigenetic Regulation of Imprinting in Cluster"

Hosted by Patrick Allard

MBI Thursday Research Seminar

February 11, 2021

9am-10am
Please email mbiasst@lifesci.ucla.edu to request Zoom link.

Tzung K. Hsiai, MD, PhD
Professor of Medicine and Bioengineering, UCLA Cardiovascular Engineering & Light-Sheet Imaging Laboratory, Maud Cady Guthman Endowed Chair in Cardiology

"Light at the End of SARS-CoV-2: Integrating 4-D Light-Sheet and Light-Field to Elucidate Cardiac Morphogenesis"

Abstract:
During cardiac development, peristaltic contraction of the embryonic heart tube produces time-varying hemodynamic forces and pressure gradients across the atrioventricular canal. However, the relative importance of myocardial contraction and hemodynamic force to modulate cardiac morphogenesis remain poorly understood. By using dual illumination and dual detection light-sheet system, we recapitulate flow-mediated Notch1b-Nrg1-ErbB2 signaling underlying the initiation of endocardial trabeculation for contractile function. We demonstrate myocardial contractile force-mediated Notch1b-endothealial mesenchymal transition underlying valvulogenesis in the ventricular outflow tract. Overall, we integrate advanced optics with zebrafish genetics to provide biomechanical insights into cardiac development with translational implications for congenital heart disease.

February 8, 2021

12pm (noon) - 1pm
Please contact Stacey at santoniuk@mcdb.ucla.edu for zoom information.

Hiruy Sibhatu Meharena, PhD
Massachusetts Institute of Technology (MIT)

"Genomic Imbalance and 3D-Genome Organization in Intellectual Disability"

Abstract:
Genomic imbalances, including aneuploidies and copy number variants (CNVs), are one of the leading causes of intellectual disabilities such as Down syndrome (DS) and Autism Spectrum Disorder (ASD). Rare mutations that disrupt the 3D-genome organization have also been associated with intellectual disability. While these disorders display similar clinical features, the molecular mechanisms underlying this convergence remains unclear. We find that neural progenitors harboring trisomy 21, an aneuploidy that leads to DS, exhibit global 3D-genome reorganization, disruption of the nuclear lamina, and genome-wide chromatin accessibility changes. These features resemble the genome-wide transcriptional and nuclear-architecture changes that are characteristic of senescent cells. Moreover, we find that an ASD-associated mutation in CTCF induces a transcriptional profile similar to those observed in neural progenitors derived from individuals with DS, indicating that there is a molecular mechanism convergence between aneuploidies and chromosomal looping disruptions. Additionally, we find that treatment of neural progenitors harboring trisomy 21 with anti-senescence drugs (senolytics) alleviates the transcriptional and cellular changes associated with the neurodevelopmental malformations observed in individuals with DS. Our findings indicate that senescence plays a key role in the neurodevelopmental pathogenesis of DS and pharmacologically targeting senescence may provide a novel therapeutic avenue for treating individuals with DS.

Live virtual zoom – Seminar
Host: Dr. Alvaro Sagasti

February 3, 2021

12pm (noon) - 1pm
Please contact Stacey at santoniuk@mcdb.ucla.edu for zoom information.

D’Juan Tyree Farmer, PhD
University of Southern California

"Molecular and cellular control of skeletal progenitors in the vertebrate skull"

Abstract:
Proper organ formation requires the preservation of stem cells across embryonic and postnatal development. I study the vertebrate skull as a model to understand fundamental features of organogenesis. By integrating next-generation sequencing approaches with imaging and genetics in mouse and zebrafish to interrogate cranial suture development, I will share how my research is unraveling the molecular programs that control progenitors and skeletal stem cells as they meet the shifting needs of the growing calvarial bones.

Live virtual zoom – Seminar
Host: Dr. Alvaro Sagasti

February 1, 2021

12pm (noon) -1pm
Please contact Stacey at santoniuk@mcdb.ucla.edu for zoom information.

Nicole M. Martinez, PhD
Yale University

"Uncovering new functions of RNA modifications in mRNA processing"

Abstract:
Emerging evidence indicates that eukaryotic messenger RNAs are extensively decorated with modified nucleosides that have the potential to regulate eukaryotic gene expression through effects on mRNA metabolism. This talk will describe the discovery that the RNA modification pseudouridine is installed co-transcriptionally to pre-mRNA at thousands of positions by multiple pseudouridine synthases, revealing an endogenous function of pre-mRNA pseudouridylation in pre-mRNA processing. This function of pseudouridine synthases is important for our understanding of the many diseases associated with human pseudouridine synthase dysregulation.

Live virtual zoom - Seminar
Host: Dr. Alvaro Sagasti

January 29, 2021

9am - 11am PST; 12pm - 2pm EST
Virtual, Via Zoom - register to receive the link

Presenter: Amander Clark, PhD
Professor and Chair, Department of Molecular, Cell and Developmental Biology, UCLA

"Gamete Generation from Induced Pluripotent Stem Cells: How Close Are We to Creating Sperm and Eggs in the Lab?"

Harvard Stem Cell Institute
Monthly Consortia Series

Presenter: Amander Clark, PhD

Infertility is a disease that affects millions of reproductive age men, women, and non-binary persons in the U.S. For persons who want a biologically related child, one of the most common treatments involves invitro fertilization (IVF). However, IVF is not an option for persons who no longer make gametes. Instead, a new experimental procedure known as in vitro gametogenesis (IVG) could be used in these cases.

IVG involves making gametes outside of the body either from stalled gamete precursor cells, or from skin cells that can be turned into egg or sperm cells in the laboratory. Animal models have successfully used IVG to restore fertility, and basic science research is currently translating this technology to human cells - with particular emphasis on reprogramming skin cells into stem cells, followed by IVG into gametes. Amander Clark and Insoo Hyun will consider the scientific, ethical, and policy issues related to IVG as a next generation approach for human reproduction.

Virtual, Via Zoom - register to receive the link - https://events.r20.constantcontact.com/register/eventReg?oeidk=a07ehdq9yx4b355217e&oseq=&c=506f7efa-b553-11e9-aefb-d4ae52753a3b&ch=5072bb7e-b553-11e9-aefb-d4ae52753a3b

January 14, 2021

9am-10am
Please contact Nadia at mbiasst@lifesci.ucla.edu for zoom information

Maxence Nachury, PhD
Associate Professor, Ophthalmology, University of California, San Francisco

"Regulated trafficking of signaling receptors out of the primary cilium."

MBI Research Seminar
Website: https://www.mbi.ucla.edu/seminars/thursday-research-seminars

January 13, 2021

9am-10am
Please contact Stacey at santoniuk@mcdb.ucla.edu for zoom information.

Adrian Jacobo, PhD
The Rockefeller University, New York, NY

"Symmetry breaking during morphogenesis of a mechanosensory organ"

Abstract:
The development of mechanosensory epithelia, such as those of the auditory and vestibular systems, results in the precise orientation of mechanosensory hair cells and consequently directional sensitivity. After division of a precursor cell in the zebrafish lateral line, the daughter hair cells differentiate with opposite mechanical sensitivity. This process produces neuromasts containing equal numbers of hair cells of two opposite polarities, half of them sensitive to caudad water movement and half to rostrad flow.
Using a combination of experimental tools and mathematical modeling we show how Notch-mediated lateral inhibition produces a bistable switch that reliably gives rise to hair-cell pairs of opposite polarity. This spontaneous symmetry breaking drives polarity-dependent movements of hair cells that lead to the establishment of a mirror-symmetric organization of the organ. We model these reconfigurations by describing the effective surface tensions of the hair cells and the changes in these quantities throughout the developmental process. These results provide a unified experimental and theoretical framework to describe the polarity selection and directed migration of hair cells in the zebrafish lateral line.

January 13, 2021

11am - 12noon
Please contact Stacey at santoniuk@mcdb.ucla.edu for zoom information.

Eviatar Yemini, PhD
Columbia University, New York, NY

"Biologist, Know Thy Cells - A Colorful Barcoding Method to ID Cell Types, their Fate, and Decode Brainwide Communication"

Abstract:
A major challenge in biological imaging is resolving cell identities. These are necessary for determining cell-specific protein expression and function, the effect of transcription factors on cell fate, and the contribution of individual neurons to brainwide activity and behavior. Present methods are limited to a piecemeal approach, using multiple strains to identify a few cell types at a time. I introduce a new method and software that can identify many cell types, and in some cases all neurons, in vivo using a single strain. My method combines cell reporters with five distinguishable fluorescent proteins to create unique, stereotyped color codes that identify cell types. I illustrate this in C. elegans, engineering a multicolor transgene called NeuroPAL (a Neuronal Polychromatic Atlas of Landmarks), to create an identical colormap in all worms that uniquely identifies every neuron, showcasing three applications. First, I identify the neuronal expression patterns of all metabotropic receptors for acetylcholine, GABA, and glutamate, thus completing a map of this communication network. My findings indicate that second-messenger systems are the primary means of GABA communication in worm, and further suggest widespread extrasynaptic GABA signaling. Second, I analyze the conserved transcription factor EOR-1/PLZF and, despite its ubiquitous expression, uncover a precise role in neuronal fate. Third, I identify brainwide codes for gustatory and olfactory stimuli. My findings show a complex code that challenges the present view that global neuronal activity is simply low dimensional. To facilitate the workflow, I present semi-automated cell identification software and optimal-coloring software to apply the same method in other tissues and organisms. Lastly, I discuss future applications: investigating how whole-nervous-system activity is remodeled to change behavior during early development, sexual maturation, in response to environmental stress, and even across 15+ million years of evolutionary divergence.

January 7, 2021

9am-10am
Please contact mbiasst@lifesci.ucla.edu for zoom information.

Kelly Monk, PhD
Co-Director & Senior Scientist, Vollum Institute

"Molecular and cellular mechanisms regulating neuron-glial interactions"

MBI Research Seminar
Website: https://www.mbi.ucla.edu/seminars/thursday-research-seminars

December 17, 2020

9am-10am
Please email mbiasst@lifesci.ucla.edu for Zoom link.

Ahna R. Skop, Ph.D., D.Sc.
Professor, Genetics, University of Wisconsin-Madison

"Seminar Title - TBD"

MBI Research Seminar
Please email mbiasst@lifesci.ucla.edu for Zoom link.

December 16, 2020

3pm - 4pm
Please email santoniuk@mcdb.ucla.edu for Zoom link.

Feiyang Ma
Postdoctoral Fellow - Pellegrini Lab

"Single Cell and Spatial Transcriptomics Defines the Cellular Architecture of the Antimicrobial Response Network in Human Leprosy Granulomas."

Abstract

Granulomas are complex cellular structures comprised predominantly of macrophages and lymphocytes that function to contain and kill invading pathogens. Here, we investigated single cell phenotypes associated with antimicrobial responses in human leprosy granulomas by applying single cell and spatial sequencing to leprosy biopsy specimens. We focused on reversal reactions (RR), a dynamic process in which some patients with disseminated lepromatous leprosy (L-lep) transition towards self-limiting tuberculoid leprosy (T-lep), mounting effective antimicrobial responses. We identified a set of genes encoding proteins involved in antimicrobial responses that are differentially expressed in RR versus L-lep lesions, and regulated by IFN-g and IL-1b. By integrating the spatial coordinates of the key cell types and antimicrobial gene expression in RR and T-lep lesions, we constructed a map revealing the organized architecture of granulomas depicting compositional and functional layers by which macrophages, T cells, keratinocytes and fibroblasts contribute to the antimicrobial response.

December 16, 2020

3pm - 4pm
Please email santoniuk@mcdb.ucla.edu for Zoom link

Yan Xue
Postdoctoral Fellow - Jacobsen Lab

"Arabidopsis MORC proteins function in the establishment of RNA directed DNA methylation"

Abstract

The Microrchidia (MORC) family of ATPases are required for transposable element (TE) silencing and condensation of heterochromatin in both plants and animals, and C. elegans MORC-1 has been shown to topologically entrap and condense DNA. In Arabidopsis thaliana, mutation of MORCs has been shown to reactivate silent methylated genes and transposons and to decondense heterochromatic chromocenters, despite only minor changes in the maintenance of DNA methylation. Here we provide the first evidence localizing MORC proteins to specific regions of chromatin and find that MORC4 and MORC7 are closely co-localized with sites of RNA-directed DNA methylation (RdDM). We further show that MORC7, when tethered to DNA by a specific zinc finger can facilitate the establishment of RdDM. Finally, we show that MORCs are required for the efficient establishment of de novo RdDM when plants are transformed with an FWA transgene, even though morc mutations have no effect on the maintenance of preexisting methylation at FWA. We propose that MORCs act as de novo silencing factors in RdDM complexes by tethering these complexes to DNA to facilitate methylation establishment. These findings have implications for MORC protein function in a variety of other eukaryotic organisms.

December 3, 2020

9am-10am
Please contact Nadia for zoom information – mbiasst@lifesci.ucla.edu

Samie Jaffrey, M.D., Ph.D.
Professor, Pharmacology, Weill Medical College, Cornell University

"Understanding the function and dynamics of m6A in the epitranscriptome"

MBI Research Seminar
Please contact Nadia for zoom information – mbiasst@lifesci.ucla.edu

November 19, 2020

9am-10am
Please contact Nadia for zoom information – mbiasst@lifesci.ucla.edu

Cecilia Moens, PhD
Professor, Basic Sciences Division, Fred Hutchinson Cancer Research Center

"Transcriptional Regulation of Heart Development and Congenital Heart Disease"

MBI Research Seminar

Zoom – Please contact Nadia for zoom information.
Contact – Nadia Avila – mbiasst@lifesci.ucla.edu

November 12, 2020

9am-10am
Please email mbiasst@lifesci.ucla.edu for Zoom information.

Benoit G. Bruneau, Ph.D.
Director, Gladstone Institute of Cardiovascular Disease/William H. Younger Chair in Cardiovascular Research, Gladstone Institutes/Professor, Department of Pediatrics, UC San Francisco

"Transcriptional regulation of heart development and congenital heart disease"

MBI Research Seminar
Please contact Nadia for zoom information. Contact – – Nadia Avila

November 5, 2020

9am-10am
Please contact Nadia Avila for zoom information.

Cole Trapnell, PhD
Assistant Professor, Genome Sciences, University of Washington

"Embryo-scale, single-cell spatial transcriptomics"

MBI Research Seminar
Please contact Nadia Avila for zoom information.

October 29, 2020

9am-10am
Please email mbiasst@lifesci.ucla.edu for Zoom information

Dominique Missiakas, Ph.D.
Professor, Microbiology, University of Chicago

"A tale of two pathogens: Yersinia pestis and Staphylococcus aureus"

Dominique Missiakas, Ph.D.
Professor, Microbiology
University of Chicago

MBI Seminar Series
Contact – Nadia Avila – mbiasst@lifesci.ucla.edu
Please email mbiasst@lifesci.ucla.edu for Zoom information
Website - https://www.mbi.ucla.edu/seminars/thursday-research-seminars

October 22, 2020

9am-10am
Please email mbiasst@lifesci.ucla.edu for Zoom information

Henry N. Higgs, Ph.D.
Professor, Department of Biochemistry, Geisel School of Medicine at Dartmouth

"Dissecting the mechanisms by which actin influences mitochondria in mammals"

MBI Research Seminar

“Dissecting the mechanisms by which actin influences mitochondria in mammals”

Henry N. Higgs, Ph.D.
Professor, Department of Biochemistry
Geisel School of Medicine at Dartmouth

Please email mbiasst@lifesci.ucla.edu for Zoom information

October 8, 2020

9am-10am
Zoom – Please contact Nadia at mbiasst@lifesci.ucla.edu for zoom information

Pamela Bjorkman, PhD
Professor, Biology and Biomolecular Engineering, Caltech

"Antibody Recognition of Pandemic Viruses"

MBI Research Seminar

Antibody Recognition of Pandemic Viruses
Pamela Bjorkman, PhD
Professor, Biology and Biomolecular Engineering, Caltech

Zoom – Please contact Nadia for zoom information.
Contact – Nadia Avila – mbiasst@lifesci.ucla.edu
Website - https://www.mbi.ucla.edu/seminars/thursday-research-seminars

October 7, 2020

12pm-1pm
Register at uclahs.fyi/ctsi-seminar

William Lowry, Ph.D.
Professor, Molecular, Cell & Developmental Biology

"Manipulating Metabolism in Hair Follicle Stem Cells to Regulate Activation and Tumorigenesis"

CTSI DISTINGUISHED SPEAKER SERIES

Manipulating Metabolism in Hair Follicle Stem Cells to Regulate Activation and Tumorigenesis

William Lowry, Ph.D.
Professor, Molecular, Cell and Developmental Biology
UCLA

Date: October 07, 2020 12:00 PM - 1:00 PM
Location: Register at uclahs.fyi/ctsi-seminar

DGSOM Theme: Cancer
In partnership with the UCLA David Geffen School of Medicine Themes
For additional information, please contact: ctsiseminar@mednet.ucla.edu

October 1, 2020

9AM
Zoom – Please contact Nadia at mbiasst@lifesci.ucla.edu for zoom information

Eric Skaar, PhD, MPH
Vanderbilt University

"Nutritional Immunity and Microbial Countermeasures"

MBI Research Seminar

Nutritional Immunity and Microbial Countermeasures

Eric Skaar, PhD, MPH

Professor & Chair, Pathology and Microbiology, & Immunology

Vanderbilt University

Zoom – Please contact Nadia for zoom information.

Contact – Nadia Avila – mbiasst@lifesci.ucla.edu

Website:  http://www.mbi.ucla.edu/seminars/thursday-research-seminars/

September 14, 2020

11AM
Please contact Rosemary at cri@mednet.ucla.edu for password information

Arjun Deb, MD
Professor, Molecular, Cell & Developmental Biology

"Brief Theme Update: How Heart Scars Regulate Their Own Size"

Cardiovascular Seminar

Brief Theme Update: How Heart Scars Regulate Their Own Size

Arjun Deb, MD

Professor, Molecular, Cell & Developmental Biology,

UCLA College of Letters & Sciences; and

Medicine, Cardiology, David Geffen School of Medicine at UCLA

Zoom –

https://uclahs.zoom.us/j/4675328384?pwd=MkNncmNRV2I2Zk90U1FNMmYyTHh4QT09

Password – Please contact Rosemary for password information.

Contact – Rosemary Portal – cri@mednet.ucla.edu

Website: https://medschool.ucla.edu/cardiovascular-seminar-series

August 25, 2020

12pm (noon)
Meeting ID: 921 7373 2925 Passcode: 755857

Pavak K. Shah, Ph.D.
Assistant Professor, Molecular, Cell and Developmental Biology

"From Structure to Function: Dissecting neural development with in toto imaging"

UCLA Molecular Biology Institute
Faculty Seminar

June 30, 2020

12pm (noon)
Meeting ID: 960 2156 5745 Password: 347454

Tracy Johnson, Ph.D.
Professor, Molecular, Cell & Developmental Biology

"RNA splicing, chromatin modification, and the coordinated control of gene expression"

MBI Faculty Seminar - Tracy Johnson, Ph.D.

Zoom Link: https://ucla.zoom.us/j/96021565745?pwd=UHk3elNobXU5OVEvaFpNNUlmT1BrQT

Meeting ID: 960 2156 5745
Password: 347454

June 10, 2020

3 PM
Meeting ID: 923 8595 2941

Rafael Demarco

"Metabolic regulation of the male germline stem cell niche in Drosophila"

Postdoc Seminar Series
Hosts: Hanna Mikkola and Alvaro Sagasti

June 3, 2020

3 PM
Zoom Meeting ID: 943 0973 7474

Noor Khan
Postdoc, UCLA MCDB

"Microbes replacing synthetic fertilizers and fungicides for sustainable agriculture"

Postdoc Seminar Series
Hosts: Dr. Hanna Mikkola and Dr. Alvaro Sagasti

May 20, 2020

3 PM
via Zoom (Meeting ID: 943 0973 7474)

Sandra Capellera Garcia
Postdoc, UCLA MCDB

"Single cell map of the emergence of human hematopoietic stem cells from hemogenic endothelium"

Postdoc Seminar Series
Hosts: Dr. Hanna Mikkola and Dr. Alvaro Sagasti

May 13, 2020

3 PM
via Zoom (Meeting ID: 943 0973 7474)

Xu Wang
Postdoc, UCLA MCDB

"New mechanism of plant cryptochromes in regulating photo-responsive gene expressions"

Postdoc Seminar Series
Speaker: Xu Wang, Postdoc from Lin's Lab
Hosts: Hanna Mikkola and Alvaro Sagasti

May 6, 2020

3 PM
via Zoom (Zoom Meeting ID: 943 0973 7474)

Erica Pandolfi
Postdoc, UCLA MCDB

"Restoring Germline Potential to Patients Diagnosed with Primary Ovarian Sufficiency"

Hosts: Dr. Hanna Mikkola and Dr. Alvaro Sagasti

April 29, 2020

3 PM
Zoom Meeting ID: 923 8595 2941 Password: 794415

Laurent Voisin
Postdoc, UCLA MCDB

"Cellular cannibalism & senescence"

Postdoc Seminar Series

Hosts: Dr. Hanna Mikkola and Dr. Alvaro Sagasti

April 22, 2020

3 pm
via Zoom (Zoom Meeting ID: 943 0973 7474, Password: 639989)

Jake Harris
Postdoc, UCLA MCDB

"Activation under repression: who wins and why?"

Postdoc Seminar Series

Hosts: Dr. Hanna Mikkola and Dr. Alvaro Sagasti

March 5, 2020

4PM
159 Boyer Hall

Trent Northen, Ph.D.
Chemist Senior Scientist, Environmental Genomics and Systems Biology, DOE Joint Genome Institute

"Exploring the chemistry of microbiomes with mass spectrometry"

Sponsor: MBI - Thursday Research Seminar Series

February 27, 2020

1pm
154 BSRB

Matteo Pellegrini, PhD
UCLA: Prof MCDB

"What Can We Learn About Our Health From DNA Methylation"

Sponsor: OHRC

February 20, 2020

4PM
159 Boyer Hall

Janet Rossant, Ph.D., FRS, FRSC
University of Toronto, Professor, Molecular Genetics, Obstetrics and Gynecology

"Defining totipotency- from embryos to stem cells"

Sponsor: MBIDP
Thursday Seminar Series

February 20, 2020

11:30am
154 BSRB

Michelle Chan, Ph.D.
University of California, San Francisco

"From one cell to many: Deciphering regulation in mammalian development"

Ontogeny describes the emergence of complex multicellular organisms from single totipotent cells. In mammals, this field is particularly challenging due to the indeterminate relationship between self-renewal and differentiation, variation of progenitor field sizes, and internal gestation. Here, we present a flexible, high information, multi-channel molecular recorder with a single cell (sc) readout and apply it as an evolving lineage tracer to define a mouse cell fate map from fertilization through gastrulation. By combining lineage information with scRNA-seq profiles, we recapitulate canonical developmental relationships between different tissue types and reveal the nearly complete transcriptional convergence of endodermal cells from extra-embryonic and embryonic origins. Finally, we apply our cell fate map to estimate the number of embryonic progenitor cells and their degree of asymmetric partitioning during specification. Our approach enables massively parallel, high-resolution recording of lineage and other information in mammalian systems to facilitate a quantitative framework for understanding developmental processes.

Thursday, February 20, 2020
11:30am in 154 BSRB
(Biomedical Research Science Bldg.)
Hosts: Dr. Alexander Hoffmann and Dr. Bill Lowry

Light refreshments

February 18, 2020

12pm (noon)
158 Hershey Hall (Grand Salon)

Manu Setty, Ph.D.
Sloan Kettering Institute, New York, NY

"Characterization of lineage decisions in developmental trajectories using single-cell data"

How a cell decides its lineage is a long-standing and enigmatic question in molecular biology. I will present my research to characterize lineage decisions in developmental trajectories by computational modeling of high throughput data such as single-cell RNA-seq. I will describe Palantir, the first single-cell trajectory detection algorithm to model continuities in lineage decisions. Palantir models differentiation as a Markov process to compute the lineage biases and differentiation potential, a measure of plasticity, for all cells. Palantir modeling enables an accurate identification of lineage decision regions and associated gene expression and regulatory dynamics. I will then describe our study to characterize the spatial and temporal trajectories of mouse endoderm development. Combining Palantir modeling with a large-scale single-cell data, we uncovered an unexpected plasticity of embryonic epiblast cells to differentiate to the surrounding extra-embryonic endoderm at implantation and the concomitant emergence of the spatial signal in the endoderm. Our analysis further demonstrated the convergence of embryonic definitive and extra-embryonic visceral endoderm cells into spatially organized organ territories in the gut-tube at mid-gestation.

February 13, 2020

4pm
159 Boyer Hall

Mitchell Lazar, M.D., Ph.D.
University of Pennsylvania

"Transcriptional Regulation of Circadian Rhythms and Metabolism"

Sponsor: MBIDP - Thursday Research Seminar Series

February 12, 2020

12pm
1357 Gonda

Zeba Wunderlich, Ph.D.
Assistant Professor, Department of Developmental and Cell Biology, University of California, Irvine

"The Connections Between Enhancer Architecture and Function"

To carry out an enormous diversity of tasks, proteins can assume a variety of structures or disordered states, and years of work have made the connection between protein sequences, structures, and functions. Enhancers and other pieces of regulatory DNA regulate gene expression in highly disparate biological processes, but we still lack general principles that can help us connect enhancer sequence, transcription factor binding site arrangement (or architecture), and function. In my seminar, I will share two projects that seek to make connections between the way enhancers are built and the tasks they carry out in two biological settings: early development and the innate immune response in Drosophila. In the first part, I will describe a mechanism by which redundant (shadow) enhancers control expression noise, and in the second, I will describe the patterns of evolution that drive divergence in the expression response to bacterial infection.

February 3, 2020

12pm
158 Hershey Hall (Grand Salon)

Johannes Schöneberg, PhD
UC Berkeley

"Adaptive Optics Lattice Light-Sheet Imaging and AI Powered Big Data Processing of Live Stem Cell-Derived Organoids"

New methods in stem cell 3D organoid tissue culture, advanced imaging, and big data image analytics now allow tissue-scale 4D cell biology but currently available analytical pipelines are inadequate for handing and analyzing the resulting gigabytes and terabytes of high-content imaging data. We expressed fluorescent protein fusions of clathrin and dynamin2 at endogenous levels in genome- edited human embryonic stem cells, which were differentiated into intestinal epithelial organoids. Lattice light-sheet imaging with adaptive optics (AO-LLSM) allowed us to image large volumes of these organoids (70 × 60 × 40 μm xyz) at 5.7 s/frame. We developed an open-source data analysis package termed pyLattice to process the resulting large (∼60 Gb) movie data sets and to track clathrin-mediated endocytosis (CME) events. We then expressed fluorescent protein fusions of actin and tubulin in genome-edited induced human pluripotent stem cells, which were differentiated into human cortical organoids. Using the AO-LLSM mode on the new MOSAIC (Multimodal Optical Scope with Adaptive Imaging Correction) allowed us to image neuronal migration deep in the organoid. We augmented pyLattice with a deep learning module and used it to process the brain organoid data.

January 23, 2020

1pm - 2pm
154 BSRB

Dan Cohn, PhD
Professor, Molecular, Cell & Developmental Biology and Orthopaedics Surgery

"The TRPV4 Skeletal Dysplasias: Genetics, Mechanism, Mouse Models and Prospects for Therapy"

OHRC Musculoskeletal Research Seminar Series
Seminar title: The TRPV4 Skeletal Dysplasias: Genetics, Mechanism, Mouse Models and Prospects for Therapy

Speaker: Dan Cohn, PhD
Professor, Molecular, Cell & Developmental Biology
and Orthopaedics Surgery,
UCLA College of Letters & Sciences,
David Geffen School of Medicine at UCLA
Contact – Gloria Kiel – gskiel@mednet.ucla.edu

January 23, 2020

5pm - 6pm
27-200C CHS

Andrew Goldstein, PhD
Assistant Professor-in-Residence, Molecular, Cell & Developmental Biology and Urology; UCLA College of Letters & Sciences and David Geffen School of Medicine at UCLA

"Prostate Aging, Tumorigenesis and Metabolism"