Post-transcriptional Gene Regulatory Mechanisms in Adult Drosophila Intestinal Progenitor Cells


Book Description

The adult Drosophila intestinal epithelium hosts a heterogenous cell population including a pool of actively proliferating stem cells known as intestinal stem cells (ISCs), intermediate daughter cell type enteroblasts (EBs) and two differentiated cell types, enterocytes (ECs) and enteroendocrine cells (ee). Being able to adapt to rapid environmental changes through tightly controlled programs of cell proliferation and differentiation, the adult intestine serves as an excellent model system to study stem cell mediated tissue homeostasis. The underlying molecular mechanisms that mediate stem cell proliferation, differentiation and maintenance are poorly understood, in part because of a lack of available tools to spatially manipulate gene expression in this tissue. Previous work from our lab has shown that RNA Binding Protein (RBP) mediated post transcriptional gene regulatory mechanisms in the cytoplasm are key to maintain stem cell functions and behaviors. My work aimed to investigate nuclear RBP mediated post transcriptional gene regulatory mechanisms in intestinal progenitors (ISCs and EBs) and generate genetic tools to manipulate gene expression based on intestinal cell type and regional identities.




Adaptive Homeostasis Driven by Tissue-specific Micrornas in the Drosophila Adult Intestinal Stem Cell Lineage


Book Description

Adult organisms respond to environmental fluctuations by undergoing reversible changes in tissue morphology, cell numbers, and gene expression profiles. However, the mechanisms governing these dynamic changes in tissue behavior is not well understood. The Drosophila intestine is an excellent model for studying these adaptive responses because it is maintained by a pool of adult stem cells that are highly flexible and can adjust their numbers based on tissue demand. Previous studies have identified that post-transcriptional gene regulatory mechanisms are particularly important for maintaining stem cell behavior during adaptive responses. However, the role of microRNAs, one of the most crucial post-transcriptional gene regulators, has remained unexplored in these adult intestinal stem cell lineages. My thesis work was initiated by profiling microRNAs that are enriched in the intestinal tissue relative to the rest of the animal. I identified two highly enriched microRNAs-miR-958 and miR-956 both of which are crucial for ensuring different aspects of tissue homeostasis. In the first part of my thesis, I found that miR-958 is tissue specific and regulates intestinal stem cell (ISC) numbers both during homeostasis and in response to stress. In order to adapt to stress, miR-958 is transiently downregulated in a class of differentiated cells called enterocytes (ECs). This eventually leads to elevated expression of cabut, a positive modulator of BMP signaling, to promote expansion of the stem cell population non-cell autonomously. In the next part of my thesis, I found that the second intestinally enriched microRNA-miR-956-- mainly acts in an ISC intermediate daughter cell type called enteroblasts (EB) to regulate EB-to-EC differentiation. I also showed that miR-956 executes this function by regulating a downstream target insensitive, an antagonist of Notch signaling. In summary, my thesis work identified novel microRNA-based circuits that regulate both stem cell number as well as the onset of differentiation in the adult intestinal stem cell lineage.




Coordination of Transcriptional and Post-transcriptional Control of Cell-fate Transitions in Drosophila Melanogaster


Book Description

During the early stages of development, the fertilized germ cells are rapidly reprogrammed to form a pluripotent embryo. This transition in cell fate is coordinated by pioneer transcription factors that have the ability to open inaccessible chromatin to allow other factors to bind and drive gene expression. As chromatin is known to pose a barrier to transcription factor binding, these unique properties of pioneer factors make them instrumental in driving gene-regulatory networks that control critical developmental transitions. Despite the ability to access closed chromatin, pioneer factors do not function the same throughout development, so it is crucial that we understand how specific cellular environments influence pioneer factor binding and activity. The pioneer transcription factor Zelda (Zld) is essential for early embryonic reprogramming in Drosophila melanogaster. Research has shown that Zld shapes the chromatin and transcriptional landscape in the early embryo, but Zld's role later in development and the mechanisms by which Zld was regulated remained unclear. Our data has demonstrated that Zld functions to maintain the undifferentiated state of a neural stem cell population in the developing larval brain. Additionally, the ability of Zld to reprogram is conserved as Zld can also reprogram in the larval neural stem cell lineage. However, Zld binding is redistributed in the larval neuroblasts from the early embryo indicating that developmental context shapes where this transcription factor can bind. We show that Zld levels have to be precisely regulated in both the brain and the early embryo as misexpression of Zld at either stage is detrimental to the animal. The protein Brain Tumor (Brat) regulates Zld levels at both stages of development and we demonstrate that in embryos lacking functional Brat, Zld is prematurely expressed. However, early Zld expression is not sufficient to precociously activate the zygotic genome. Thus, expression of a genomic activator must be coordinated with timing of the division cycles in order to properly activate the genome. Together, our data demonstrate the Zld must be tightly regulated throughout development in order to allow for rapid transitions in cell fate. Together, our studies will help us better understand the transcriptional and post-transcriptional mechanisms regulating pioneer transcription factors.




Coordination of Transcriptional and Post-transcriptional Control of Cell-fate Transitions in Drosophila Melanogaster


Book Description

During the early stages of development, the fertilized germ cells are rapidly reprogrammed to form a pluripotent embryo. This transition in cell fate is coordinated by pioneer transcription factors that have the ability to open inaccessible chromatin to allow other factors to bind and drive gene expression. As chromatin is known to pose a barrier to transcription factor binding, these unique properties of pioneer factors make them instrumental in driving gene-regulatory networks that control critical developmental transitions. Despite the ability to access closed chromatin, pioneer factors do not function the same throughout development, so it is crucial that we understand how specific cellular environments influence pioneer factor binding and activity. The pioneer transcription factor Zelda (Zld) is essential for early embryonic reprogramming in Drosophila melanogaster. Research has shown that Zld shapes the chromatin and transcriptional landscape in the early embryo, but Zld's role later in development and the mechanisms by which Zld was regulated remained unclear. Our data has demonstrated that Zld functions to maintain the undifferentiated state of a neural stem cell population in the developing larval brain. Additionally, the ability of Zld to reprogram is conserved as Zld can also reprogram in the larval neural stem cell lineage. However, Zld binding is redistributed in the larval neuroblasts from the early embryo indicating that developmental context shapes where this transcription factor can bind. We show that Zld levels have to be precisely regulated in both the brain and the early embryo as misexpression of Zld at either stage is detrimental to the animal. The protein Brain Tumor (Brat) regulates Zld levels at both stages of development and we demonstrate that in embryos lacking functional Brat, Zld is prematurely expressed. However, early Zld expression is not sufficient to precociously activate the zygotic genome. Thus, expression of a genomic activator must be coordinated with timing of the division cycles in order to properly activate the genome. Together, our data demonstrate the Zld must be tightly regulated throughout development in order to allow for rapid transitions in cell fate. Together, our studies will help us better understand the transcriptional and post-transcriptional mechanisms regulating pioneer transcription factors.










Peptide Hormone Receptors


Book Description




Germline Stem Cells


Book Description

In this comprehensive and cutting-edge book, leading experts explore the parameters that define germline stem cells and the mechanisms that regulate the cell behavior in order to better isolate, characterize and maintain them. The volume begins by providing protocols for germline stem cell identification and regulation in model organisms, and concludes with detailed chapters covering current techniques involving in vitro culture and the applications of the cells.




Intestinal Stem Cell Niche


Book Description

Advances in Stem Cells and Their Niches addresses stem cells during development, homeostasis, and disease/injury of the respective organs, presenting new developments in the field, including new data on disease and clinical applications. Video content illustrates such areas as protocols, transplantation techniques, and work with mice. Explores not only reviews of research, but also shares methods, protocols, and transplantation techniques Contains video content to illustrate such areas as protocols, transplantation techniques, and work with mice Each volume concentrates on one organ, making this a unique publication




Peptidomics


Book Description

The definitive guide to peptidomics- a hands-on lab reference The first truly comprehensive book about peptidomics for protein and peptide analysis, this reference provides a detailed description of the hows and whys of peptidomics and how the techniques have evolved. With chapters contributed by leading experts, it covers naturally occurring peptides, peptidomics methods and new developments, and the peptidomics approach to biomarker discovery. Explaining both the principles and the applications, Peptidomics: Methods and Applications: * Features examples of applications in diverse fields, including pharmaceutical science, toxicity biomarkers, and neuroscience * Details the successful peptidomic analyses of biological material ranging from plants to mammals * Describes a cross section of analytical techniques, including traditional methodologies, emerging trends, and new techniques for high throughput approaches An enlightening reference for experienced professionals, this book is sufficiently detailed to serve as a step-by-step guide for beginning researchers and an excellent resource for students taking biotechnology and proteomics courses. It is an invaluable reference for protein chemists and biochemists, professionals and researchers in drug and biopharmaceutical development, analytical and bioanalytical chemists, toxicologists, and others.