Products for Morphogen Research

Total Page:16

File Type:pdf, Size:1020Kb

Products for Morphogen Research R&D Systems Tools for Cell Biology Research™ Products for Morphogen Research BMP-4 NEURAL PLATE BMP-7 PROSPECTIVE NEURAL CREST NON-NEURAL ECTODERM Noggin Shh Noggin PRESOMITIC MESODERM NOTOCHORD NON-NEURAL ECTODERM FUTURE FLOOR PLATE BMP-4 Shh Noggin DORSAL AORTA ROOF PLATE Products for Morphogen Research for Products Noggin Wnt-1 Wnt-3a Wnt-4 NT-3 Wnt-6 Wnt-7a EARLY SOMITE Myf5 NEURAL TUBE Pax3 Sim1 BMP-4 INTERMEDIATE MESODERM Shh ShhShh NogginNoggin BMP-4 DORSAL AORTA Ihh NOTOCHORD MORPHOGENS Morphogens are molecules that regulate cell fate during development. Formation of morphogen concentration gradients directs the biological responses of surrounding cells. Graded responses occur as a result of morphogens binding to specific cell surface receptors that subsequently activate intracellular signaling pathways and promote or repress gene expression at specific threshold concentrations. Activation or inactivation of these signaling pathways provides positional information that ultimately determines tissue organization and morphology. Research in model organisms has revealed that morphogens are involved in many aspects of development. For example, morphogens are required in Drosophila for patterning of the dorso-ventral and anterior-posterior axes, segment patterning, and positional signaling in the leg and wing imaginal discs. Proteins belonging to the Wingless/Wnt, Notch, Hedgehog, and TGF-b families have been identified as morphogens that direct a number of these processes. Research in higher organisms has demonstrated that homologues of these same signaling molecules regulate vertebrate axis formation, anterior/posterior polarity during limb development, mesoderm patterning, and numerous other processes that establish an organism’s basic body structure. R&D Systems offers a wide selection of proteins, antibodies, and ELISAs for morphogen-related developmental research. Wnt Family Stress Fibers b-Catenin Merge The molecular name Wnt is derived from Wingless, the Drosophila melanogaster segment polarity gene, and Integrase-1, the vertebrate homologue. Untreated Wnts are a large family of secreted glyco proteins that bind to seven transmembrane G protein- coupled receptors belonging to the Frizzled fami- ly. Frizzled proteins form co-receptor complexes with LRP, ROR, or Ryk molecules. Wnt binding to Frizzled receptors can activate both the canonical Wnt-3a Wnt/b-Catenin signaling pathway and the non- canonical, b-Catenin independent pathways. Wnt signaling regulates multiple developmental processes, including anterior-posterior pattern- ing, patterning of the neural tube and limbs, de- velopment of the reproductive system, somite Wnt-5a development, and formation of the pituitary gland, adrenals, kidneys, and mammary tissues. Demonstration of Wnt-3a and Wnt-5a Bioactivity in Mouse Fibroblasts. Recombinant Mouse Wnt-3a (Catalog # 1324-WN) and Recombinant Human/Mouse Wnt-5a (Catalog # 645-WN) promote stress fiber formation in NIH-3T3 mouse embryonic fibroblast cells, while only Wnt-3a promotes nuclearb -Catenin accumulation. Images courtesy of Dr. Raymond Habas, Robert Wood Johnson School of Medicine. N MW R R 92 66 4000 100 55 43 36 Wnt-3a (High Purity) 90 29 3000 22 80 18 12 70 2000 60 Luciferase Activity Luciferase Proliferation (RFU) Proliferation 50 1000 40 0 0 0.0001 0.001 0.01 0.1 1.0 10 0 0.1 1 10 Wnt-3a (µg/mL) Wnt-11 (µg/mL) Wnt-3a Induces b-Catenin-responsive Transcriptional Activation. b-Catenin- Detection of Wnt-5a Expression in Embryonic Mouse Muscle. Wnt-5a was detected Wnt-11 Induces Proliferation of Rat Small Intestine Epithelial Cells. The IEC-18 rat responsive transcriptional activation was assessed using the TOPflash TCF reporter in in immersion-fixed frozen sections of embryonic mouse muscle (13 d.p.c.) using Rat small intestine epithelial cell line was treated with increasing concentrations of the HEK293T human embryonic kidney cell line following treatment with Recombi- Anti-Human/Mouse Wnt-5a Monoclonal Antibody (Catalog # MAB645). The tissue was Recombinant Mouse Wnt-11 (Catalog # 6179-WN). Cell proliferation was assessed nant Human Wnt-3a (Catalog # 5036-WN; dark green line) or High Purity Recombinant stained using NorthernLights™ 557-conjugated Anti-Rat Secondary Antibody (Catalog using Resazurin (Catalog # AR002). Human Wnt-3a (Catalog # 5036-WNP; light green line). The purity of the High Purity # NL013; red) and nuclei were counterstained with DAPI (blue). Recombinant Human Wnt-3a protein is highlighted in a silver-stained, SDS-PAGE gel loaded with 1 μg of protein/lane under both non-reducing (N) and reducing (R) condi- tions (inset). MW = Molecular weight markers. NorthernLights is a trademark of R&D Systems, Inc. www.RnDSystems.com Products for Wnt Research RECOMBINANT RECOMBINANT RECOMBINANT MOLECULE & NATURAL PROTEINS ANTIBODIES ELISAs MOLECULE & NATURAL PROTEINS ANTIBODIES ELISAs MOLECULE & NATURAL PROTEINS ANTIBODIES ELISAs APC H JNK1/JNK2 H M R R-Spondin 1 H M H M Axin-1 H M R JNK1 M H M R H M R R-Spondin 2 H H Axin-2 H JNK2 H M R H M R R-Spondin 3 H M H M b-Catenin H M R B Ch X H Kremen-1 M H M M R-Spondin 4 H M M Bcl-9 H Kremen-2 H M R H M Ryk H M Bcl9-2 H LRP-1 H sFRP-1 H H CaM Kinase II H M R X LRP-1 Cluster II H H sFRP-2 M M Casein Kinase H M R LRP-1 Cluster IV H sFRP-3 H M H M H 1α,1γ,1δ,1ε LRP-4 H R sFRP-4 H H Casein Kinase 2b H M R LRP-6 H M H M sFRP-5 H Ccd1/DIXDC1 M MESDC2 M H M Shisa-4 H M Dishevelled-1 H MFRP H H M Soggy-1 H M H M M Dishevelled-2 H MKK7 H SOST/Sclerostin H M H M Dishevelled-3 H Myocilin H TAK1 H Dkk-1 H M R H M R H M NeuroD1 H M TCF-7/TCF-1 H Dkk-2 M M Norrin H M H M TCF7L1 H M Dkk-3 H H M H Nucleoredoxin H WIF-1 H H M H Dkk-4 H M H M H PKCα H M R Wnt-1 M Draxin M H M R PKCb1 H R Wnt-2 H Frizzled-1 H M H M PKCb2 H M Wnt-2b M Frizzled-2 M M PKCγ H M R Wnt-3a H M M Frizzled-3 H M PKCδ H Wnt-4 H M H M Frizzled-4 H M H M PKCε H M R Wnt-5a H M H M R Frizzled-5 H H PKCι/λ H M Wnt-5b M M Frizzled-6 H M PKCι/λ/ζ H M R Wnt-6 H Frizzled-7 H M H M PKCθ H M Wnt-7a H H Frizzled-8 H M M Pygopus-1 H M Wnt-7b H Frizzled-9 M Pygopus-2 H Wnt-8a M Frizzled-10 H Renin R H Wnt-8b H M GSK-3α/b H M R H M R ROCK1 H Wnt-9a H GSK-3α H M R H ROCK2 H M R Wnt-9b M H M GSK-3b H H M R H M R ROR1 Receptor H H Wnt-10a M ICAT H Tyrosine Kinase Wnt-10b M JNK H M R H M R RTK-like Orphan H H Wnt-11 H M Receptor 2/ROR2 KEY: H: Human M: Mouse R: Rat B: Bovine Ch: Chicken X: Xenopus Xwnt-8 mRNA 40 R-Spondin 3 (ng/mL) A. B. 0.001 0.01 0.1 1 10 100 DLD-2C2 MCF-7 SK-MEL-28 35 HeLa A431 35000 24000 30 30000 β-Catenin 20000 cells) 6 Luciferase Activity Luciferase 25 25000 20 16000 Xwnt-8 mRNA + Dkk-1 Inhibitor 20000 15 -Catenin (ng/10 -Catenin Luciferase Activity Luciferase C. D. β 12000 15000 10 5 10000 8000 0.001 0.01 0.1 1 10 100 1000 10000 0 R-Spondin 4 (ng/mL) MCF-7 HeLa A431 SK-MEL-28 DLD-2C2 R-Spondin 3 and R-Spondin 4 Induce b-Catenin-responsive Transcriptional Activa- Dkk-1 Antagonizes Wnt Activity during Xenopus Development. A. 16-cell stage Detection of Intracellular b-Catenin using the DuoSet® IC ELISA Development tion. In the presence of 5 ng/mL Recombinant Mouse Wnt-3a (Catalog # 1324-WN), Xenopus embryos were injected with Xenopus Wnt-8 mRNA into a ventral/vegetal blasto- System. The levels of b-Catenin in lysates prepared from the MCF-7 human breast adeno- increasing concentrations of Recombinant Mouse R-Spondin 3 (Catalog # 4120-RS; brown mere. B. A representative Xenopus embryo (stage 35) injected with Xwnt-8 mRNA forms carcinoma, HeLa human cervical epithelial carcinoma, A431 human epithelial carcincoma, line) and Recombinant Mouse R-Spondin 4 (Catalog # 4106-RS; green line) stimulate a secondary axis. C. To counter the effects of Xwnt-8 mRNA, a Wnt antagonist protein, SK-MEL-28 human malignant melanoma, and DLD-2C2 human colorectal adrenocarcino- transcriptional activation of the TOPflash b-Catenin/TCF reporter in the human kidney Recombinant Human Dkk-1 (Catalog # 5439-DK), was injected into the spaces near the ma cell lines were assessed using the Human Total b-Catenin DuoSet IC ELISA (Catalog # cell line, HEK293T. Xwnt-8 mRNA injection site at the 64-cell stage. D. A representative embryo injected with DYC1329; bar graph). The results of the DuoSet IC ELISA are consistent with the relative Xwnt-8 mRNA and then rescued by injection with Recombinant Human Dkk-1 prevents levels of b-Catenin detected by Western blot analysis (inset). the development of a secondary axis. For more information visit our website at www.RnDSystems.com/go/Wnt DuoSet is a registered trademark of R&D Systems, Inc.
Recommended publications
  • Functional Analysis of the Homeobox Gene Tur-2 During Mouse Embryogenesis
    Functional Analysis of The Homeobox Gene Tur-2 During Mouse Embryogenesis Shao Jun Tang A thesis submitted in conformity with the requirements for the Degree of Doctor of Philosophy Graduate Department of Molecular and Medical Genetics University of Toronto March, 1998 Copyright by Shao Jun Tang (1998) National Library Bibriothèque nationale du Canada Acquisitions and Acquisitions et Bibiiographic Services seMces bibliographiques 395 Wellington Street 395, rue Weifington OtbawaON K1AW OttawaON KYAON4 Canada Canada The author has granted a non- L'auteur a accordé une licence non exclusive licence alIowing the exclusive permettant à la National Library of Canada to Bibliothèque nationale du Canada de reproduce, loan, distri%uteor sell reproduire, prêter' distribuer ou copies of this thesis in microform, vendre des copies de cette thèse sous paper or electronic formats. la forme de microfiche/nlm, de reproduction sur papier ou sur format électronique. The author retains ownership of the L'auteur conserve la propriété du copyright in this thesis. Neither the droit d'auteur qui protège cette thèse. thesis nor substantial extracts fkom it Ni la thèse ni des extraits substantiels may be printed or otherwise de celle-ci ne doivent être imprimés reproduced without the author's ou autrement reproduits sans son permission. autorisation. Functional Analysis of The Homeobox Gene TLr-2 During Mouse Embryogenesis Doctor of Philosophy (1998) Shao Jun Tang Graduate Department of Moiecular and Medicd Genetics University of Toronto Abstract This thesis describes the clonhg of the TLx-2 homeobox gene, the determination of its developmental expression, the characterization of its fiuiction in mouse mesodem and penpheral nervous system (PNS) developrnent, the regulation of nx-2 expression in the early mouse embryo by BMP signalling, and the modulation of the function of nX-2 protein by the 14-3-3 signalling protein during neural development.
    [Show full text]
  • Rapid Changes in Morphogen Concentration Control Self-Organized
    RESEARCH COMMUNICATION Rapid changes in morphogen concentration control self-organized patterning in human embryonic stem cells Idse Heemskerk1†, Kari Burt1, Matthew Miller1, Sapna Chhabra2, M Cecilia Guerra1, Lizhong Liu1, Aryeh Warmflash1,3* 1Department of Biosciences, Rice University, Houston, United States; 2Systems, Synthetic and Physical Biology Program, Rice University, Houston, United States; 3Department of Bioengineering, Rice University, Houston, United States Abstract During embryonic development, diffusible signaling molecules called morphogens are thought to determine cell fates in a concentration-dependent way. Yet, in mammalian embryos, concentrations change rapidly compared to the time for making cell fate decisions. Here, we use human embryonic stem cells (hESCs) to address how changing morphogen levels influence differentiation, focusing on how BMP4 and Nodal signaling govern the cell-fate decisions associated with gastrulation. We show that BMP4 response is concentration dependent, but that expression of many Nodal targets depends on rate of concentration change. Moreover, in a self- organized stem cell model for human gastrulation, expression of these genes follows rapid changes in endogenous Nodal signaling. Our study shows a striking contrast between the specific ways ligand dynamics are interpreted by two closely related signaling pathways, highlighting both the *For correspondence: subtlety and importance of morphogen dynamics for understanding mammalian embryogenesis [email protected] and designing optimized protocols for directed stem cell differentiation. Editorial note: This article has been through an editorial process in which the authors decide how † Present address: Department to respond to the issues raised during peer review. The Reviewing Editor’s assessment is that all of Cell and Developmental the issues have been addressed (see decision letter).
    [Show full text]
  • Annominer Is a New Web-Tool to Integrate Epigenetics, Transcription
    www.nature.com/scientificreports OPEN AnnoMiner is a new web‑tool to integrate epigenetics, transcription factor occupancy and transcriptomics data to predict transcriptional regulators Arno Meiler1,3, Fabio Marchiano2,3, Margaux Haering2, Manuela Weitkunat1, Frank Schnorrer1,2 & Bianca H. Habermann1,2* Gene expression regulation requires precise transcriptional programs, led by transcription factors in combination with epigenetic events. Recent advances in epigenomic and transcriptomic techniques provided insight into diferent gene regulation mechanisms. However, to date it remains challenging to understand how combinations of transcription factors together with epigenetic events control cell‑type specifc gene expression. We have developed the AnnoMiner web‑server, an innovative and fexible tool to annotate and integrate epigenetic, and transcription factor occupancy data. First, AnnoMiner annotates user‑provided peaks with gene features. Second, AnnoMiner can integrate genome binding data from two diferent transcriptional regulators together with gene features. Third, AnnoMiner ofers to explore the transcriptional deregulation of genes nearby, or within a specifed genomic region surrounding a user‑provided peak. AnnoMiner’s fourth function performs transcription factor or histone modifcation enrichment analysis for user‑provided gene lists by utilizing hundreds of public, high‑quality datasets from ENCODE for the model organisms human, mouse, Drosophila and C. elegans. Thus, AnnoMiner can predict transcriptional regulators for a studied
    [Show full text]
  • Analysis on Gene Modular Network Reveals Morphogen-Directed Development Robustness in Drosophila
    Zhang et al. Cell Discovery (2020) 6:43 Cell Discovery https://doi.org/10.1038/s41421-020-0173-z www.nature.com/celldisc ARTICLE Open Access Analysis on gene modular network reveals morphogen-directed development robustness in Drosophila Shuo Zhang1,2,JuanZhao1,3, Xiangdong Lv1,2, Jialin Fan1,2,YiLu1,TaoZeng 1,3, Hailong Wu1, Luonan Chen 1,3,4,5 and Yun Zhao1,4,6 Abstract Genetic robustness is an important characteristic to tolerate genetic or nongenetic perturbations and ensure phenotypic stability. Morphogens, a type of evolutionarily conserved diffusible molecules, govern tissue patterns in a direction-dependent or concentration-dependent manner by differentially regulating downstream gene expression. However, whether the morphogen-directed gene regulatory network possesses genetic robustness remains elusive. In the present study, we collected 4217 morphogen-responsive genes along A-P axis of Drosophila wing discs from the RNA-seq data, and clustered them into 12 modules. By applying mathematical model to the measured data, we constructed a gene modular network (GMN) to decipher the module regulatory interactions and robustness in morphogen-directed development. The computational analyses on asymptotical dynamics of this GMN demonstrated that this morphogen-directed GMN is robust to tolerate a majority of genetic perturbations, which has been further validated by biological experiments. Furthermore, besides the genetic alterations, we further demonstrated that this morphogen-directed GMN can well tolerate nongenetic perturbations (Hh production changes) via computational fi 1234567890():,; 1234567890():,; 1234567890():,; 1234567890():,; analyses and experimental validation. Therefore, these ndings clearly indicate that the morphogen-directed GMN is robust in response to perturbations and is important for Drosophila to ensure the proper tissue patterning in wing disc.
    [Show full text]
  • Tinkering and the Origins of Heritable Anatomical Variation in Vertebrates
    biology Review Tinkering and the Origins of Heritable Anatomical Variation in Vertebrates Jonathan B. L. Bard Department of Anatomy, Physiology & Genetics, University of Oxford, Oxford OX313QX, UK; [email protected] Received: 9 October 2017; Accepted: 18 February 2018; Published: 26 February 2018 Abstract: Evolutionary change comes from natural and other forms of selection acting on existing anatomical and physiological variants. While much is known about selection, little is known about the details of how genetic mutation leads to the range of heritable anatomical variants that are present within any population. This paper takes a systems-based view to explore how genomic mutation in vertebrate genomes works its way upwards, though changes to proteins, protein networks, and cell phenotypes to produce variants in anatomical detail. The evidence used in this approach mainly derives from analysing anatomical change in adult vertebrates and the protein networks that drive tissue formation in embryos. The former indicate which processes drive variation—these are mainly patterning, timing, and growth—and the latter their molecular basis. The paper then examines the effects of mutation and genetic drift on these processes, the nature of the resulting heritable phenotypic variation within a population, and the experimental evidence on the speed with which new variants can appear under selection. The discussion considers whether this speed is adequate to explain the observed rate of evolutionary change or whether other non-canonical, adaptive mechanisms of heritable mutation are needed. The evidence to hand suggests that they are not, for vertebrate evolution at least. Keywords: anatomical change; evolutionary change; developmental process; embryogenesis; growth; mutation; patterning in embryos; protein network; systems biology; variation 1.
    [Show full text]
  • Morphogen Rules: Design Principles of Gradient-Mediated Embryo Patterning James Briscoe1,* and Stephen Small2,*
    © 2015. Published by The Company of Biologists Ltd | Development (2015) 142, 3996-4009 doi:10.1242/dev.129452 REVIEW Morphogen rules: design principles of gradient-mediated embryo patterning James Briscoe1,* and Stephen Small2,* ABSTRACT tissue patterning is controlled by a concentration gradient of a The Drosophila blastoderm and the vertebrate neural tube are morphogen, and that cells acquire positional information by directly archetypal examples of morphogen-patterned tissues that create measuring the concentration of morphogen to which they are precise spatial patterns of different cell types. In both tissues, pattern exposed. In this view, specific threshold concentrations establish formation is dependent on molecular gradients that emanate from boundaries of target gene expression, which foreshadow boundaries opposite poles. Despite distinct evolutionary origins and differences between cells of different fates. in time scales, cell biology and molecular players, both tissues exhibit Although they have evolved over the years to accommodate striking similarities in the regulatory systems that establish gene changing facts and fashions, these ideas have had a profound expression patterns that foreshadow the arrangement of cell types. influence on generations of developmental biologists. The molecular First, signaling gradients establish initial conditions that polarize the genetics revolution of the 1980s and 1990s led to the identification of tissue, but there is no strict correspondence between specific several molecules that behave as graded patterning signals (Driever morphogen thresholds and boundary positions. Second, gradients and Nüsslein-Volhard, 1988a; Ferguson and Anderson, 1992; Green initiate transcriptional networks that integrate broadly distributed and Smith, 1990; Katz et al., 1995; Riddle et al., 1993; Tickle et al., activators and localized repressors to generate patterns of gene 1985).
    [Show full text]
  • Signal Dynamics in Sonic Hedgehog Tissue Patterning
    RESEARCH ARTICLE 889 Development 133, 889-900 doi:10.1242/dev.02254 Signal dynamics in Sonic hedgehog tissue patterning Krishanu Saha and David V. Schaffer* During development, secreted signaling factors, called morphogens, instruct cells to adopt specific mature phenotypes. However, the mechanisms that morphogen systems employ to establish a precise concentration gradient for patterning tissue architecture are highly complex and are typically analyzed only at long times after secretion (i.e. steady state). We have developed a theoretical model that analyzes dynamically how the intricate transport and signal transduction mechanisms of a model morphogen, Sonic hedgehog (Shh), cooperate in modular fashion to regulate tissue patterning in the neural tube. Consistent with numerous recent studies, the model elucidates how the dynamics of gradient formation can be a key determinant of cell response. In addition, this work yields several novel insights into how different transport mechanisms or ‘modules’ control pattern formation. The model predicts that slowing the transport of a morphogen, such as by lipid modification of the ligand Shh, by ligand binding to proteoglycans, or by the moderate upregulation of dedicated transport molecules like Dispatched, can actually increase the signaling range of the morphogen by concentrating it near the secretion source. Furthermore, several transcriptional targets of Shh, such as Patched and Hedgehog-interacting protein, significantly limit its signaling range by slowing transport and promoting ligand degradation. This modeling approach elucidates how individual modular elements that operate dynamically at various times during patterning can shape a tissue pattern. KEY WORDS: Morphogen, Sonic hedgehog, Diffusion, Transport, Modeling INTRODUCTION patterning (Chen et al., 2004; Han et al., 2004; Takei et al., 2004).
    [Show full text]
  • Creating Gradients by Morphogen Shuttling
    Review Creating gradients by morphogen shuttling Ben-Zion Shilo, Michal Haskel-Ittah, Danny Ben-Zvi, Eyal D. Schejter, and Naama Barkai Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Morphogen gradients are used to pattern a field of cells Because the responding cells monitor the level of the according to variations in the concentration of a signal- morphogen and differentiate accordingly, the change in ing molecule. Typically, the morphogen emanates from morphogen levels over space should be sufficiently steep, a confined group of cells. During early embryogenesis, such that distinct levels can be reproducibly sensed at however, the ability to define a restricted source for different positions. In addition, the distribution of the morphogen production is limited. Thus, various early morphogen should not fluctuate markedly when the pro- patterning systems rely on a broadly expressed morpho- duction rates of the morphogen and the components it gen that generates an activation gradient within its triggers are altered by asymmetric segregation, genetic expression domain. Computational and experimental perturbations such as heterozygosity to mutations, or work has shed light on how a sharp and robust gradient changing environmental conditions. Collectively, these can be established under those situations, leading to a features are termed ‘robustness’. mechanism termed ‘morphogen shuttling’. This mecha- Two different configurations have been shown to pro- nism relies on an extracellular shuttling molecule that vide a source for the localized release of a morphogen. One forms an inert, highly diffusible complex with the mor- setup involves the juxtaposition of two distinct types of phogen. Morphogen release from the complex following tissues, one of which produces the morphogen but does not cleavage of the shuttling molecule by an extracellular respond to it, whereas the other tissue does [through protease leads to the accumulation of free ligand at the tissue-specific expression of a downstream factor(s)].
    [Show full text]
  • The Significance and Scope of Evolutionary Developmental Biology 199
    EVOLUTION & DEVELOPMENT 17:3, 198–219 (2015) DOI: 10.1111/ede.12125 The significance and scope of evolutionary developmental biology: a vision for the 21st century Armin P. Moczek,a,* Karen E. Sears,b Angelika Stollewerk,c Patricia J. Wittkopp,d Pamela Diggle,e Ian Dworkin,f Cristina Ledon-Rettig,a David Q. Matus,g Siegfried Roth,h Ehab Abouheif,i Federico D. Brown,j Chi-Hua Chiu,k C. Sarah Cohen,l Anthony W. De Tomaso,m Scott F. Gilbert,n Brian Hall,o Alan C. Love,p Deirdre C. Lyons,q Thomas J. Sanger,r Joel Smith,s Chelsea Specht,t Mario Vallejo-Marin,u and Cassandra G. Extavourv a Department of Biology, Indiana University, 915 East 3rd Street, Bloomington, IN 47405, USA b School of Integrative Biology and Institute for Genomic Biology, University of Illinois, 505 South Goodwin Avenue, Urbana, IL 61801, USA c School of Biological and Chemical Sciences, Queen Mary, University of London, Mile End Road, London E1 4NS, UK d Department of Ecology and Evolutionary Biology, Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, MI, USA e Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA f Department of Biology, McMaster University, 1280 Main St. West Hamilton, Ontario L8S 4K1, Canada g Department of Biochemistry and Cell Biology, Stony Brook University, 412 Life Sciences Building, Stony Brook, NY 11794-5215, USA h University of Cologne, Institute of Developmental Biology, Biocenter, Zulpicher€ Straße 47b, D-50674, Cologne, Germany i Department of Biology, McGill University, 1205 Avenue Docteur Penfield, Montreal Quebec H3A 1B1, Canada j Departamento de Zoologia, Instituto Biociencias,^ Universidade de Sao~ Paulo, Rua do Matao,~ Travessa 14, no.
    [Show full text]
  • TET1 Deficiency Impairs Morphogen-Free Differentiation Of
    www.nature.com/scientificreports OPEN TET1 Defciency Impairs Morphogen-free Diferentiation of Human Embryonic Stem Cells to Neuroectoderm Hanqin Li1, Zhixing Hu1, Houbo Jiang1, Jiali Pu2, Ilana Selli1, Jingxin Qiu3, Baorong Zhang2 & Jian Feng1 ✉ The TET family of 5-methylcytosine (5mC) dioxygenases plays critical roles in development by modifying DNA methylation. Using CRISPR, we inactivated the TET1 gene in H9 human embryonic stem cells (hESCs). Mutant H9 hESCs remained pluripotent, even though the level of hydroxymethylcytosine (5hmC) decreased to 30% of that in wild-type cells. Neural diferentiation induced by dual SMAD inhibitors was not signifcantly afected by loss of TET1 activity. However, in a morphogen-free condition, TET1 defciency signifcantly reduced the generation of NESTIN+SOX1+ neuroectoderm cells from 70% in wild-type cells to 20% in mutant cells. This was accompanied by a 20-fold reduction in the expression level of PAX6 and a signifcant decrease in the amount of 5hmC on the PAX6 promoter. Overexpression of the TET1 catalytic domain in TET1-defcient hESCs signifcantly increased 5hmC levels and elevated PAX6 expression during diferentiation. Consistent with these in vitro data, PAX6 expression was signifcantly decreased in teratomas formed by TET1-defcient hESCs. However, TET1 defciency did not prevent the formation of neural tube-like structures in teratomas. Our results suggest that TET1 defciency impairs the intrinsic ability of hESCs to diferentiate to neuroectoderm, presumably by decreasing the expression of PAX6, a key regulator in the development of human neuroectoderm. Te utility of human pluripotent stem cells (hPSCs) including human Embryonic Stem Cells (hESCs) lies in their abilities for unlimited self-renewal and their potential to diferentiate to all types of somatic cells1 for many applications including cell replacement therapies2.
    [Show full text]
  • Initiation of Diverse Epigenetic States During Nuclear Programming of the Drosophila Body Plan
    Initiation of diverse epigenetic states during nuclear programming of the Drosophila body plan Ann Boijaa and Mattias Mannervika,1 aDepartment of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University, 10691 Stockholm, Sweden Edited by Ruth Lehmann, New York University Medical Center, New York, NY, and approved June 17, 2016 (received for review August 18, 2015) Epigenetic patterns of histone modifications contribute to the main- and B). Comparing these embryos with naïve cells, we found that tenance of tissue-specific gene expression. Here, we show that such the pioneer factor, Zelda, establishes poised RNA polymerase modifications also accompany the specification of cell identities by at Dorsal target genes before zygotic activation. Upon Dorsal- the NF-κB transcription factor Dorsal in the precellular Drosophila mediated cell specification, three distinct histone signatures are embryo. We provide evidence that the maternal pioneer factor, produced, including two modes of transcriptional repression. Our Zelda, is responsible for establishing poised RNA polymerase at Dor- results show how transcription factors coordinate gene activity sal target genes before Dorsal-mediated zygotic activation. At the with initial establishment of distinct epigenetic patterns of histone onset of cell specification, Dorsal recruits the CBP/p300 coactivator modifications. to the regulatory regions of defined target genes in the presump- tive neuroectoderm, resulting in their histone acetylation and tran- Results and Discussion scriptional activation. These genes are inactive in the mesoderm due To investigate the mechanisms by which the Dorsal gradient to transcriptional quenching by the Snail repressor, which precludes generates tissue-specific gene expression and what chromatin recruitment of CBP and prevents histone acetylation.
    [Show full text]
  • Physical Determinants in the Emergence and Inheritance of Multicellular Form Stuart A. Newman & Marta Linde- Medina
    Physical Determinants in the Emergence and Inheritance of Multicellular Form Stuart A. Newman & Marta Linde- Medina Biological Theory ISSN 1555-5542 Volume 8 Number 3 Biol Theory (2013) 8:274-285 DOI 10.1007/s13752-013-0116-0 1 23 Your article is protected by copyright and all rights are held exclusively by Konrad Lorenz Institute for Evolution and Cognition Research. This e-offprint is for personal use only and shall not be self-archived in electronic repositories. If you wish to self-archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com”. 1 23 Author's personal copy Biol Theory (2013) 8:274–285 DOI 10.1007/s13752-013-0116-0 THEMATIC ISSUE ARTICLE: EMERGENCE OF SHAPE Physical Determinants in the Emergence and Inheritance of Multicellular Form Stuart A. Newman • Marta Linde-Medina Received: 23 February 2013 / Accepted: 24 February 2013 / Published online: 23 May 2013 Ó Konrad Lorenz Institute for Evolution and Cognition Research 2013 Abstract We argue that the physics of complex materials Keywords Dynamical patterning modules Á Embryonic and self-organizing processes should be made central to the hourglass Á Interaction toolkit Á Mesoscale physics Á biology of form.
    [Show full text]