TEG-1 CD2BP2 Regulates Stem Cell Proliferation and Sex Determination in the C

Total Page:16

File Type:pdf, Size:1020Kb

TEG-1 CD2BP2 Regulates Stem Cell Proliferation and Sex Determination in the C DEVELOPMENTAL DYNAMICS 241:505–521, 2012 a RESEARCH ARTICLE TEG-1 CD2BP2 Regulates Stem Cell Proliferation and Sex Determination in the C. elegans Germ Line and Physically Interacts With the UAF-1 U2AF65 Splicing Factor Chris Wang,1 Laura Wilson-Berry,2 Tim Schedl,2 and Dave Hansen1* Background: For a stem cell population to exist over an extended period, a balance must be maintained between self-renewing (proliferating) and differentiating daughter cells. Within the Caenorhabditis ele- gans germ line, this balance is controlled by a genetic regulatory pathway, which includes the canonical Notch signaling pathway. Results: Genetic screens identified the gene teg-1 as being involved in regulat- ing the proliferation versus differentiation decision in the C. elegans germ line. Cloning of TEG-1 revealed that it is a homolog of mammalian CD2BP2, which has been implicated in a number of cellular processes, including in U4/U6.U5 tri-snRNP formation in the pre-mRNA splicing reaction. The position of teg-1 in the genetic pathway regulating the proliferation versus differentiation decision, its single mutant phenotype, and its enrichment in nuclei, all suggest TEG-1 also functions as a splicing factor. TEG-1, as well as its human homolog, CD2BP2, directly bind to UAF-1 U2AF65, a component of the U2 auxiliary factor. Conclusions: TEG-1 functions as a splicing factor and acts to regulate the proliferation versus meiosis decision. The interaction of TEG-1 CD2BP2 with UAF-1 U2AF65, combined with its previously described function in U4/U6.U5 tri-snRNP, suggests that TEG-1 CD2BP2 functions in two distinct locations in the splicing cascade. Developmental Dynamics 241:505–521, 2012. VC 2012 Wiley Periodicals, Inc. Key words: CD2BP2; TEG-1; stem cell proliferation; pre-mRNA splicing; UAF-1; U2AF65 Key findings: Developmental Dynamics TEG-1 inhibits stem cell proliferation in the C. elegans germ line. TEG-1 likely functions as a splicing factor. TEG-1 CDBP2 physically interacts with UAF-1 U2AF65. Accepted 3 January 2012 INTRODUCTION is tied to their ability to produce to make the desired tissue. Maintain- both self-renewing and differentiating ing the balance between self-renewing Stem cells provide the material neces- sary for tissue generation during devel- daughter cells. Self-renewing daughter and differentiating daughter cells is opment, and tissue replacement and cells retain the stem cell characteristics key to proper stem cell function since a repair in adult animals. The capacity of of the parental cell; therefore, a pool of disruption in this balance prevents stemcellstocontributetotheseproc- stem cells is maintained over time. The long term tissue generation; too little esses over an extended time period differentiating daughter cells are used self-renewal results in the eventual 1University of Calgary, Department of Biological Sciences, Alberta, Calgary, Canada 2Department of Genetics, Washington University School of Medicine, St. Louis, Missouri Grant sponsor: Canadian Institutes of Health Research (CIHR); Natural Sciences and Engineering Research Council of Canada (NSERC); National Institutes of Health (NIH); Grant number: GM63310. *Correspondence to: Dave Hansen, Department of Biological Sciences, University of Calgary, Calgary, Alberta, Canada T2N 1N4. E-mail: [email protected] DOI 10.1002/dvdy.23735 Published online 30 January 2012 in Wiley Online Library (wileyonlinelibrary.com). VC 2012 Wiley Periodicals, Inc. 506 WANG ET AL. depletion of the stem cell population, decrease, allowing cells to enter mei- proliferative fate, resulting in a com- while too little differentiation results in otic prophase. The first obvious indica- plete germline tumor (Berry et al., not enough cells being made for proper tion that cells have entered into mei- 1997; Hansen et al., 2004a). Other tissue generation. Understanding how otic prophase is when the DNA takes genes have been identified that func- this balance between self-renewal and on a crescent moon shape as chromo- tion with the GLP-1/Notch signaling differentiation is maintained is an somes pair and synapse (Francis et al., and gld-1/gld-2 pathways, or parallel essential step in understanding stem 1995a; Dernburg et al., 1998; Mac- to them, to regulate the balance cell biology and function. Queen and Villeneuve, 2001). Cells between proliferation and differentia- The germ line of the nematode continue to move proximally while tion. These genes function in many Caenorhabditis elegans has emerged transiting through the various stages different cellular processes. For exam- as a powerful model to study how a of meiotic prophase, eventually form- ple, mutations that decrease the func- stem cell population maintains the ing fully differentiated gametes tion of the proteasome enhance over- balance between self-renewal and dif- (sperm or oocytes depending on the proliferation mutants, indicating a ferentiation (Hansen and Schedl, age of the hermaphrodite). function to promote meiotic develop- 2006; Kimble and Crittenden, 2007). The GLP-1/Notch signaling path- ment (MacDonald et al., 2008). As In the C. elegans hermaphrodite, the way promotes the proliferative fate, another example, the cell-cycle regu- germ line is contained in two gonad at least in part, by inhibiting the lators Cyclin E (CYE-1) and CDK2 arms that meet at a common uterus. activities of two redundant meiotic (CDK-2) promote the proliferative Populations of mitotically dividing promoting genetic pathways, referred fate (Fox et al., 2011; Jeong et al., (proliferating) cells exist at the ends to as the gld-1 and gld-2 pathways 2011). A number of splicing factors of the two gonad arms distal from the (Kadyk and Kimble, 1998) (Fig. 1B). have also been identified as being uterus (Fig. 1A). In the adult, each Within the gld-1 pathway are the gld- involved in regulating the prolifera- population consists of 200–250 cells 1 and nos-3 genes (Francis et al., tion versus differentiation decision (Lamont et al., 2004; Killian and Hub- 1995b; Hansen et al., 2004b); with (Belfiore et al., 2004; Mantina et al., bard, 2005), with cells progressing gld-1 encoding a KH domain contain- 2009; Kerins et al., 2010; Zanetti through the cell cycle approximately ing RNA binding translational regula- et al., 2011). Genetically, these splic- every 6.5–8 hr (Fox et al., 2011). At tor (Jones and Schedl, 1995), and nos- ing factors appear to function largely least some of these proliferating cells 3 encoding a protein with similarity in the gld-1 pathway, functioning are considered stem cells. Cells are to Drosophila Nanos (Kraemer et al., downstream of GLP-1/Notch signal- kept in the proliferative state due to 1999), also a translational regulator. ing (Fig. 1B). A screen of splicing fac- their close proximity to the Distal Tip Within the gld-2 pathway are the gld- tors found that proteins functioning Cells (DTCs), with a single DTC cap- 2 and gld-3 genes, encoding the cata- throughout the splicing cascade par- ping the distal end of each gonad arm. lytic portion of a poly(A) polymerase ticipate in the proliferation/differen- The proliferation promoting influence (Kadyk and Kimble, 1998), and a tiation decision, suggesting that an of the DTC is primarily accomplished homolog to Drosophila BicC, respec- overall decrease in splicing or spliceo- through the conserved GLP-1/Notch tively (Eckmann et al., 2002). The some activity contributes to over-pro- Developmental Dynamics signaling pathway (Hansen and spatial organization of the activity of liferation (Kerins et al., 2010). Schedl, 2006; Kimble and Crittenden, the GLP-1/Notch signaling pathway Pre-mRNA splicing involves the re- 2007; Racher and Hansen, 2010). The relative to the activities of the gld-1 moval of introns from the pre-mRNA DSL (Delta/Serrate/LAG-2) LAG-2 and gld-2 pathways is key to main- between the exons prior to nuclear and APX-1 ligands are expressed on taining the balance between prolifera- export and translation. The splicing the surface of the DTC (Henderson tion and differentiation. Loss or reaction is accomplished through the et al., 1994; Tax et al., 1994; Nadara- reduction of GLP-1/Notch signaling in activity of the spliceosome, which is a jan et al., 2009). When they bind the the distal end results in ectopic acti- large RNA-Protein complex that is GLP-1/Notch receptor (Yochem and vation of the gld-1 and gld-2 path- assembled in a stepwise manner Greenwald, 1989), which is expressed ways in this region, causing cells to (Wahl et al., 2009; Valadkhan and on the surface of the germ cells (Crit- enter meiosis prematurely and a loss Jaladat, 2010). Some of the earliest tenden et al., 1994), the cleaved intra- of the proliferative population (Austin steps in spliceosome assembly include cellular portion of GLP-1 (referred to and Kimble, 1987; Eckmann et al., recognition of the 50 and 30 splice sites as GLP-1(INTRA)) is thought to enter 2004; Hansen et al., 2004b). Con- on the pre-mRNA by protein or RNA/ the nucleus and bind to the CSL versely, ectopic activation of GLP-1/ protein complexes. The U1 snRNP (CBF1/Suppressor of Hairless/LAG-1) Notch signaling beyond its normal particle, consisting of the U1 snRNA LAG-1 transcription factor (Christen- region of activity, or a combined and a number of proteins, recognizes sen et al., 1996; Mumm and Kopan, reduction in the activities of the and binds to the 50 splice site (Sera- 2000) and the SEL-8/LAG-3 co-activa- redundant gld-1 and gld-2 pathways, phin and Rosbash, 1989; Michaud tor (Doyle et al., 2000; Petcherski and results in excess proliferation (Berry and Reed, 1991). The U2 Auxiliary Kimble, 2000). This complex then acti- et al., 1997; Kadyk and Kimble, 1998; Factor (U2AF) recognizes and binds vates genes necessary for the prolifer- Pepper et al., 2003; Hansen et al., to the 30 splice site (Wahl et al., 2009; ative fate.
Recommended publications
  • Autism Multiplex Family with 16P11.2P12.2 Microduplication Syndrome in Monozygotic Twins and Distal 16P11.2 Deletion in Their Brother
    European Journal of Human Genetics (2012) 20, 540–546 & 2012 Macmillan Publishers Limited All rights reserved 1018-4813/12 www.nature.com/ejhg ARTICLE Autism multiplex family with 16p11.2p12.2 microduplication syndrome in monozygotic twins and distal 16p11.2 deletion in their brother Anne-Claude Tabet1,2,3,4, Marion Pilorge2,3,4, Richard Delorme5,6,Fre´de´rique Amsellem5,6, Jean-Marc Pinard7, Marion Leboyer6,8,9, Alain Verloes10, Brigitte Benzacken1,11,12 and Catalina Betancur*,2,3,4 The pericentromeric region of chromosome 16p is rich in segmental duplications that predispose to rearrangements through non-allelic homologous recombination. Several recurrent copy number variations have been described recently in chromosome 16p. 16p11.2 rearrangements (29.5–30.1 Mb) are associated with autism, intellectual disability (ID) and other neurodevelopmental disorders. Another recognizable but less common microdeletion syndrome in 16p11.2p12.2 (21.4 to 28.5–30.1 Mb) has been described in six individuals with ID, whereas apparently reciprocal duplications, studied by standard cytogenetic and fluorescence in situ hybridization techniques, have been reported in three patients with autism spectrum disorders. Here, we report a multiplex family with three boys affected with autism, including two monozygotic twins carrying a de novo 16p11.2p12.2 duplication of 8.95 Mb (21.28–30.23 Mb) characterized by single-nucleotide polymorphism array, encompassing both the 16p11.2 and 16p11.2p12.2 regions. The twins exhibited autism, severe ID, and dysmorphic features, including a triangular face, deep-set eyes, large and prominent nasal bridge, and tall, slender build. The eldest brother presented with autism, mild ID, early-onset obesity and normal craniofacial features, and carried a smaller, overlapping 16p11.2 microdeletion of 847 kb (28.40–29.25 Mb), inherited from his apparently healthy father.
    [Show full text]
  • A Computational Approach for Defining a Signature of Β-Cell Golgi Stress in Diabetes Mellitus
    Page 1 of 781 Diabetes A Computational Approach for Defining a Signature of β-Cell Golgi Stress in Diabetes Mellitus Robert N. Bone1,6,7, Olufunmilola Oyebamiji2, Sayali Talware2, Sharmila Selvaraj2, Preethi Krishnan3,6, Farooq Syed1,6,7, Huanmei Wu2, Carmella Evans-Molina 1,3,4,5,6,7,8* Departments of 1Pediatrics, 3Medicine, 4Anatomy, Cell Biology & Physiology, 5Biochemistry & Molecular Biology, the 6Center for Diabetes & Metabolic Diseases, and the 7Herman B. Wells Center for Pediatric Research, Indiana University School of Medicine, Indianapolis, IN 46202; 2Department of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202; 8Roudebush VA Medical Center, Indianapolis, IN 46202. *Corresponding Author(s): Carmella Evans-Molina, MD, PhD ([email protected]) Indiana University School of Medicine, 635 Barnhill Drive, MS 2031A, Indianapolis, IN 46202, Telephone: (317) 274-4145, Fax (317) 274-4107 Running Title: Golgi Stress Response in Diabetes Word Count: 4358 Number of Figures: 6 Keywords: Golgi apparatus stress, Islets, β cell, Type 1 diabetes, Type 2 diabetes 1 Diabetes Publish Ahead of Print, published online August 20, 2020 Diabetes Page 2 of 781 ABSTRACT The Golgi apparatus (GA) is an important site of insulin processing and granule maturation, but whether GA organelle dysfunction and GA stress are present in the diabetic β-cell has not been tested. We utilized an informatics-based approach to develop a transcriptional signature of β-cell GA stress using existing RNA sequencing and microarray datasets generated using human islets from donors with diabetes and islets where type 1(T1D) and type 2 diabetes (T2D) had been modeled ex vivo. To narrow our results to GA-specific genes, we applied a filter set of 1,030 genes accepted as GA associated.
    [Show full text]
  • Nascent RNA Sequencing Reveals a Dynamic Global Transcriptional Response at Genes and Enhancers to the Natural Medicinal Compound Celastrol
    bioRxiv preprint doi: https://doi.org/10.1101/117689; this version posted March 16, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Nascent RNA sequencing reveals a dynamic global transcriptional response at genes and enhancers to the natural medicinal compound celastrol Noah Dukler1,2, Gregory T. Booth3, Yi-Fei Huang1, Nathaniel Tippens2,3, Charles G. Danko4, John T. Lis3,*, Adam Siepel1,* 1Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA 2Tri-Institutional Training Program in Computational Biology and Medicine, New York, NY 10065, USA 3Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14850, USA 4Baker Institute for Animal Health, Cornell University, Ithaca, NY 14850, USA *Correspondence should be addressed to JTL ([email protected]) and/or AS ([email protected]) Abstract Most studies of responses to transcriptional stimuli measure changes in cellular mRNA concentrations. By sequencing nascent RNA instead, it is possible to detect changes in transcription in minutes rather than hours, and thereby distinguish primary from secondary responses to regulatory signals. Here, we describe the use of PRO-seq to characterize the immediate transcriptional response in human cells to celastrol, a compound derived from traditional Chinese medicine that has potent anti-inflammatory, tumor-inhibitory and obesity-controlling effects. Our analysis of PRO-seq data for K562 cells reveals dramatic transcriptional effects soon after celastrol treatment at a broad collection of both coding and noncoding transcription units.
    [Show full text]
  • 4-6 Weeks Old Female C57BL/6 Mice Obtained from Jackson Labs Were Used for Cell Isolation
    Methods Mice: 4-6 weeks old female C57BL/6 mice obtained from Jackson labs were used for cell isolation. Female Foxp3-IRES-GFP reporter mice (1), backcrossed to B6/C57 background for 10 generations, were used for the isolation of naïve CD4 and naïve CD8 cells for the RNAseq experiments. The mice were housed in pathogen-free animal facility in the La Jolla Institute for Allergy and Immunology and were used according to protocols approved by the Institutional Animal Care and use Committee. Preparation of cells: Subsets of thymocytes were isolated by cell sorting as previously described (2), after cell surface staining using CD4 (GK1.5), CD8 (53-6.7), CD3ε (145- 2C11), CD24 (M1/69) (all from Biolegend). DP cells: CD4+CD8 int/hi; CD4 SP cells: CD4CD3 hi, CD24 int/lo; CD8 SP cells: CD8 int/hi CD4 CD3 hi, CD24 int/lo (Fig S2). Peripheral subsets were isolated after pooling spleen and lymph nodes. T cells were enriched by negative isolation using Dynabeads (Dynabeads untouched mouse T cells, 11413D, Invitrogen). After surface staining for CD4 (GK1.5), CD8 (53-6.7), CD62L (MEL-14), CD25 (PC61) and CD44 (IM7), naïve CD4+CD62L hiCD25-CD44lo and naïve CD8+CD62L hiCD25-CD44lo were obtained by sorting (BD FACS Aria). Additionally, for the RNAseq experiments, CD4 and CD8 naïve cells were isolated by sorting T cells from the Foxp3- IRES-GFP mice: CD4+CD62LhiCD25–CD44lo GFP(FOXP3)– and CD8+CD62LhiCD25– CD44lo GFP(FOXP3)– (antibodies were from Biolegend). In some cases, naïve CD4 cells were cultured in vitro under Th1 or Th2 polarizing conditions (3, 4).
    [Show full text]
  • Causal Varian Discovery in Familial Congenital Heart Disease - an Integrative -Omic Approach Wendy Demos Marquette University
    Marquette University e-Publications@Marquette Master's Theses (2009 -) Dissertations, Theses, and Professional Projects Causal Varian discovery in Familial Congenital Heart Disease - An Integrative -Omic Approach Wendy Demos Marquette University Recommended Citation Demos, Wendy, "Causal Varian discovery in Familial Congenital Heart Disease - An Integrative -Omic Approach" (2012). Master's Theses (2009 -). 140. https://epublications.marquette.edu/theses_open/140 CAUSAL VARIANT DISCOVERY IN FAMILIAL CONGENITAL HEART DISEASE – AN INTEGRATIVE –OMIC APPROACH by Wendy M. Demos A Thesis submitted to the Faculty of the Graduate School, Marquette University, in Partial Fulfillment of the Requirements for the Degree of Master of Science Milwaukee, Wisconsin May 2012 ABSTRACT CAUSAL VARIANT DISCOVERY IN FAMILIAL CONGENITAL HEART DISEASE – AN INTEGRATIVE –OMIC APPROACH Wendy M. Demos Marquette University, 2012 Background : Hypoplastic left heart syndrome (HLHS) is a congenital heart defect that leads to neonatal death or compromised quality of life for those affected and their families. This syndrome requires extensive medical intervention for the affected to survive. It is characterized by significant underdevelopment or non-existence of the components of the left heart and the aorta, including the left ventricular cavity and mass. There are many factors ranging from genetics to environmental relationships hypothesized to lead to the development of the syndrome, including recent studies suggesting a link between hearing impairment and congenital heart defects (CHD). Although broadly characterized those factors remain poorly understood. The goal of this project is to systematically utilize bioinformatics tools to determine the relationships of novel mutations found in exome sequencing to a familial congenital heart defect. Methods A systematic genomic and proteomic approach involving exome sequencing, pathway analysis, and protein modeling was implemented to examine exome sequencing data of a patient with HLHS.
    [Show full text]
  • CD2BP2 (T-17): Sc-70238
    SAN TA C RUZ BI OTEC HNOL OG Y, INC . CD2BP2 (T-17): sc-70238 BACKGROUND APPLICATIONS CD2BP2 (CD2 (cytoplasmic tail) binding protein 2), also known as LIN1, CD2BP2 (T-17) is recommended for detection of CD2BP2 of mouse, rat and Snu40, FWP010 or U5-52K, is a 341 amino acid protein that localizes to both human origin by Western Blotting (starting dilution 1:200, dilution range the nucleus and the cytoplasm and contains one GYF domain. Expressed in a 1:100- 1:1000), immunoprecipitation [1-2 µg per 100-500 µg of total protein variety of tissues, CD2BP2 exists as a bi-functional protein that, in the nucle - (1 ml of cell lysate)], immunofluorescence (starting dilution 1:50, dilution us, is a component of the U5 small nuclear ribonucleoprotein complex and, in range 1:50-1:500), immunohistochemistry (including paraffin-embedded sec - the cytoplasm, binds to the tail of the CD2 antigen. Via its multifunctional tions) (starting dilution 1:50, dilution range 1:50-1:500) and solid phase ELISA activity, CD2BP2 participates in RNA splicing and regulates CD2-triggered (starting dilution 1:30, dilution range 1:30-1:3000). T- lymphocyte activation. The gene encoding CD2BP2 maps to human chromo - CD2BP2 (T-17) is also recommended for detection of CD2BP2 in additional some 16, which encodes over 900 genes and comprises nearly 3% of the species, including equine, canine, bovine and porcine. human genome. The GAN gene is located on chromosome 16 and, with muta - tion, may lead to giant axonal neuropathy, a nervous system disorder charac - Suitable for use as control antibody for CD2BP2 siRNA (h): sc-72826, terized by increasing malfunction with growth.
    [Show full text]
  • Dissertation
    Regulation of gene silencing: From microRNA biogenesis to post-translational modifications of TNRC6 complexes DISSERTATION zur Erlangung des DOKTORGRADES DER NATURWISSENSCHAFTEN (Dr. rer. nat.) der Fakultät Biologie und Vorklinische Medizin der Universität Regensburg vorgelegt von Johannes Danner aus Eggenfelden im Jahr 2017 Das Promotionsgesuch wurde eingereicht am: 12.09.2017 Die Arbeit wurde angeleitet von: Prof. Dr. Gunter Meister Johannes Danner Summary ‘From microRNA biogenesis to post-translational modifications of TNRC6 complexes’ summarizes the two main projects, beginning with the influence of specific RNA binding proteins on miRNA biogenesis processes. The fate of the mature miRNA is determined by the incorporation into Argonaute proteins followed by a complex formation with TNRC6 proteins as core molecules of gene silencing complexes. miRNAs are transcribed as stem-loop structured primary transcripts (pri-miRNA) by Pol II. The further nuclear processing is carried out by the microprocessor complex containing the RNase III enzyme Drosha, which cleaves the pri-miRNA to precursor-miRNA (pre-miRNA). After Exportin-5 mediated transport of the pre-miRNA to the cytoplasm, the RNase III enzyme Dicer cleaves off the terminal loop resulting in a 21-24 nt long double-stranded RNA. One of the strands is incorporated in the RNA-induced silencing complex (RISC), where it directly interacts with a member of the Argonaute protein family. The miRNA guides the mature RISC complex to partially complementary target sites on mRNAs leading to gene silencing. During this process TNRC6 proteins interact with Argonaute and recruit additional factors to mediate translational repression and target mRNA destabilization through deadenylation and decapping leading to mRNA decay.
    [Show full text]
  • Role and Regulation of the P53-Homolog P73 in the Transformation of Normal Human Fibroblasts
    Role and regulation of the p53-homolog p73 in the transformation of normal human fibroblasts Dissertation zur Erlangung des naturwissenschaftlichen Doktorgrades der Bayerischen Julius-Maximilians-Universität Würzburg vorgelegt von Lars Hofmann aus Aschaffenburg Würzburg 2007 Eingereicht am Mitglieder der Promotionskommission: Vorsitzender: Prof. Dr. Dr. Martin J. Müller Gutachter: Prof. Dr. Michael P. Schön Gutachter : Prof. Dr. Georg Krohne Tag des Promotionskolloquiums: Doktorurkunde ausgehändigt am Erklärung Hiermit erkläre ich, dass ich die vorliegende Arbeit selbständig angefertigt und keine anderen als die angegebenen Hilfsmittel und Quellen verwendet habe. Diese Arbeit wurde weder in gleicher noch in ähnlicher Form in einem anderen Prüfungsverfahren vorgelegt. Ich habe früher, außer den mit dem Zulassungsgesuch urkundlichen Graden, keine weiteren akademischen Grade erworben und zu erwerben gesucht. Würzburg, Lars Hofmann Content SUMMARY ................................................................................................................ IV ZUSAMMENFASSUNG ............................................................................................. V 1. INTRODUCTION ................................................................................................. 1 1.1. Molecular basics of cancer .......................................................................................... 1 1.2. Early research on tumorigenesis ................................................................................. 3 1.3. Developing
    [Show full text]
  • Aberrant TAL1 Activation Is Mediated by an Interchromosomal Interaction in Human T-Cell Acute Lymphoblastic Leukemia
    Leukemia (2014) 28, 349–361 & 2014 Macmillan Publishers Limited All rights reserved 0887-6924/14 www.nature.com/leu ORIGINAL ARTICLE Aberrant TAL1 activation is mediated by an interchromosomal interaction in human T-cell acute lymphoblastic leukemia B Patel1,7, Y Kang1,2,7, K Cui3, M Litt4, MSJ Riberio1, C Deng1, T Salz1, S Casada4,XFu2, Y Qiu5,6, K Zhao3 and S Huang1,6 Long-range chromatin interactions control metazoan gene transcription. However, the involvement of intra- and interchromosomal interactions in development and oncogenesis remains unclear. TAL1/SCL is a critical transcription factor required for the development of all hematopoietic lineages; yet, aberrant TAL1 transcription often occurs in T-cell acute lymphoblastic leukemia (T-ALL). Here, we report that oncogenic TAL1 expression is regulated by different intra- and interchromosomal loops in normal hematopoietic and leukemic cells, respectively. These intra- and interchromosomal loops alter the cell-type-specific enhancers that interact with the TAL1 promoter. We show that human SET1 (hSET1)-mediated H3K4 methylations promote a long-range chromatin loop, which brings the þ 51 enhancer in close proximity to TAL1 promoter 1 in erythroid cells. The CCCTC-binding factor (CTCF) facilitates this long-range enhancer/promoter interaction of the TAL1 locus in erythroid cells while blocking the same enhancer/ promoter interaction of the TAL1 locus in human T-cell leukemia. In human T-ALL, a T-cell-specific transcription factor c-Maf- mediated interchromosomal interaction brings the TAL1 promoter into close proximity with a T-cell-specific regulatory element located on chromosome 16, activating aberrant TAL1 oncogene expression.
    [Show full text]
  • Goat Anti-CD2BP2 (N Terminus) Antibody Catalog No: Tcva06414
    Web: www.taiclone.com Tel: +886-2-2735-9682 Email: [email protected] Goat anti-CD2BP2 (N Terminus) Antibody Catalog No: tcva06414 Available Sizes Size: 100µg Specifications Application: Pep-ELISA, WB, IHC Research Area: T cell regulation; immunology; splicing Species Reactivity: Human, Mouse, Rat, Dog, Cow Host Species: Goat Immunogen / Amino acids: PKRKVTFQGVGDE-C Conjugation: Unconjugated Form: Liquid Storage Buffer: Tris saline, 0.02% sodium azide, pH7.3 with 0.5% bovine serum albumin Concentration: 0.5 mg/ml in 200 µl Recommended Dilution: Western Blot: Approx 50kDa band observed in Human Lymph Node Thymus and Tonsil lysates (calculated MW of 37.6kDa according to NP_006101.1). The observed molecular weight corresponds to earlier findings in literature with different antibodies (Nishizawa et al Copyright 2021 Taiclone Biotech Corp. Web: www.taiclone.com Tel: +886-2-2735-9682 Email: [email protected] Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):14897-902). Recommended concentration: 0.3-1.0µg/ml. Peptide ELISA: antibody detection limit dilution 1:32000. Amino Acid Sequence: NP_006101.1 Storage Instruction: Aliquot store at -20C. Avoid freeze / thaw cycles. Alternative Names: CD2BP2; FWP010; LIN1; Snu40; CD2 antigen (cytoplasmic tail) binding protein 2; CD2 (cytoplasmic tail) binding protein 2; CD2 antigen (cytoplasmic tail)-binding protein 2; U5-52K; CD2 binding protein 2; CD2 cytoplasmic domain binding protein 2; U5 snRNP 52K protein Gene ID: 10421 (human); Reference Sequence No.: NP_006101.1 Calculated Molecular Weight: 37.6 Purification: Purified from goat serum by ammonium sulphate precipitation followed by antigen affinity chromatography using the immunizing peptide DS Gene Ontology Terms: T cell activation Positive Control: tcva06414p Copyright 2021 Taiclone Biotech Corp.
    [Show full text]
  • Epigenetic and Transcriptional Determinants of the Human Breast
    ARTICLE Received 5 Nov 2014 | Accepted 22 Jan 2015 | Published 18 Feb 2015 DOI: 10.1038/ncomms7351 OPEN Epigenetic and transcriptional determinants of the human breast Philippe Gascard1,*, Misha Bilenky2,*, Mahvash Sigaroudinia1, Jianxin Zhao1, Luolan Li3, Annaick Carles3, Allen Delaney2, Angela Tam2, Baljit Kamoh2, Stephanie Cho2, Malachi Griffith2, Andy Chu2, Gordon Robertson2, Dorothy Cheung2, Irene Li2, Alireza Heravi-Moussavi2, Michelle Moksa3, Matthew Mingay3, Angela Hussainkhel3, Brad Davis2, Raman P. Nagarajan4, Chibo Hong4, Lorigail Echipare5, Henriette O’Geen5, Matthew J. Hangauer6, Jeffrey B. Cheng7, Dana Neel4, Donglei Hu8, Michael T. McManus6, Richard Moore2, Andrew Mungall2, Yussanne Ma2, Patrick Plettner2, Elad Ziv8, Ting Wang9, Peggy J. Farnham10, Steven J.M. Jones2,11, Marco A. Marra2,11, Thea D. Tlsty1, Joseph F. Costello4 & Martin Hirst2,3 While significant effort has been dedicated to the characterization of epigenetic changes associated with prenatal differentiation, relatively little is known about the epigenetic changes that accompany post-natal differentiation where fully functional differentiated cell types with limited lifespans arise. Here we sought to address this gap by generating epigenomic and transcriptional profiles from primary human breast cell types isolated from disease-free human subjects. From these data we define a comprehensive human breast transcriptional network, including a set of myoepithelial- and luminal epithelial-specific intronic retention events. Intersection of epigenetic states with RNA expression from distinct breast epithelium lineages demonstrates that mCpG provides a stable record of exonic and intronic usage, whereas H3K36me3 is dynamic. We find a striking asymmetry in epigenomic reprogramming between luminal and myoepithelial cell types, with the genomes of luminal cells harbouring more than twice the number of hypomethylated enhancer elements compared with myoepithelial cells.
    [Show full text]
  • Transcriptome Analysis of Nautilus and Pygmy Squid Developing Eye Provides Insights in Lens and Eye Evolution
    Transcriptome Analysis of Nautilus and Pygmy Squid Developing Eye Provides Insights in Lens and Eye Evolution Konstantinos Sousounis1, Atsushi Ogura2*, Panagiotis A. Tsonis1* 1 Department of Biology and Center for Tissue Regeneration and Engineering, University of Dayton, Dayton, Ohio, United States of America, 2 Ochadai Academic Production, Ochanomizu University, Tokyo, Japan Abstract Coleoid cephalopods like squids have a camera-type eye similar to vertebrates. On the other hand, Nautilus (Nautiloids) has a pinhole eye that lacks lens and cornea. Since pygmy squid and Nautilus are closely related species they are excellent model organisms to study eye evolution. Having being able to collect Nautilus embryos, we employed next-generation RNA sequencing using Nautilus and pygmy squid developing eyes. Their transcriptomes were compared and analyzed. Enrichment analysis of Gene Ontology revealed that contigs related to nucleic acid binding were largely up-regulated in squid, while the ones related to metabolic processes and extracellular matrix-related genes were up-regulated in Nautilus. These differences are most likely correlated with the complexity of tissue organization in these species. Moreover, when the analysis focused on the eye-related contigs several interesting patterns emerged. First, contigs from both species related to eye tissue differentiation and morphogenesis as well as to cilia showed best hits with their Human counterparts, while contigs related to rabdomeric photoreceptors showed the best hit with their Drosophila counterparts. This bolsters the idea that eye morphogenesis genes have been generally conserved in evolution, and compliments other studies showing that genes involved in photoreceptor differentiation clearly follow the diversification of invertebrate (rabdomeric) and vertebrate (ciliated) photoreceptors.
    [Show full text]