Interaction of the Guidance Molecule Slit with Cellular Receptors
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Neurexin Ilia: Extensive Alternative Splicing Generates Membrane-Bound and Soluble Forms Yuri A
Proc. Natl. Acad. Sci. USA Vol. 90, pp. 6410-6414, July 1993 Biochemistry Neurexin IlIa: Extensive alternative splicing generates membrane-bound and soluble forms YURi A. USHKARYOV AND THOMAS C. SUDHOF* Howard Hughes Medical Institute and Department of Molecular Genetics, University of Texas Southwestern Medical School, Dallas, TX 75235 Communicated by Michael S. Brown, March 26, 1993 ABSTRACT The structure ofneurexin lIa was elucidated and 13-neurexins have identical C termini including the from overlapping cDNA clones. Neurexin lIa is highly ho- 0-linked sugar region, transmembrane region, and cytoplas- mologous to neurexins la and Ha and shares with them a mic domain (2). distinctive domain structure that resembles a cell surface Structures of the neurexins are suggestive of cell surface receptor. cDNA cloning and PCR experiments revealed alter- receptors. Indeed, the neurexins were originally found be- native splicing at four positions in the mRNA for neurexin HIa. cause of the identity of the sequence of neurexin Ia and Alternative splicing was previously observed at the same po- sequences from the high molecular weight subunit of the sitions in either neurexin Ia or neurexin Ila or both, suggesting receptor for a presynaptic neurotoxin, a-latrotoxin (7). Im- that the three neurexins are subject to extensive alternative munocytochemistry ofrat brain frozen sections revealed that splicing. This results in hundreds of different neurexins with neurexin I is highly enriched in synapses in agreement with variations in small sequences at similar positions in the pro- the localization of a-latrotoxin (2). These findings suggest teins. The most extensive alternative splicing of neurexin Ma that at least neurexins Ia and I13 are synaptic proteins that, was detected at its C-terminal site, which exhibits a minimum based on their structure and homologies, may represent a of 12 variants. -
Cloning and Functional Studies of a Novel Gene Aberrantly Expressed in RB-Deficient Embryos
Developmental Biology 207, 62–75 (1999) Article ID dbio.1998.9141, available online at http://www.idealibrary.com on View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Cloning and Functional Studies of a Novel Gene Aberrantly Expressed in RB-Deficient Embryos Shyng-Shiou F. Yuan,* Laura A. Cox,*,1 Gopal K. Dasika,* and Eva Y.-H. P. Lee*,2 *Department of Molecular Medicine/Institute of Biotechnology, University of Texas Health Science Center at San Antonio, San Antonio, Texas 78245 The tumor suppressor RB regulates diverse cellular processes such as G1/S transition, cell differentiation, and cell survival. Indeed, Rb-knockout mice exhibit phenotypes including ectopic mitosis, defective differentiation, and extensive apoptosis in the neurons. Using differential display, a novel gene, Rig-1, was isolated based on its elevated expression in the hindbrain and spinal cord of Rb-knockout embryos. The longest open reading frame of Rig-1 encoded a polypeptide that consists of a putative extracellular segment with five immunoglobulin-like domains and three fibronectin III-like domains, a putative transmembrane domain, and a distinct intracellular segment. The Rig-1 sequence was 40% identical to the recently identified roundabout protein. Consistent with the predicted transmembrane nature of the protein, Rig-1 protein was present in the membranous fraction. Antisera raised against the putative extracellular and intracellular segments of Rig-1 reacted with an ;210-kDa protein in mouse embryonic CNS. Rig-1 mRNA was transiently expressed in the embryonic hindbrain and spinal cord. Elevated levels of Rig-1 mRNA and protein were found in Rb2/2 embryos. -
Supplemental Information
Supplemental information Dissection of the genomic structure of the miR-183/96/182 gene. Previously, we showed that the miR-183/96/182 cluster is an intergenic miRNA cluster, located in a ~60-kb interval between the genes encoding nuclear respiratory factor-1 (Nrf1) and ubiquitin-conjugating enzyme E2H (Ube2h) on mouse chr6qA3.3 (1). To start to uncover the genomic structure of the miR- 183/96/182 gene, we first studied genomic features around miR-183/96/182 in the UCSC genome browser (http://genome.UCSC.edu/), and identified two CpG islands 3.4-6.5 kb 5’ of pre-miR-183, the most 5’ miRNA of the cluster (Fig. 1A; Fig. S1 and Seq. S1). A cDNA clone, AK044220, located at 3.2-4.6 kb 5’ to pre-miR-183, encompasses the second CpG island (Fig. 1A; Fig. S1). We hypothesized that this cDNA clone was derived from 5’ exon(s) of the primary transcript of the miR-183/96/182 gene, as CpG islands are often associated with promoters (2). Supporting this hypothesis, multiple expressed sequences detected by gene-trap clones, including clone D016D06 (3, 4), were co-localized with the cDNA clone AK044220 (Fig. 1A; Fig. S1). Clone D016D06, deposited by the German GeneTrap Consortium (GGTC) (http://tikus.gsf.de) (3, 4), was derived from insertion of a retroviral construct, rFlpROSAβgeo in 129S2 ES cells (Fig. 1A and C). The rFlpROSAβgeo construct carries a promoterless reporter gene, the β−geo cassette - an in-frame fusion of the β-galactosidase and neomycin resistance (Neor) gene (5), with a splicing acceptor (SA) immediately upstream, and a polyA signal downstream of the β−geo cassette (Fig. -
Robo4 Is a Vascular-Specific Receptor That Inhibits
Available online at www.sciencedirect.com R Developmental Biology 261 (2003) 251–267 www.elsevier.com/locate/ydbio Robo4 is a vascular-specific receptor that inhibits endothelial migration Kye Won Park,a,b Clayton M. Morrison,a Lise K. Sorensen,a Christopher A. Jones,a,b Yi Rao,c Chi-Bin Chien,d Jane Y. Wu,e Lisa D. Urness,f and Dean Y. Lia,b,f,* a Program in Human Molecular Biology and Genetics, School of Medicine, University of Utah, Salt Lake City, UT 84112, USA b Department of Oncological Sciences, School of Medicine, University of Utah, Salt Lake City, UT 84112, USA c Department of Anatomy and Neurobiology, Washington University School of Medicine, St. Louis, MO 63110, USA d Department of Anatomy and Neurobiology, School of Medicine, University of Utah, Salt Lake City, UT 84112, USA e Departments of Pediatrics and Molecular Biology and Pharmacology, Washington University School of Medicine, St. Louis, MO 63110, USA f Division of Cardiology, School of Medicine, University of Utah, Salt Lake City, UT 84112, USA Received for publication 4 December 2002, revised 17 April 2003, accepted 23 April 2003 Abstract Guidance and patterning of axons are orchestrated by cell-surface receptors and ligands that provide directional cues. Interactions between the Robo receptor and Slit ligand families of proteins initiate signaling cascades that repel axonal outgrowth. Although the vascular and nervous systems grow as parallel networks, the mechanisms by which the vascular endothelial cells are guided to their appropriate positions remain obscure. We have identified a putative Robo homologue, Robo4, based on its differential expression in mutant mice with defects in vascular sprouting. -
Supplementary Table S4. FGA Co-Expressed Gene List in LUAD
Supplementary Table S4. FGA co-expressed gene list in LUAD tumors Symbol R Locus Description FGG 0.919 4q28 fibrinogen gamma chain FGL1 0.635 8p22 fibrinogen-like 1 SLC7A2 0.536 8p22 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 DUSP4 0.521 8p12-p11 dual specificity phosphatase 4 HAL 0.51 12q22-q24.1histidine ammonia-lyase PDE4D 0.499 5q12 phosphodiesterase 4D, cAMP-specific FURIN 0.497 15q26.1 furin (paired basic amino acid cleaving enzyme) CPS1 0.49 2q35 carbamoyl-phosphate synthase 1, mitochondrial TESC 0.478 12q24.22 tescalcin INHA 0.465 2q35 inhibin, alpha S100P 0.461 4p16 S100 calcium binding protein P VPS37A 0.447 8p22 vacuolar protein sorting 37 homolog A (S. cerevisiae) SLC16A14 0.447 2q36.3 solute carrier family 16, member 14 PPARGC1A 0.443 4p15.1 peroxisome proliferator-activated receptor gamma, coactivator 1 alpha SIK1 0.435 21q22.3 salt-inducible kinase 1 IRS2 0.434 13q34 insulin receptor substrate 2 RND1 0.433 12q12 Rho family GTPase 1 HGD 0.433 3q13.33 homogentisate 1,2-dioxygenase PTP4A1 0.432 6q12 protein tyrosine phosphatase type IVA, member 1 C8orf4 0.428 8p11.2 chromosome 8 open reading frame 4 DDC 0.427 7p12.2 dopa decarboxylase (aromatic L-amino acid decarboxylase) TACC2 0.427 10q26 transforming, acidic coiled-coil containing protein 2 MUC13 0.422 3q21.2 mucin 13, cell surface associated C5 0.412 9q33-q34 complement component 5 NR4A2 0.412 2q22-q23 nuclear receptor subfamily 4, group A, member 2 EYS 0.411 6q12 eyes shut homolog (Drosophila) GPX2 0.406 14q24.1 glutathione peroxidase -
Slit Proteins: Molecular Guidance Cues for Cells Ranging from Neurons to Leukocytes Kit Wong, Hwan Tae Park*, Jane Y Wu* and Yi Rao†
583 Slit proteins: molecular guidance cues for cells ranging from neurons to leukocytes Kit Wong, Hwan Tae Park*, Jane Y Wu* and Yi Rao† Recent studies of molecular guidance cues including the Slit midline glial cells was thought to be abnormal [2,3]. family of secreted proteins have provided new insights into the Projection of the commissural axons was also abnormal: mechanisms of cell migration. Initially discovered in the nervous instead of crossing the midline once before projecting system, Slit functions through its receptor, Roundabout, and an longitudinally, the commissural axons from two sides of the intracellular signal transduction pathway that includes the nerve cord are fused at the midline in slit mutants [2,3]. Abelson kinase, the Enabled protein, GTPase activating proteins Because the midline glial cells are known to be important and the Rho family of small GTPases. Interestingly, Slit also in axon guidance, the commissural axon phenotype in slit appears to use Roundabout to control leukocyte chemotaxis, mutants was initially thought to be secondary to the cell- which occurs in contexts different from neuronal migration, differentiation phenotype [3]. suggesting a fundamental conservation of mechanisms guiding the migration of distinct types of somatic cells. In early 1999, results from three groups demonstrated independently that Slit functioned as an extracellular cue Addresses to guide axon pathfinding [4–6], to promote axon branching Department of Anatomy and Neurobiology, and *Departments of [7], and to control neuronal migration [8]. The functional Pediatrics and Molecular Biology and Pharmacology, Box 8108, roles of Slit in axon guidance and neuronal migration were Washington University School of Medicine, 660 S Euclid Avenue St Louis, soon supported by other studies in Drosophila [9] and in Missouri 63110, USA *e-mail: [email protected] vertebrates [10–14]. -
Novel Roles for Slits and Netrins: Axon Guidance Cues As Anticancer Targets?
Nature Reviews Cancer | AOP, published online 17 February 2011; doi:10.1038/nrc3005 REVIEWS Novel roles for Slits and netrins: axon guidance cues as anticancer targets? Patrick Mehlen*, Céline Delloye-Bourgeois* and Alain Chédotal‡§|| Abstract | Over the past few years, several genes, proteins and signalling pathways that are required for embryogenesis have been shown to regulate tumour development and progression by playing a major part in overriding antitumour safeguard mechanisms. These include axon guidance cues, such as Netrins and Slits. Netrin 1 and members of the Slit family are secreted extracellular matrix proteins that bind to deleted in colorectal cancer (DCC) and UNC5 receptors, and roundabout receptors (Robos), respectively. Their expression is deregulated in a large proportion of human cancers, suggesting that they could be tumour suppressor genes or oncogenes. Moreover, recent data suggest that these ligand–receptor pairs could be promising targets for personalized anticancer therapies. Floor plate Netrin 1 — named from the sanscrit netr, ‘the one who roles of netrin 1 and its receptors have been extensively A group of cells that occupy guides’ — was purified by Tessier-Lavigne and col- described, but little is known about the function of these the ventral midline of the leagues as a soluble factor secreted by floor plate cells able other netrins. Netrin 4, which shares little homology developing vertebrate nervous to elicit the growth of commissural axons1,2. This discovery with netrin 1 (netrin 4, unlike other netrins, which dis- system, extending from the spinal cord to the launched a scientific race to identify novel secreted or play homology to the short arm of laminin-γ chains, is diencephalon. -
5 Shh Netrin Others
SYAPTIC PLASTICITY AND AXONAL GUIDANCE 1. The Neuron: basic Mechanisms of Action 2. Axon Guidance and Nerve Growth: Basic Principles 3. Short Range Guidance: 1. Eph-Ephrins / 2. Semaphorins 4. Long Range Cues: Semaphorins / Netrin-Slit / Nogo / Others 5. Learning and Memory - Guidance and Neuronal Adaptation in the Adult - Regulation of Pathways SLIT & NETRINS Netrins • Netrins are a small family of highly conserved guidance molecules (~70-80kDa). • One in worms (c.elegans) UNC6 • Two in Drosophila Netrin -A and -B • Two in chick, netrin-1 and -2. • In mouse and humans a third netrin identified netrin-3 (netrin-2-like). • In all species there are axons that project to the midline of the nervous system. • The midline attracts these axons and netrin plays a role in this. Netrins • Netrin-1 is produced by the floor plate • Netrin-2 is made in the ventral spinal cord except for the floor-plate • Both netrins become associated with the ECM and the receptor DCC • Model: commissural axons first encounter gradient of netrin-2, which brings them into the domain of netrin-1 Netrins Roof plate Commissural neuron 0 125 250 375 Commissural neurons extend ventrally Floor plate and then toward floor plate, if within 250µm from the floor plate Netrins • Netrins are bifunctional molecules, attracting some axons and repelling others. • C.elegans axons migrating away from the UNC-6 netrin source are misrouted in the unc-6 mutant. • The repulsive activity of netrin first shown in vertebrates for populations of motor axons that project away from the midline. • The receptors that mediate the attractive and repulsive effects of netrins are also highly conserved. -
Changes in SLIT2 Expression Are Associated with the Migration of Human Ovarian Clear Cell Carcinoma Cells
ONCOLOGY LETTERS 22: 551, 2021 Changes in SLIT2 expression are associated with the migration of human ovarian clear cell carcinoma cells CUEI‑JYUAN LIN1*, WAY‑REN HUANG2*, CHIA‑ZHEN WU3 and RUO‑CHIA TSENG3 1Department of Laboratory Medicine, Keelung Chang Gung Memorial Hospital, Keelung 20401; 2GLORIA Operation Center, National Tsing Hua University, Hsinchu 30013; 3Department of Molecular Biology and Human Genetics, Tzu Chi University, Hualien 97004, Taiwan, R.O.C. Received January 8, 2021; Accepted May 5, 2021 DOI: 10.3892/ol.2021.12812 Abstract. Ovarian clear cell carcinoma (OCCC) is characterized rate of ~9% in Taiwan and various other areas of the world (1,2). by a poor survival of patients, which is mainly due to metastasis EOC has several subtypes with different origins, multiple and treatment failure. Slit guidance ligand 2 (SLIT2), a secreted molecular characteristics and a range of outcomes (3). EOC protein, has been reported to modulate the migration of neural consists of five histological subtypes, namely serous, mucinous, cells and human cancer cells. However, the effect of changes in clear cell, endometrioid and transitional cell/Brenner tumor SLIT2 expression on the regulation of cell migration in OCCC subtypes (4). Ovarian clear cell carcinoma (OCCC) is a distinct remains unknown. The present study examined alterations in type of ovarian cancer, and is associated with both a poor SLIT2 expression using OCCC cell models, including low‑ and survival and resistance to platinum‑based chemotherapy (3). high‑mobility SKOV3 cells, as well as OCCC tissues. DNA OCCC is the second most common EOC subtype in Taiwan methylation analysis suggested that promoter hypermethylation and Japan (2), whereas it ranks fourth in North America (5). -
Slit Antagonizes Netrin-1 Attractive Effects During the Migration of Inferior Olivary Neurons
Developmental Biology 246, 429–440 (2002) doi:10.1006/dbio.2002.0681 View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Slit Antagonizes Netrin-1 Attractive Effects during the Migration of Inferior Olivary Neurons Fre´de´ric Causeret, Franc¸ois Danne, Fre´de´ric Ezan, Constantino Sotelo, and Evelyne Bloch-Gallego1 INSERM U106, Hoˆpital de la Salpeˆtrie`re, 75013 Paris, France Inferior olivary neurons (ION) migrate circumferentially around the caudal rhombencephalon starting from the alar plate to locate ventrally close to the floor-plate, ipsilaterally to their site of proliferation. The floor-plate constitutes a source of diffusible factors. Among them, netrin-1 is implied in the survival and attraction of migrating ION in vivo and in vitro.We have looked for a possible involvement of slit-1/2 during ION migration. We report that: (1) slit-1 and slit-2 are coexpressed in the floor-plate of the rhombencephalon throughout ION development; (2) robo-2, a slit receptor, is expressed in migrating ION, in particular when they reach the vicinity of the floor-plate; (3) using in vitro assays in collagen matrix, netrin-1 exerts an attractive effect on ION leading processes and nuclei; (4) slit has a weak repulsive effect on ION axon outgrowth and no effect on migration by itself, but (5) when combined with netrin-1, it antagonizes part of or all of the effects of netrin-1 in a dose-dependent manner, inhibiting the attraction of axons and the migration of cell nuclei. Our results indicate that slit silences the attractive effects of netrin-1 and could participate in the correct ventral positioning of ION, stopping the migration when cell bodies reach the floor-plate. -
Connective Tissue Growth Factor Is Increased in Pseudoexfoliation Glaucoma
Glaucoma Connective Tissue Growth Factor Is Increased in Pseudoexfoliation Glaucoma John G. Browne,1 Su Ling Ho,2 Rosemary Kane,1 Noelynn Oliver,3 Abbot. F. Clark,4,5 Colm J. O’Brien,1,2 and John K. Crean6 PURPOSE. Pseudoexfoliation (PXF) syndrome is a generalized seudoexfoliation syndrome (PXF) is an age-related disorder disorder of the extracellular matrix (ECM) involving the trabec- Pthat manifests with abnormal fibrillar extracellular material ular meshwork (TM), associated with raised intraocular pres- (ECM) accumulation in ocular tissues.1 Fibrillar material similar sure, glaucoma, and cataract. The purposes of this study were to that in the eyes of PXF patients has more recently been to quantify aqueous humor connective tissue growth factor detected in the skin and visceral organs of patients with PXF.2 (CTGF) in PXF glaucoma, to determine the effect of CTGF on In the eye, PXF is detected by pupil dilation and subsequent slit ECM production in TM cells, and to identify intracellular CTGF lamp examination. Deposits of fibrillar material are observed in signaling pathways. the anterior segment, primarily on the pupillary border and anterior lens capsule. The disease usually has an insidious METHODS. Aqueous humor samples were obtained from pa- tients undergoing routine cataract surgery or trabeculectomy. onset, unless complications occur such as cataract and glau- CTGF levels were quantified by ELISA. The effect of CTGF on coma. PXF is reported to be responsible for more than half of the cases of open-angle glaucoma in Norway, Ireland, Greece, fibrillin-1 expression in TM cells was investigated by real-time 3 PCR. -
Molecular Discrimination of Cutaneous Squamous Cell Carcinoma from Actinic Keratosis and Normal Skin
Modern Pathology (2011) 24, 963–973 & 2011 USCAP, Inc. All rights reserved 0893-3952/11 $32.00 963 Molecular discrimination of cutaneous squamous cell carcinoma from actinic keratosis and normal skin Seong Hui Ra, Xinmin Li and Scott Binder Department of Pathology and Laboratory Medicine, David Geffen School of Medicine at UCLA, Los Angeles, CA, USA Actinic keratosis is widely believed to be a neoplastic lesion and a precursor to invasive squamous cell carcinoma. However, there has been some debate as to whether actinic keratosis is in fact actually squamous cell carcinoma and should be treated as such. As the clinical management and prognosis of patients is widely held to be different for each of these lesions, our goal was to identify unique gene signatures using DNA microarrays to discriminate among normal skin, actinic keratosis, and squamous cell carcinoma, and examine the molecular pathways of carcinogenesis involved in the progression from normal skin to squamous cell carcinoma. Formalin-fixed and paraffin-embedded blocks of skin: five normal skins (pooled), six actinic keratoses, and six squamous cell carcinomas were retrieved. The RNA was extracted and amplified. The labeled targets were hybridized to the Affymetrix human U133plus2.0 array and the acquisition and initial quantification of array images were performed using the GCOS (Affymetrix). The subsequent data analyses were performed using DNA-Chip Analyzer and Partek Genomic Suite 6.4. Significant differential gene expression (42 fold change, Po0.05) was seen with 382 differentially expressed genes between squamous cell carcinoma and normal skin, 423 differentially expressed genes between actinic keratosis and normal skin, and 9 differentially expressed genes between actinic keratosis and squamous cell carcinoma.