Primary Cilia and Autophagic Dysfunction in Huntington&Rsquo
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Supplemental Information Proximity Interactions Among Centrosome
Current Biology, Volume 24 Supplemental Information Proximity Interactions among Centrosome Components Identify Regulators of Centriole Duplication Elif Nur Firat-Karalar, Navin Rauniyar, John R. Yates III, and Tim Stearns Figure S1 A Myc Streptavidin -tubulin Merge Myc Streptavidin -tubulin Merge BirA*-PLK4 BirA*-CEP63 BirA*- CEP192 BirA*- CEP152 - BirA*-CCDC67 BirA* CEP152 CPAP BirA*- B C Streptavidin PCM1 Merge Myc-BirA* -CEP63 PCM1 -tubulin Merge BirA*- CEP63 DMSO - BirA* CEP63 nocodazole BirA*- CCDC67 Figure S2 A GFP – + – + GFP-CEP152 + – + – Myc-CDK5RAP2 + + + + (225 kDa) Myc-CDK5RAP2 (216 kDa) GFP-CEP152 (27 kDa) GFP Input (5%) IP: GFP B GFP-CEP152 truncation proteins Inputs (5%) IP: GFP kDa 1-7481-10441-1290218-1654749-16541045-16541-7481-10441-1290218-1654749-16541045-1654 250- Myc-CDK5RAP2 150- 150- 100- 75- GFP-CEP152 Figure S3 A B CEP63 – – + – – + GFP CCDC14 KIAA0753 Centrosome + – – + – – GFP-CCDC14 CEP152 binding binding binding targeting – + – – + – GFP-KIAA0753 GFP-KIAA0753 (140 kDa) 1-496 N M C 150- 100- GFP-CCDC14 (115 kDa) 1-424 N M – 136-496 M C – 50- CEP63 (63 kDa) 1-135 N – 37- GFP (27 kDa) 136-424 M – kDa 425-496 C – – Inputs (2%) IP: GFP C GFP-CEP63 truncation proteins D GFP-CEP63 truncation proteins Inputs (5%) IP: GFP Inputs (5%) IP: GFP kDa kDa 1-135136-424425-4961-424136-496FL Ctl 1-135136-424425-4961-424136-496FL Ctl 1-135136-424425-4961-424136-496FL Ctl 1-135136-424425-4961-424136-496FL Ctl Myc- 150- Myc- 100- CCDC14 KIAA0753 100- 100- 75- 75- GFP- GFP- 50- CEP63 50- CEP63 37- 37- Figure S4 A siCtl -
Cytoplasmic E2f4 Forms Organizing Centres for Initiation of Centriole Amplification During Multiciliogenesis
ARTICLE Received 13 Feb 2017 | Accepted 8 May 2017 | Published 4 Jul 2017 DOI: 10.1038/ncomms15857 OPEN Cytoplasmic E2f4 forms organizing centres for initiation of centriole amplification during multiciliogenesis Munemasa Mori1, Renin Hazan2, Paul S. Danielian2, John E. Mahoney1,w, Huijun Li1, Jining Lu1, Emily S. Miller2, Xueliang Zhu3, Jacqueline A. Lees2 & Wellington V. Cardoso1 Abnormal development of multiciliated cells is a hallmark of a variety of human conditions associated with chronic airway diseases, hydrocephalus and infertility. Multiciliogenesis requires both activation of a specialized transcriptional program and assembly of cytoplasmic structures for large-scale centriole amplification that generates basal bodies. It remains unclear, however, what mechanism initiates formation of these multiprotein complexes in epithelial progenitors. Here we show that this is triggered by nucleocytoplasmic translocation of the transcription factor E2f4. After inducing a transcriptional program of centriole biogenesis, E2f4 forms apical cytoplasmic organizing centres for assembly and nucleation of deuterosomes. Using genetically altered mice and E2F4 mutant proteins we demonstrate that centriole amplification is crucially dependent on these organizing centres and that, without cytoplasmic E2f4, deuterosomes are not assembled, halting multiciliogenesis. Thus, E2f4 integrates nuclear and previously unsuspected cytoplasmic events of centriole amplification, providing new perspectives for the understanding of normal ciliogenesis, ciliopathies and cancer. 1 Columbia Center for Human Development, Department of Medicine, Pulmonary Allergy Critical Care, Columbia University Medical Center, New York City, New York 10032, USA. 2 David H. Koch Institute for Integrative Cancer Research, MIT, Cambridge, Massachusetts 02139, USA. 3 State Key Laboratory of Cell Biology, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 320 Yueyang Road, Shanghai 200031, China. -
Eutherian Adaptation from a TRAK-Like Protein, Conserved Gene Promoter Elements, and Localization in the Human Intestine Amanda L
Lumsden et al. BMC Evolutionary Biology (2016) 16:214 DOI 10.1186/s12862-016-0780-3 RESEARCH ARTICLE Open Access Huntingtin-associated protein 1: Eutherian adaptation from a TRAK-like protein, conserved gene promoter elements, and localization in the human intestine Amanda L. Lumsden1*, Richard L. Young2,3, Nektaria Pezos2,3 and Damien J. Keating1,2* Abstract Background: Huntingtin-associated Protein 1 (HAP1) is expressed in neurons and endocrine cells, and is critical for postnatal survival in mice. HAP1 shares a conserved “HAP1_N” domain with TRAfficking Kinesin proteins TRAK1 and TRAK2 (vertebrate), Milton (Drosophila) and T27A3.1 (C. elegans). HAP1, TRAK1 and TRAK2 have a degree of common function, particularly regarding intracellular receptor trafficking. However, TRAK1, TRAK2 and Milton (which have a “Milt/TRAK” domain that is absent in human and rodent HAP1) differ in function to HAP1 in that they are mitochondrial transport proteins, while HAP1 has emerging roles in starvation response. We have investigated HAP1 function by examining its evolution, and upstream gene promoter sequences. We performed phylogenetic analyses of the HAP1_N domain family of proteins, incorporating HAP1 orthologues (identified by genomic synteny) from 5 vertebrate classes, and also searched the Dictyostelium proteome for a common ancestor. Computational analyses of mammalian HAP1 gene promoters were performed to identify phylogenetically conserved regulatory motifs. Results: We found that as recently as marsupials, HAP1 contained a Milt/TRAK domain and was more similar to TRAK1 and TRAK2 than to eutherian HAP1. The Milt/TRAK domain likely arose post multicellularity, as it was absent in the Dictyostelium proteome. It was lost from HAP1 in the eutherian lineage, and also from T27A3.1 in C. -
PCM1 Is Necessary for Focal Ciliary Integrity and Is a Candidate for Severe Schizophrenia
ARTICLE https://doi.org/10.1038/s41467-020-19637-5 OPEN PCM1 is necessary for focal ciliary integrity and is a candidate for severe schizophrenia Tanner O. Monroe 1,2, Melanie E. Garrett3, Maria Kousi4, Ramona M. Rodriguiz5,6, Sungjin Moon7, Yushi Bai8, Steven C. Brodar8, Karen L. Soldano3, Jeremiah Savage9, Thomas F. Hansen10,11, Donna M. Muzny12,13, Richard A. Gibbs12,13, Lawrence Barak8, Patrick F. Sullivan14,15,16, Allison E. Ashley-Koch 3, ✉ Akira Sawa 17,18,19,20, William C. Wetsel 5,6,8,21, Thomas Werge 10,11,22,23 & Nicholas Katsanis 1,2 1234567890():,; The neuronal primary cilium and centriolar satellites have functions in neurogenesis, but little is known about their roles in the postnatal brain. We show that ablation of pericentriolar material 1 in the mouse leads to progressive ciliary, anatomical, psychomotor, and cognitive abnormalities. RNAseq reveals changes in amine- and G-protein coupled receptor pathways. The physiological relevance of this phenotype is supported by decreased available dopamine D2 receptor (D2R) levels and the failure of antipsychotic drugs to rescue adult behavioral defects. Immunoprecipitations show an association with Pcm1 and D2Rs. Finally, we sequence PCM1 in two human cohorts with severe schizophrenia. Systematic modeling of all discovered rare alleles by zebrafish in vivo complementation reveals an enrichment for pathogenic alleles. Our data emphasize a role for the pericentriolar material in the postnatal brain, with progressive degenerative ciliary and behavioral phenotypes; and they support a contributory role for PCM1 in some individuals diagnosed with schizophrenia. 1 Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA. -
PCM1 Recruits Plk1 to the Pericentriolar Matrix to Promote
Research Article 1355 PCM1 recruits Plk1 to the pericentriolar matrix to promote primary cilia disassembly before mitotic entry Gang Wang1,*, Qiang Chen1,*, Xiaoyan Zhang1, Boyan Zhang1, Xiaolong Zhuo1, Junjun Liu2, Qing Jiang1 and Chuanmao Zhang1,` 1MOE Key Laboratory of Cell Proliferation and Differentiation and State Key Laboratory of Biomembrane and Membrane Biotechnology, College of Life Sciences, Peking University, Beijing 100871, China 2Department of Biological Sciences, California State Polytechnic University, Pomona, CA 91768, USA *These authors contributed equally to this work `Author for correspondence ([email protected]) Accepted 11 December 2012 Journal of Cell Science 126, 1355–1365 ß 2013. Published by The Company of Biologists Ltd doi: 10.1242/jcs.114918 Summary Primary cilia, which emanate from the cell surface, exhibit assembly and disassembly dynamics along the progression of the cell cycle. However, the mechanism that links ciliary dynamics and cell cycle regulation remains elusive. In the present study, we report that Polo- like kinase 1 (Plk1), one of the key cell cycle regulators, which regulate centrosome maturation, bipolar spindle assembly and cytokinesis, acts as a pivotal player that connects ciliary dynamics and cell cycle regulation. We found that the kinase activity of centrosome enriched Plk1 is required for primary cilia disassembly before mitotic entry, wherein Plk1 interacts with and activates histone deacetylase 6 (HDAC6) to promote ciliary deacetylation and resorption. Furthermore, we showed that pericentriolar material 1 (PCM1) acts upstream of Plk1 and recruits the kinase to pericentriolar matrix (PCM) in a dynein-dynactin complex-dependent manner. This process coincides with the primary cilia disassembly dynamics at the onset of mitosis, as depletion of PCM1 by shRNA dramatically disrupted the pericentriolar accumulation of Plk1. -
Combinatorial Strategies Using CRISPR/Cas9 for Gene Mutagenesis in Adult Mice
Combinatorial strategies using CRISPR/Cas9 for gene mutagenesis in adult mice Avery C. Hunker A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy University of Washington 2019 Reading Committee: Larry S. Zweifel, Chair Sheri J. Mizumori G. Stanley McKnight Program Authorized to Offer Degree: Pharmacology 2 © Copyright 2019 Avery C. Hunker 3 University of Washington ABSTRACT Combinatorial strategies using CRISPR/Cas9 for gene mutagenesis in adult mice Avery C. Hunker Chair of the Supervisory Committee: Larry Zweifel Department of Pharmacology A major challenge to understanding how genes modulate complex behaviors is the inability to restrict genetic manipulations to defined cell populations or circuits. To circumvent this, we created a simple strategy for limiting gene knockout to specific cell populations using a viral-mediated, conditional CRISPR/SaCas9 system in combination with intersectional genetic strategies. A small single guide RNA (sgRNA) directs Staphylococcus aureus CRISPR-associated protein (SaCas9) to unique sites on DNA in a Cre-dependent manner resulting in double strand breaks and gene mutagenesis in vivo. To validate this technique we targeted nine different genes of diverse function in distinct cell types in mice and performed an array of analyses to confirm gene mutagenesis and subsequent protein loss, including IHC, cell-type specific DNA sequencing, electrophysiology, Western blots, and behavior. We show that these vectors are as efficient as conventional conditional gene knockout and provide a viable alternative to complex genetic crosses. This strategy provides additional benefits of 4 targeting gene mutagenesis to cell types previously difficult to isolate, and the ability to target genes in specific neural projections for gene inactivation. -
Tethering of an E3 Ligase by PCM1 Regulates the Abundance Of
RESEARCH ARTICLE Tethering of an E3 ligase by PCM1 regulates the abundance of centrosomal KIAA0586/Talpid3 and promotes ciliogenesis Lei Wang†, Kwanwoo Lee†, Ryan Malonis, Irma Sanchez, Brian D Dynlacht* Department of Pathology, New York University Cancer Institute, New York University School of Medicine, New York, United States Abstract To elucidate the role of centriolar satellites in ciliogenesis, we deleted the gene encoding the PCM1 protein, an integral component of satellites. PCM1 null human cells show marked defects in ciliogenesis, precipitated by the loss of specific proteins from satellites and their relocation to centrioles. We find that an amino-terminal domain of PCM1 can restore ciliogenesis and satellite localization of certain proteins, but not others, pinpointing unique roles for PCM1 and a group of satellite proteins in cilium assembly. Remarkably, we find that PCM1 is essential for tethering the E3 ligase, Mindbomb1 (Mib1), to satellites. In the absence of PCM1, Mib1 destabilizes Talpid3 through poly-ubiquitylation and suppresses cilium assembly. Loss of PCM1 blocks ciliogenesis by abrogating recruitment of ciliary vesicles associated with the Talpid3-binding protein, Rab8, which can be reversed by inactivating Mib1. Thus, PCM1 promotes ciliogenesis by tethering a key E3 ligase to satellites and restricting it from centrioles. DOI: 10.7554/eLife.12950.001 *For correspondence: Brian. [email protected] †These authors contributed Introduction equally to this work Primary cilia are antenna-like organelles that protrude from the surface of many differentiated cells Competing interests: The and serve to orchestrate key signaling events required for development (reviewed in Kobayashi and authors declare that no Dynlacht, 2011). -
The Centriolar Satellite Proteins Cep72 and Cep290 Interact and Are Required for Recruitment of BBS Proteins to the Cilium
M BoC | ARTICLE The centriolar satellite proteins Cep72 and Cep290 interact and are required for recruitment of BBS proteins to the cilium Timothy R. Stowea, Christopher J. Wilkinsonb, Anila Iqbalb, and Tim Stearnsa,c aDepartment of Biology and cDepartment of Genetics, Stanford School of Medicine, Stanford, CA 94305-5020; bCentre for Biomedical Sciences, School of Biological Sciences, Royal Holloway and Bedford New College, University of London, TW20 0EX Egham, United Kingdom ABSTRACT Defects in centrosome and cilium function are associated with phenotypically Monitoring Editor related syndromes called ciliopathies. Centriolar satellites are centrosome-associated struc- Yixian Zheng tures, defined by the protein PCM1, that are implicated in centrosomal protein trafficking. Carnegie Institution We identify Cep72 as a PCM1-interacting protein required for recruitment of the ciliopathy- Received: Mar 23, 2012 associated protein Cep290 to centriolar satellites. Loss of centriolar satellites by depletion of Revised: Jun 4, 2012 PCM1 causes relocalization of Cep72 and Cep290 from satellites to the centrosome, suggest- Accepted: Jun 29, 2012 ing that their association with centriolar satellites normally restricts their centrosomal local- ization. We identify interactions between PCM1, Cep72, and Cep290 and find that disruption of centriolar satellites by overexpression of Cep72 results in specific aggregation of these proteins and the BBSome component BBS4. During ciliogenesis, BBS4 relocalizes from cen- triolar satellites to the primary cilium. This relocalization occurs normally in the absence of centriolar satellites (PCM1 depletion) but is impaired by depletion of Cep290 or Cep72, re- sulting in defective ciliary recruitment of the BBSome subunit BBS8. We propose that Cep290 and Cep72 in centriolar satellites regulate the ciliary localization of BBS4, which in turn affects assembly and recruitment of the BBSome. -
Centriolar Satellites Assemble Centrosomal Microcephaly Proteins
RESEARCH ARTICLE elifesciences.org Centriolar satellites assemble centrosomal microcephaly proteins to recruit CDK2 and promote centriole duplication Andrew Kodani1, Timothy W Yu2†, Jeffrey R Johnson3†, Divya Jayaraman2, Tasha L Johnson3, Lihadh Al-Gazali4,Laszl o´ Sztriha4, Jennifer N Partlow2, Hanjun Kim1, Alexis L Krup1, Alexander Dammermann5, Nevan J Krogan3, Christopher A Walsh2, Jeremy F Reiter1* 1Department of Biochemistry and Biophysics, Cardiovascular Research Institute, University of California, San Francisco, San Francisco, United States; 2Howard Hughes Medical Institute, Boston Children’s Hospital, Boston, United States; 3Department of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, United States; 4Department of Paediatrics, College of Medicine and Health Sciences, United Arab Emirates University, Al-Ain, United Arab Emirates; 5Max F. Perutz Laboratories, University of Vienna, Vienna, Austria Abstract Primary microcephaly (MCPH) associated proteins CDK5RAP2, CEP152, WDR62 and CEP63 colocalize at the centrosome. We found that they interact to promote centriole duplication and form a hierarchy in which each is required to localize another to the centrosome, with CDK5RAP2 at the apex, and CEP152, WDR62 and CEP63 at sequentially lower positions. MCPH proteins interact with distinct centriolar satellite proteins; CDK5RAP2 interacts with SPAG5 and CEP72, CEP152 with CEP131, WDR62 with MOONRAKER, and CEP63 with CEP90 and CCDC14. These satellite proteins localize their cognate MCPH interactors to centrosomes and also promote centriole duplication. *For correspondence: Jeremy. Consistent with a role for satellites in microcephaly, homozygous mutations in one satellite gene, [email protected] CEP90, may cause MCPH. The satellite proteins, with the exception of CCDC14, and MCPH proteins †These authors contributed promote centriole duplication by recruiting CDK2 to the centrosome. -
Strain-Specific Differences in Brain Gene Expression in a Hydrocephalic
www.nature.com/scientificreports OPEN Strain-specifc diferences in brain gene expression in a hydrocephalic mouse model with motile cilia Received: 18 June 2018 Accepted: 22 August 2018 dysfunction Published: xx xx xxxx Casey W. McKenzie1, Claudia C. Preston2, Rozzy Finn1, Kathleen M. Eyster3, Randolph S. Faustino2,4 & Lance Lee1,4 Congenital hydrocephalus results from cerebrospinal fuid accumulation in the ventricles of the brain and causes severe neurological damage, but the underlying causes are not well understood. It is associated with several syndromes, including primary ciliary dyskinesia (PCD), which is caused by dysfunction of motile cilia. We previously demonstrated that mouse models of PCD lacking ciliary proteins CFAP221, CFAP54 and SPEF2 all have hydrocephalus with a strain-dependent severity. While morphological defects are more severe on the C57BL/6J (B6) background than 129S6/SvEvTac (129), cerebrospinal fuid fow is perturbed on both backgrounds, suggesting that abnormal cilia-driven fow is not the only factor underlying the hydrocephalus phenotype. Here, we performed a microarray analysis on brains from wild type and nm1054 mice lacking CFAP221 on the B6 and 129 backgrounds. Expression diferences were observed for a number of genes that cluster into distinct groups based on expression pattern and biological function, many of them implicated in cellular and biochemical processes essential for proper brain development. These include genes known to be functionally relevant to congenital hydrocephalus, as well as formation and function of both motile and sensory cilia. Identifcation of these genes provides important clues to mechanisms underlying congenital hydrocephalus severity. Hydrocephalus is a complex disorder with both genetic and environmental causes1. -
Huntingtin Nuclear Localization: Current Insights Into Mechanism and Regulation
Ph.D. Thesis – C.R. Desmond McMaster University - Biochemistry Nuclear Localization of the Huntingtin Protein i Ph.D. Thesis – C.R. Desmond McMaster University - Biochemistry Huntingtin Nuclear Localization: Current Insights into Mechanism and Regulation By CARLY DESMOND, B.Sc. A Thesis Submitted to the School of Graduate Studies in Partial Fulfilment of the Requirements for the Degree Doctor of Philosophy McMaster University © Copyright by Carly Desmond, December 2012 ii Ph.D. Thesis – C.R. Desmond McMaster University - Biochemistry McMaster University DOCTOR OF PHILOSOPHY (2012) Hamilton, Ontario (Biochemistry and Biomedical Sciences) TITLE: Huntingtin Nuclear Localization: Mechanism and Regulation AUTHOR: Carly Desmond, B.Sc. (McMaster University) SUPERVISOR: Dr. Ray Truant NUMBER OF PAGES: xvi, 177 iii Ph.D. Thesis – C.R. Desmond McMaster University - Biochemistry ABSTRACT Huntington's Disease brains display a striking accumulation of huntingtin in the nucleus of striatal and cortical neurons, suggesting that nuclear functions may be key to the onset of cellular pathogenesis. Entry to the nucleus is tightly regulated by a family of import receptors called karyopherins that limit their binding to proteins bearing specific nuclear localization signals (NLS). Although huntingtin is primarily cytoplasmic in healthy neurons, it is also found in the nucleus at low levels and contains a nuclear export signal (NES), suggesting that shuttling to and from the nucleus is part of the protein's normal function. Indeed, recent publications from our lab (Atwal et al. 2007 and 2011, and Munsie et al. 2011) describe huntingtin's ability to enter the nucleus in response to cell stress, and localize to cofilin-actin rods. We have identified an active NLS near the amino terminus of huntingtin between amino acids 174-207, which is recognized by both karyopherin β2 and β1. -
Pattern Discovery and Cancer Gene Identification in Integrated Cancer
Pattern discovery and cancer gene identification in integrated cancer genomic data Qianxing Moa,b, Sijian Wangc, Venkatraman E. Seshana, Adam B. Olshend, Nikolaus Schultze, Chris Sandere, R. Scott Powersf, Marc Ladanyig, and Ronglai Shena,1 aDepartment of Epidemiology and Biostatistics, eComputational Biology Program, and gDepartment of Pathology and Human Oncology and Pathogenesis Program, Memorial Sloan–Kettering Cancer Center, New York, NY 10065; bDepartment of Medicine and Dan L. Duncan Cancer Center, Baylor College of Medicine, Houston, TX 77030; cDepartment of Biostatistics and Medical Informatics, University of Wisconsin, Madison, WI 53792; dDepartment of Epidemiology and Biostatistics, University of California, San Francisco, CA 94107; and fCancer Genome Center, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11797 Edited by Peter J. Bickel, University of California, Berkeley, CA, and approved December 19, 2012 (received for review May 27, 2012) Large-scale integrated cancer genome characterization efforts in- integrates the information to extract biological principles from the cluding the cancer genome atlas and the cancer cell line encyclo- massive amount of data to provide useful insights for advancing pedia have created unprecedented opportunities to study cancer diagnostic, prognostic, and therapeutic strategies. biology in the context of knowing the entire catalog of genetic In a previous publication (8), we proposed an integrative alterations. A clinically important challenge is to discover cancer clustering framework