A Mutation in Separase Causes Genome Instability and Increased Susceptibility to Epithelial Cancer

Total Page:16

File Type:pdf, Size:1020Kb

A Mutation in Separase Causes Genome Instability and Increased Susceptibility to Epithelial Cancer Downloaded from genesdev.cshlp.org on September 23, 2021 - Published by Cold Spring Harbor Laboratory Press RESEARCH COMMUNICATION A mutation in separase causes of homozygous cds embryos shows that they also exhibit increased apoptosis as early as 24 hpf, as detected by genome instability and TUNEL staining (Fig. 1B). 5-bromo-2-deoxyuridine increased susceptibility to (BrdU) incorporation also indicates that at 28 hpf, cds embryos have markedly decreased embryonic prolifera- epithelial cancer tion (Supplementary Fig. S1). To further characterize the larger foci phenotype and cell cycle defects exhibited by 1,3 1,4 Jennifer L. Shepard, James F. Amatruda, cds mutant embryos, DNA content analysis was per- David Finkelstein,1 James Ziai,1 K. Rose Finley,1 formed on disaggregated 24-hpf embryos. This study Howard M. Stern,1,2 Ken Chiang,1 demonstrated that cds embryos have a population of Candace Hersey,1 Bruce Barut,1 cells with 8N DNA content, indicating the presence of 2 2 polyploid cells (Fig. 1C). Further analysis also demon- Jennifer L. Freeman, Charles Lee, strated the presence of 16N cells (data not shown). These 2 2 Jonathan N. Glickman, Jeffery L. Kutok, data suggest that cds mutants have a fundamental prob- Jon C. Aster,2 and Leonard I. Zon1,5 lem with control of the mitotic checkpoint. To discover the gene responsible for the cds pheno- 1Children’s Hospital, Boston, Massachusetts 02115, USA; 2 type, a positional cloning project was undertaken and Department of Pathology, Brigham and Women’s Hospital, cds was mapped and localized to linkage group 6 in a Boston, Massacusetts 02115, USA 6.5-centimorgan (cM) interval between the microsatel- lite markers z5294 and z265 (Fig. 1D). Scanning of addi- Proper chromosome segregation is essential for mainte- tional microsatellite makers narrowed the interval to 0.5 nance of genomic integrity and instability resulting from cM. A chromosomal walk was initiated from z11919, failure of this process may contribute to cancer. Here, we and led to the identification of a single BAC clone that demonstrate that a mutation in the mitotic regulator contained the cds locus. Analysis of BAC sequence and separase is responsible for the cell cycle defects seen in human/zebrafish syntenic relationships led to the dis- the zebrafish mutant, cease&desist (cds). Analysis of cds covery that the zebrafish ortholog of the vertebrate gene homozygous mutant embryos reveals high levels of poly- separase was present in this critical interval. Sequence ploidy and aneuploidy, spindle defects, and a mitotic exit analysis of the cds mutant locus identified a C-to-A delay. Carcinogenesis studies demonstrated that cds het- transversion introducing a nonsense mutation that is predicted to truncate the zebrafish separase gene after erozygous adults have a shift in tumor spectrum with an amino acid 597, which would cause loss of the catalytic eightfold increase in the percentage of fish bearing epi- domain and loss of half of the ARM repeats at the N thelial tumors, indicating that separase is a tumor sup- terminus (Viadiu et al. 2005). Separase is a cysteine pro- pressor gene in vertebrates. These data strongly support tease that, during mitosis, is responsible for cleaving the a conserved cross-species role for mitotic checkpoint cohesin complex that binds sister chromatids together genes in genetic stability and epithelial carcinogenesis. (Nasmyth 2001). Separase is tightly regulated by an ana- phase-promoting complex target protein, securin, which Supplemental material is available at http://www.genesdev.org. has been shown to act as the oncogene pituitary tumor Received July 18, 2006; revised version accepted November 8, transforming gene (PTTG) in humans (Zou et al. 1999). 2006. Separase is also regulated by autocatalytic cleavage and inhibitory phosphorylation (Stemmann et al. 2001; Wai- zenegger et al. 2002; Zou et al. 2002). Additionally, in Results and Discussion yeast, separase has been shown to act as part of the mi- A previously described genetic screen in zebrafish for totic exit network (MEN) complex, suggesting that sepa- cell proliferation mutants identified cease&desist (cds), rase simultaneously triggers anaphase by cohesin cleav- a homozygous lethal mutant with aberrant staining for age and, independently of its protease function, initiates the phosphorylated form of histone H3 (pH3), a mitotic mitotic exit through activation of Cdc14 (Stegmeier et marker (Shepard et al. 2005). pH3 staining of cds em- al. 2002). Zebrafish separase encodes a 2181-amino-acid bryos 36 h post-fertilization (hpf) shows a slight decrease protein that is 34% identical to human separase, and in the number of pH3-positive cells (Fig. 1A) and reveals 13% identical to Schizosaccharomyces pombe Cut1 and that these pH3-positive foci are also larger than their Saccharomyces cervisiae Esp1 (Supplementary Fig. S2). wild-type sibling counterparts. Further characterization The catalytic residues that are present in all caspase- hemoglobinase fold family members are also conserved (Aravind and Koonin 2002). DNA content analysis of wild-type embryos injected with antisense morpholino- [Keywords: Cancer; chromosome segregation; mitotic checkpoint; ze- brafish] modified oligonucleotides (morpholinos) targeted to the Present addresses: 3Center for Cancer Research, Massachusetts Institute separase exon 7 splice donor shows that ∼30% of the of Technology, Cambridge, MA 02139, USA; 4Departments of Pediatrics cells are polyploid, which is similar to the level seen in and Molecular Biology, University of Texas Southwestern Medical Cen- cds homozygous mutants (Fig. 1E). These data strongly ter, 5323 Harry Hines Blvd., Dallas, TX 75390, USA. 5Corresponding author. suggest it is a loss of function of separase that is respon- E-MAIL [email protected]; FAX (617) 730-0222. sible for the cds phenotype. Article is online at http://www.genesdev.org/cgi/doi/10.1101/gad.1470407. Loss of separase in yeast, human, and mouse cells has GENES & DEVELOPMENT 21:55–59 © 2007 by Cold Spring Harbor Laboratory Press ISSN 0890-9369/07; www.genesdev.org 55 Downloaded from genesdev.cshlp.org on September 23, 2021 - Published by Cold Spring Harbor Laboratory Press Shepard et al. extra time to reach the pole (Pidoux et al. 2000). Our studies have demonstrated that such a mi- totic exit defect can be detected. To examine the cell cycle timing of cds cells from S to M phase and determine if a mitotic entry or exit defect existed, we performed a BrdU pulse/chase experi- ment and double stained the embryos with anti- BrdU antibody and pH3 antibody. Examining the timing of when BrdU-positive cells become pH3 positive allows calculation of the length of time between the S phase and mitotic entry and exit in cds as compared with wild types (Fig. 2J). The S-phase cell population in wild-type embryos be- gins to enter G2/M 2 h after BrdU labeling and begins to exit from mitosis at 6 h, with exit com- pleted by 8 h. Cells in cds embryos enter M phase at the same time as wild types, and also begin to exit at 6 h post-incorporation. There are still a significant proportion of cds cells in mitosis at the 8-h time point, indicating slower progression through mitosis, perhaps due to mitotic compli- cations, or a potential mitotic exit defect. Sepa- rase has been shown to act as part of a complex that promotes mitotic exit in yeast (Stegmeier et al. 2002), so this phenotype is consistent with a similar role in vertebrates. However, recent stud- Figure 1. cds has mitotic cells with increased size of pH3 foci and increased ies in mouse embryonic fibroblasts lacking Sepa- apoptosis and polyploidy, and is caused by a mutation in the zebrafish separase rase have not uncovered any mitotic exit defects gene. (A) High-power views of a 36-hpf cds mutant show that pH3-positive foci (Kumada et al. 2006). This discrepancy between in cds are larger in size than in wild-type siblings. (B) TUNEL staining of 24-hpf cds embryos shows increased apoptosis in the head and dorsal part of the tail. (C) zebrafish embryos and mouse embryonic fibro- DNA content analysis of cds homozygous 36-hpf embryos and wild-type siblings blasts (MEFs) may be attributed to studying this showing the presence of polyploid cells in the mutant. (D) Positional cloning of phenomenon in a whole organism versus in a cell the cds gene. The cds locus is depicted by a black bar between the flanking culture environment; the defect may only be vis- markers z11919 and z7248 identified by analysis of ∼3000 meioses from diploid ible in the former. mutants. Below is an enlarged view of the cds locus that depicts the BAC ge- To further characterize the polyploidy seen in nomic clones identified in a chromosomal walk. The number of recombination events identified from the distal side (squares) and proximal side (circles) are cds embryos and to look for further evidence of indicated. (E) Phenocopy of the cds polyploid phenotype by injection of morpho- chromosomal instability as indicated by the pres- linos targeted to the separase exon 14 splice donor. ence of grossly abnormal mitoses, interphase fluorescent in situ hybridization (FISH) analysis was performed using probes specific to two ran- been shown to cause mitotic spindle defects such as domly chosen linkage groups. This analysis shows that multiple spindle poles (Baum et al. 1988; Uzawa et al. cds embryos contain 48% polyploid and 34% aneuploid 1990; Waizenegger et al. 2002; Chestukhin et al. 2003; cells versus 2% and 7%, respectively, in wild types (Fig. Kumada et al. 2006; Wirth et al. 2006). Examination of 3A,B). Further analysis of metaphase spreads demon- the mitotic spindle in 32-hpf cds mutants demonstrated strated the presence of cells in cds mutant embryos with that ∼50% of the visible spindles were abnormal (Fig.
Recommended publications
  • Serine Proteases with Altered Sensitivity to Activity-Modulating
    (19) & (11) EP 2 045 321 A2 (12) EUROPEAN PATENT APPLICATION (43) Date of publication: (51) Int Cl.: 08.04.2009 Bulletin 2009/15 C12N 9/00 (2006.01) C12N 15/00 (2006.01) C12Q 1/37 (2006.01) (21) Application number: 09150549.5 (22) Date of filing: 26.05.2006 (84) Designated Contracting States: • Haupts, Ulrich AT BE BG CH CY CZ DE DK EE ES FI FR GB GR 51519 Odenthal (DE) HU IE IS IT LI LT LU LV MC NL PL PT RO SE SI • Coco, Wayne SK TR 50737 Köln (DE) •Tebbe, Jan (30) Priority: 27.05.2005 EP 05104543 50733 Köln (DE) • Votsmeier, Christian (62) Document number(s) of the earlier application(s) in 50259 Pulheim (DE) accordance with Art. 76 EPC: • Scheidig, Andreas 06763303.2 / 1 883 696 50823 Köln (DE) (71) Applicant: Direvo Biotech AG (74) Representative: von Kreisler Selting Werner 50829 Köln (DE) Patentanwälte P.O. Box 10 22 41 (72) Inventors: 50462 Köln (DE) • Koltermann, André 82057 Icking (DE) Remarks: • Kettling, Ulrich This application was filed on 14-01-2009 as a 81477 München (DE) divisional application to the application mentioned under INID code 62. (54) Serine proteases with altered sensitivity to activity-modulating substances (57) The present invention provides variants of ser- screening of the library in the presence of one or several ine proteases of the S1 class with altered sensitivity to activity-modulating substances, selection of variants with one or more activity-modulating substances. A method altered sensitivity to one or several activity-modulating for the generation of such proteases is disclosed, com- substances and isolation of those polynucleotide se- prising the provision of a protease library encoding poly- quences that encode for the selected variants.
    [Show full text]
  • Separase Protease Activity Is Required for Cytokinesis in Addition
    bioRxiv preprint doi: https://doi.org/10.1101/069906; this version posted August 16, 2016. 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. Separase Protease Activity is Required for Cytokinesis in addition to Chromosome Segregation Xiaofei Bai1 and Joshua N. Bembenek1* 1Department of Biochemistry, Cellular and Molecular Biology, University of Tennessee, Knoxville, Tennessee, United States of America * Corresponding Author: Joshua N. Bembenek 1414 Cumberland Ave. C211 Walters Life Sciences Building Knoxville, TN 37996 (865)-974-4085 E-mail: [email protected] bioRxiv preprint doi: https://doi.org/10.1101/069906; this version posted August 16, 2016. 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. Abstract Chromosomal segregation and cytokinesis are tightly regulated processes required for successful cell division. The cysteine protease separase cleaves a subunit of the cohesin complex to allow chromosome segregation at anaphase onset. Separase also regulates meiotic cortical granule exocytosis and vesicle trafficking during cytokinesis, both of which involve RAB-11. Separase has non-proteolytic signaling functions in addition to its role in substrate cleavage, and its mechanism in exocytosis is unknown. We sought to determine whether separase regulates RAB-11 vesicle exocytosis through a proteolytic or non-proteolytic mechanism.
    [Show full text]
  • Proteolytic Enzymes in Grass Pollen and Their Relationship to Allergenic Proteins
    Proteolytic Enzymes in Grass Pollen and their Relationship to Allergenic Proteins By Rohit G. Saldanha A thesis submitted in fulfilment of the requirements for the degree of Masters by Research Faculty of Medicine The University of New South Wales March 2005 TABLE OF CONTENTS TABLE OF CONTENTS 1 LIST OF FIGURES 6 LIST OF TABLES 8 LIST OF TABLES 8 ABBREVIATIONS 8 ACKNOWLEDGEMENTS 11 PUBLISHED WORK FROM THIS THESIS 12 ABSTRACT 13 1. ASTHMA AND SENSITISATION IN ALLERGIC DISEASES 14 1.1 Defining Asthma and its Clinical Presentation 14 1.2 Inflammatory Responses in Asthma 15 1.2.1 The Early Phase Response 15 1.2.2 The Late Phase Reaction 16 1.3 Effects of Airway Inflammation 16 1.3.1 Respiratory Epithelium 16 1.3.2 Airway Remodelling 17 1.4 Classification of Asthma 18 1.4.1 Extrinsic Asthma 19 1.4.2 Intrinsic Asthma 19 1.5 Prevalence of Asthma 20 1.6 Immunological Sensitisation 22 1.7 Antigen Presentation and development of T cell Responses. 22 1.8 Factors Influencing T cell Activation Responses 25 1.8.1 Co-Stimulatory Interactions 25 1.8.2 Cognate Cellular Interactions 26 1.8.3 Soluble Pro-inflammatory Factors 26 1.9 Intracellular Signalling Mechanisms Regulating T cell Differentiation 30 2 POLLEN ALLERGENS AND THEIR RELATIONSHIP TO PROTEOLYTIC ENZYMES 33 1 2.1 The Role of Pollen Allergens in Asthma 33 2.2 Environmental Factors influencing Pollen Exposure 33 2.3 Classification of Pollen Sources 35 2.3.1 Taxonomy of Pollen Sources 35 2.3.2 Cross-Reactivity between different Pollen Allergens 40 2.4 Classification of Pollen Allergens 41 2.4.1
    [Show full text]
  • Developmental Requirements for Ubiquitin-Mediated Proteolysis
    REVIEW 773 Development 133, 773-784 doi:10.1242/dev.02276 Degrade to create: developmental requirements for ubiquitin-mediated proteolysis during early C. elegans embryogenesis Bruce Bowerman1 and Thimo Kurz2,* The ubiquitin protein conjugation system tags proteins with the the activity of cell division kinases, which must bind to cyclin small polypeptide ubiquitin. Most poly-ubiquitinated proteins proteins to be active (Morgan, 1997; Murray, 2004). Cyclins were are recognized and degraded by the proteasome, a large multi- so named because they accumulate to peak levels at specific times subunit protease. Ubiquitin-dependent protein degradation is during the cell cycle, thereby activating cell division kinases at used as a regulatory tool for many essential processes, the best appropriate moments. A regulatory role for ubiquitin in the cell cycle studied of which is eukaryotic cell cycle progression. More was discovered when it was shown that cyclins are targeted for rapid recently, genetic studies in C. elegans have identified multiple degradation during the cell cycle by poly-ubiquitination (Glotzer et roles for the ubiquitin system in early development, where al., 1991; Hershko et al., 1991). ubiquitin-dependent protein degradation governs such diverse Additional roles for ubiquitination emerged from studies of the events as passage through meiosis, cytoskeletal regulation and metaphase-to-anaphase transition during mitosis (Peters, 2002). cell fate determination. Early in mitosis, the duplicated chromosomes (sister chromatids) condense and are held together by a multi-protein cohesin complex. Introduction As the bipolar mitotic spindle forms, sister chromatid pairs become Ubiquitin-mediated proteolysis, discovered over 25 years ago captured by microtubules such that each spindle pole is attached to (Ciechanover et al., 1980; Hershko et al., 1980), covalently attaches only one sister.
    [Show full text]
  • Intertwined Functions of Separase and Caspase in Cell Division
    bioRxiv preprint doi: https://doi.org/10.1101/653584; this version posted May 30, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Intertwined Functions of Separase and Caspase in Cell Division and Programmed Cell Death Pan-Young Jeong1, Ashish Kumar1, Pradeep Joshi1, and Joel H. Rothman1* Affiliations: 1Department of Molecular, Cellular, and Developmental Biology, and Neuroscience Research Institute, University of California, Santa Barbara, Santa Barbara, CA 93106, USA. *Correspondence to: [email protected] Key words : C. elegans, chromosome separation, separase, caspase, programmed cell death 2 bioRxiv preprint doi: https://doi.org/10.1101/653584; this version posted May 30, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract: Timely sister chromatid separation, promoted by separase, is essential for faithful chromosome segregation. Separase is a member of the CD clan of cysteine proteases, which also includes the pro-apoptotic enzymes known as caspases. We report that the C. elegans separase SEP-1, primarily known for its role in cell division, is required for apoptosis when the predominant pro-apoptotic caspase CED-3 is compromised. Loss of SEP-1 results in extra surviving cells in a weak ced-3(-) mutant, and suppresses the embryonic lethality of a mutant defective for the apoptotic suppressor ced-9/Bcl-2. We also report apparent non-apoptotic roles for CED-3 in promoting germ cell proliferation and germline meiotic chromosome disjunction and the normal rate of embryonic development.
    [Show full text]
  • Intertwined Functions of Separase and Caspase in Cell Division and Programmed Cell Death Pan-Young Jeong, Ashish Kumar, Pradeep M
    www.nature.com/scientificreports OPEN Intertwined Functions of Separase and Caspase in Cell Division and Programmed Cell Death Pan-Young Jeong, Ashish Kumar, Pradeep M. Joshi & Joel H. Rothman* Timely sister chromatid separation, promoted by separase, is essential for faithful chromosome segregation. Separase is a member of the CD clan of cysteine proteases, which also includes the pro- apoptotic enzymes known as caspases. We report a role for the C. elegans separase SEP-1, primarily known for its essential activity in cell division and cortical granule exocytosis, in developmentally programmed cell death when the predominant pro-apoptotic caspase CED-3 is compromised. Loss of SEP-1 results in extra surviving cells in a weak ced-3(-) mutant, and suppresses the embryonic lethality of a mutant defective for the apoptotic suppressor ced-9/Bcl-2 implicating SEP-1 in execution of apoptosis. We also report apparent non-apoptotic roles for CED-3 in promoting germ cell proliferation, meiotic chromosome disjunction, egg shell formation, and the normal rate of embryonic development. Moreover, loss of the soma-specifc (CSP-3) and germline-specifc (CSP-2) caspase inhibitors result in CED-3-dependent suppression of embryonic lethality and meiotic chromosome non-disjunction respectively, when separase function is compromised. Thus, while caspases and separases have evolved diferent substrate specifcities associated with their specialized functions in apoptosis and cell division respectively, they appear to have retained the residual ability to participate in both processes, supporting the view that co-option of components in cell division may have led to the innovation of programmed cell suicide early in metazoan evolution.
    [Show full text]
  • Reproductionresearch
    REPRODUCTIONRESEARCH Expression and possible involvement of calpain isoforms in mammalian egg activation Irit Ben-Aharon1, Karin Haim1, Ruth Shalgi1 and Dalit Ben-Yosef2 1Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, Tel-Aviv, Israel and 2Sara Racine IVF Unit, Tel Aviv Sourasky Medical Center, Tel Aviv, Israel Correspondence should be addressed to D Ben-Yosef, Sara Racine IVF Unit, Lis Maternity Hospital, Tel Aviv Sourasky Medical Center, 6 Weizmann Street, Tel Aviv 64239, Israel; Email: [email protected]) Abstract At fertilization in mammals, the spermatozoon triggers a unique signal transduction mechanism within the egg, leading to its activation. It is well accepted that the earliest event observed in all activated eggs is an abrupt rise in intracellular calcium concentrations. However, little is known regarding the downstream proteins that are activated by this rise in calcium. Calpains constitute a family of intracellular calcium-dependent cysteine proteases whose members are expressed widely in a variety of cells. We investigated the expression and possible role of the calpain isoforms m and m throughout egg activation. Both cal- pains were expressed in the rat egg and localized at the egg cortex as well as in the meiotic spindle. m Calpain translocated to the membrane and to the spindle area during parthenogenetic egg activation and during in vivo fertilization, upon sperm binding to the egg. The cytoskeletal protein a-spectrin (fodrin) was proteolysed by calpain during the egg-activation process, as demonstrated by specific calpain-breakdown products. Following parthenogenetic activation by ionomycin or puromycin, the calpain-selective permeable inhibitor, calpeptin, inhibited the resumption of meiosis and cortical reaction in a dose- dependent manner.
    [Show full text]
  • Peptide Sequence
    Peptide Sequence Annotation AADHDG CAS-L1 AAEAISDA M10.005-stromelysin 1 (MMP-3) AAEHDG CAS-L2 AAEYGAEA A01.009-cathepsin D AAGAMFLE M10.007-stromelysin 3 (MMP-11) AAQNASMW A06.001-nodavirus endopeptidase AASGFASP M04.003-vibriolysin ADAHDG CAS-L3 ADAPKGGG M02.006-angiotensin-converting enzyme 2 ADATDG CAS-L5 ADAVMDNP A01.009-cathepsin D ADDPDG CAS-21 ADEPDG CAS-L11 ADETDG CAS-22 ADEVDG CAS-23 ADGKKPSS S01.233-plasmin AEALERMF A01.009-cathepsin D AEEQGVTD C03.007-rhinovirus picornain 3C AETFYVDG A02.001-HIV-1 retropepsin AETWYIDG A02.007-feline immunodeficiency virus retropepsin AFAHDG CAS-L24 AFATDG CAS-25 AFDHDG CAS-L26 AFDTDG CAS-27 AFEHDG CAS-28 AFETDG CAS-29 AFGHDG CAS-30 AFGTDG CAS-31 AFQHDG CAS-32 AFQTDG CAS-33 AFSHDG CAS-L34 AFSTDG CAS-35 AFTHDG CAS-L36 AGERGFFY Insulin B-chain AGLQRGGG M14.004-carboxypeptidase N AGSHLVEA Insulin B-chain AIDIDG CAS-L37 AIDPDG CAS-38 AIDTDG CAS-39 AIDVDG CAS-L40 AIEHDG CAS-L41 AIEIDG CAS-L42 AIENDG CAS-43 AIEPDG CAS-44 AIEQDG CAS-45 AIESDG CAS-46 AIETDG CAS-47 AIEVDG CAS-48 AIFQGPID C03.007-rhinovirus picornain 3C AIGHDG CAS-49 AIGNDG CAS-L50 AIGPDG CAS-L51 AIGQDG CAS-52 AIGSDG CAS-53 AIGTDG CAS-54 AIPMSIPP M10.051-serralysin AISHDG CAS-L55 AISNDG CAS-L56 AISPDG CAS-57 AISQDG CAS-58 AISSDG CAS-59 AISTDG CAS-L60 AKQRAKRD S08.071-furin AKRQGLPV C03.007-rhinovirus picornain 3C AKRRAKRD S08.071-furin AKRRTKRD S08.071-furin ALAALAKK M11.001-gametolysin ALDIDG CAS-L61 ALDPDG CAS-62 ALDTDG CAS-63 ALDVDG CAS-L64 ALEIDG CAS-L65 ALEPDG CAS-L66 ALETDG CAS-67 ALEVDG CAS-68 ALFQGPLQ C03.001-poliovirus-type picornain
    [Show full text]
  • On the Cause of Sleep: Protein Fragments, the Concept of Sentinels, and Links to Epilepsy
    1 Supplementary Information (SI) for: On the cause of sleep: protein fragments, the concept of sentinels, and links to epilepsy Alexander Varshavsky Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125 Email: [email protected] Second revision, April 1, 2019 This PDF includes: Figures S1-S6 and their legends. References for SI. www.pnas.org/cgi/doi/10.1073/pnas.1904709116 2 Fig. S1. Calpain-generated natural C-terminal (Ct) fragments of mammalian proteins. This list is but a small subset of natural calpain substrates in a mammal. (A) Ct-fragments with numbers in green are experimentally characterized and validated substrates of the Arg/N-degron pathway (Fig. 2) (1, 2). Ct-fragments with numbers in black are predicted Arg/N-degron substrates. Each entry cites a calpain-generated Ct-fragment and the fragment’s N-terminal (Nt) residue (in red), using 3-letter abbreviations for amino acids. A calpain cleavage site, indicated by an arrowhead, is denoted using single-letter abbreviations for amino acids. A P1’ residue (in red and enlarged) becomes Nt-residue upon the cleavage. The indicated residue numbers are, respectively, the number of the first shown residue of a full-length protein precursor and the number of its last residue. Residue numbers of proteins are counted from their initially present Nt-Met residue, irrespective of whether or not Nt-Met is removed by Met-aminopeptidases. All entries are mouse proteins, save for #14 and #24, which are human proteins. (B)Same as in A but examples of calpain-generated Ct-fragments whose Nt-residues are not recognized by the Arg/N-degron pathway (Fig.
    [Show full text]
  • WO 2014/099191 Al 26 June 2014 (26.06.2014) P O P C T
    (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date WO 2014/099191 Al 26 June 2014 (26.06.2014) P O P C T (51) International Patent Classification: (71) Applicant (for all designated States except AE, AO, BH, C02F 1/50 (2006.01) C02F 1/66 (2006.01) CA, CN, FR, GB, GH, IN, JP, LY, MA, MZ, NA, NG, NL, PH, SD, SY, US, VN): SCHLUMBERGER TECHNO¬ (21) International Application Number: LOGY B.V. [NL/NL]; Parkstraat 83-89m, NL-25 14 JG PCT/US20 13/070272 The Hague (NL). (22) International Filing Date: (71) Applicant (for AE, AO, BF, BH, BJ, CF, CG, CI, CM, CN, 15 November 2013 (15.1 1.2013) GA, GH, GN GQ, GW, IN, KM, LY, MA, ML, MR, MZ, (25) Filing Language: English NA, NE, NG, PH, SD, SN, SY, TD, TG, VN only) : PRAD RESEARCH AND DEVELOPMENT LIMITED; P.O. (26) Publication Language: English Box 71, Craigmuir Chambers, Road Town, Tortola, Virgin (30) Priority Data: Island, British, 1110 (VG). 13/7 18,877 18 December 201 2 ( 18.12.20 12) US (71) Applicant (for US only): SCHLUMBERGER TECHNO¬ (71) Applicant (for CA only): SCHLUMBERGER CANADA LOGY CORPORATION [US/US]; 300 Schlumberger LIMITED [CA/CA]; 525-3rd Avenue Southwest, Calgary, Drive, Sugar Land, Texas 77478 (US). Alberta T2P-0G4 (CA). (72) Inventor: SORRELLS, Denton; 14402 West Bellfort Av (71) Applicant (for FR only): SERVICES PETROLIERS enue, Sugar Land, Texas 77498 (US). SCHLUMBERGER [FR/FR]; 42 rue Saint Dominique, F- (74) Agents: WRIGHT, Daryl et al; 10001 Richmond Aven 75007 Paris (FR).
    [Show full text]
  • (12) Patent Application Publication (10) Pub. No.: US 2012/0266329 A1 Mathur Et Al
    US 2012026.6329A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2012/0266329 A1 Mathur et al. (43) Pub. Date: Oct. 18, 2012 (54) NUCLEICACIDS AND PROTEINS AND CI2N 9/10 (2006.01) METHODS FOR MAKING AND USING THEMI CI2N 9/24 (2006.01) CI2N 9/02 (2006.01) (75) Inventors: Eric J. Mathur, Carlsbad, CA CI2N 9/06 (2006.01) (US); Cathy Chang, San Marcos, CI2P 2L/02 (2006.01) CA (US) CI2O I/04 (2006.01) CI2N 9/96 (2006.01) (73) Assignee: BP Corporation North America CI2N 5/82 (2006.01) Inc., Houston, TX (US) CI2N 15/53 (2006.01) CI2N IS/54 (2006.01) CI2N 15/57 2006.O1 (22) Filed: Feb. 20, 2012 CI2N IS/60 308: Related U.S. Application Data EN f :08: (62) Division of application No. 1 1/817,403, filed on May AOIH 5/00 (2006.01) 7, 2008, now Pat. No. 8,119,385, filed as application AOIH 5/10 (2006.01) No. PCT/US2006/007642 on Mar. 3, 2006. C07K I4/00 (2006.01) CI2N IS/II (2006.01) (60) Provisional application No. 60/658,984, filed on Mar. AOIH I/06 (2006.01) 4, 2005. CI2N 15/63 (2006.01) Publication Classification (52) U.S. Cl. ................... 800/293; 435/320.1; 435/252.3: 435/325; 435/254.11: 435/254.2:435/348; (51) Int. Cl. 435/419; 435/195; 435/196; 435/198: 435/233; CI2N 15/52 (2006.01) 435/201:435/232; 435/208; 435/227; 435/193; CI2N 15/85 (2006.01) 435/200; 435/189: 435/191: 435/69.1; 435/34; CI2N 5/86 (2006.01) 435/188:536/23.2; 435/468; 800/298; 800/320; CI2N 15/867 (2006.01) 800/317.2: 800/317.4: 800/320.3: 800/306; CI2N 5/864 (2006.01) 800/312 800/320.2: 800/317.3; 800/322; CI2N 5/8 (2006.01) 800/320.1; 530/350, 536/23.1: 800/278; 800/294 CI2N I/2 (2006.01) CI2N 5/10 (2006.01) (57) ABSTRACT CI2N L/15 (2006.01) CI2N I/19 (2006.01) The invention provides polypeptides, including enzymes, CI2N 9/14 (2006.01) structural proteins and binding proteins, polynucleotides CI2N 9/16 (2006.01) encoding these polypeptides, and methods of making and CI2N 9/20 (2006.01) using these polynucleotides and polypeptides.
    [Show full text]
  • Mice Required for Processing of Cathepsin L in Is for Class II MHC Antigen Presentation but Asparagine Endopeptidase Is Not Esse
    Asparagine Endopeptidase Is Not Essential for Class II MHC Antigen Presentation but Is Required for Processing of Cathepsin L in Mice This information is current as of October 2, 2021. René Maehr, Howard C. Hang, Justine D. Mintern, You-Me Kim, Armelle Cuvillier, Mikio Nishimura, Kenji Yamada, Kanae Shirahama-Noda, Ikuko Hara-Nishimura and Hidde L. Ploegh J Immunol 2005; 174:7066-7074; ; Downloaded from doi: 10.4049/jimmunol.174.11.7066 http://www.jimmunol.org/content/174/11/7066 References This article cites 51 articles, 25 of which you can access for free at: http://www.jimmunol.org/ http://www.jimmunol.org/content/174/11/7066.full#ref-list-1 Why The JI? Submit online. • Rapid Reviews! 30 days* from submission to initial decision • No Triage! Every submission reviewed by practicing scientists by guest on October 2, 2021 • Fast Publication! 4 weeks from acceptance to publication *average Subscription Information about subscribing to The Journal of Immunology is online at: http://jimmunol.org/subscription Permissions Submit copyright permission requests at: http://www.aai.org/About/Publications/JI/copyright.html Email Alerts Receive free email-alerts when new articles cite this article. Sign up at: http://jimmunol.org/alerts The Journal of Immunology is published twice each month by The American Association of Immunologists, Inc., 1451 Rockville Pike, Suite 650, Rockville, MD 20852 Copyright © 2005 by The American Association of Immunologists All rights reserved. Print ISSN: 0022-1767 Online ISSN: 1550-6606. The Journal of Immunology Asparagine Endopeptidase Is Not Essential for Class II MHC Antigen Presentation but Is Required for Processing of Cathepsin L in Mice1 Rene´Maehr,* Howard C.
    [Show full text]