DOCSLIB.ORG

Standard St.26

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Standard St.26 HANDBOOK ON INDUSTRIAL PROPERTY INFORMATION AND DOCUMENTATION Ref.: Standards - ST.26 page: 3.26.1 STANDARD ST.26 RECOMMENDED STANDARD FOR THE PRESENTATION OF NUCLEOTIDE AND AMINO ACID SEQUENCE LISTINGS USING XML (EXTENSIBLE MARKUP LANGUAGE) Version 1.23 Approved by the Committee on WIPO Standards (CWS) at its sixth seventh session on October 19, 2018July 5, 2019 Editorial Note prepared by the International Bureau At its fifth session, the Committee on WIPO Standards (CWS) agreed that the transition from WIPO Standard ST.25 to Standard ST.26 takes place in January 2022. Meanwhile, Standard ST.25 should continue to be used. The Standard is published for information purposes of industrial property offices and other interested parties. en / 03-26-01 Date: FebruarySeptember 2019 HANDBOOK ON INDUSTRIAL PROPERTY INFORMATION AND DOCUMENTATION Ref.: Standards - ST.26 page: 3.26.2 TABLE OF CONTENTS INTRODUCTION ........................................................................................................................................................... 3 DEFINITIONS ................................................................................................................................................................ 3 SCOPE .......................................................................................................................................................................... 4 REFERENCES .............................................................................................................................................................. 5 REPRESENTATION OF SEQUENCES ......................................................................................................................... 5 Nucleotide sequences ................................................................................................................................................ 5 Amino acid sequences ............................................................................................................................................... 8 Presentation of special situations ............................................................................................................................... 9 STRUCTURE OF THE SEQUENCE LISTING IN XML .................................................................................................. 9 Root element ............................................................................................................................................................ 10 General information part ........................................................................................................................................... 10 Sequence data part .................................................................................................................................................. 14 Feature table ............................................................................................................................................................ 15 Feature keys ............................................................................................................................................................ 16 Mandatory feature keys ............................................................................................................................................ 16 Feature location ....................................................................................................................................................... 16 Feature qualifiers...................................................................................................................................................... 18 Mandatory feature qualifiers ..................................................................................................................................... 18 Qualifier elements .................................................................................................................................................... 18 Free text ................................................................................................................................................................... 20 Coding sequences.................................................................................................................................................... 20 Variants .................................................................................................................................................................... 21 ANNEXES Annex I - Controlled vocabulary Annex II - Document Type Definition for Sequence Listing (DTD) Annex III - Sequence Listing Specimen (XML file) Annex IV - Character Subset from the Unicode Basic Latin Code Table for Use in an XML Instance of a Sequence Listing Annex V - Additional data exchange requirements (for patent offices only) Annex VI - Guidance document Appendix - Guidance document sequences in XML Annex VII - Recommendation for the transformation of a sequence listing from ST.25 to ST.26: potential added or deleted subject matter en / 03-26-01 Date: FebruarySeptember 2019 HANDBOOK ON INDUSTRIAL PROPERTY INFORMATION AND DOCUMENTATION Ref.: Standards - ST.26 page: 3.26.3 STANDARD ST.26 RECOMMENDED STANDARD FOR THE PRESENTATION OF NUCLEOTIDE AND AMINO ACID SEQUENCE LISTINGS USING XML (EXTENSIBLE MARKUP LANGUAGE) Version 1.23 Approved by the Committee on WIPO Standards (CWS) at its sixth seventh session on October 19, 2018July 5, 2019 INTRODUCTION 1. This Standard defines the nucleotide and amino acid sequence disclosures in a patent application required to be included in a sequence listing, the manner in which those disclosures are to be represented, and the Document Type Definition (DTD) for a sequence listing in XML (eXtensible Markup Language). It is recommended that industrial property offices accept any sequence listing compliant with this Standard filed as part of a patent application or in relation to a patent application. 2. The purpose of this Standard is to: (a) allow applicants to draw up a single sequence listing in a patent application acceptable for the purposes of both international and national or regional procedures; (b) enhance the accuracy and quality of presentations of sequences for easier dissemination, benefiting applicants, the public and examiners; (c) facilitate searching of the sequence data; and (d) allow sequence data to be exchanged in electronic form and introduced into computerized databases. DEFINITIONS 3. For the purpose of this Standard, the expression: (a) “amino acid” means any amino acid that can be represented using any of the symbols set forth in Annex I (see Section 3, Table 3). Such amino acids include, inter alia, D-amino acids and amino acids containing modified or synthetic side chains. Amino acids will be construed as unmodified L-amino acids unless further described in the feature table as modified according to paragraph 30. For the purpose of this standard, a peptide nucleic acid (PNA) residue is not considered an amino acid, but is considered a nucleotide as set forth in paragraph 3(g)(i)(2). (b) “controlled vocabulary” is the terminology contained in this Standard that must be used when describing the features of a sequence, i.e., annotations of regions or sites of interest as set forth in Annex I. (c) “enumeration of its residues” means disclosure of a sequence in a patent application by listing, in order, each residue of the sequence, wherein: (i) the residue is represented by a name, abbreviation, symbol, or structure (e.g., HHHHHHQ or HisHisHisHisHisHisGln); or (ii) multiple residues are represented by a shorthand formula (e.g., His6Gln). (d) “intentionally skipped sequence”, also known as an empty sequence, refers to a placeholder to preserve the numbering of sequences in the sequence listing for consistency with the application disclosure, for example, where a sequence is deleted from the disclosure to avoid renumbering of the sequences in both the disclosure and the sequence listing. (e) “modified amino acid” means any amino acid as described in paragraph 3(a) other than L-alanine, L-arginine, L-asparagine, L-aspartic acid, L-cysteine, L-glutamine, L-glutamic acid, L-glycine, L-histidine, L-isoleucine, L-leucine, L- lysine, L-methionine, L-phenylalanine, L-proline, L-pyrrolysine, L-serine, L-selenocysteine, L-threonine, L-tryptophan, L- tyrosine, or L-valine. (f) “modified nucleotide” means any nucleotide as described in paragraph 3(g) other than deoxyadenosine 3’- monophosphate, deoxyguanosine 3’-monophosphate, deoxycytidine 3’-monophosphate, deoxythymidine 3’- monophosphate, adenosine 3’-monophosphate, guanosine 3’-monophosphate, cytidine 3’-monophosphate, or uridine 3’- monophosphate. en / 03-26-01 Date: FebruarySeptember 2019 HANDBOOK ON INDUSTRIAL PROPERTY INFORMATION AND DOCUMENTATION Ref.: Standards - ST.26 page: 3.26.4 (g) “nucleotide” means any nucleotide or nucleotide analogue that can be represented using any of the symbols set forth in Annex I (see Section 1, Table 1) wherein the nucleotide or nucleotide analogue contains: (i) a backbone moiety selected from: (1) 2’ deoxyribose 5’ monophosphate (the backbone moiety of a deoxyribonucleotide) or ribose 5’ monophosphate (the backbone moiety of a ribonucleotide); or (2) an analogue of a 2’ deoxyribose 5’ monophosphate or ribose 5’ monophosphate, which when forming the backbone of a nucleic acid analogue, results in an arrangement of nucleobases that mimics the
Load more

Recommended publications
  • Deoxyguanosine Cytotoxicity by a Novel Inhibitor of Furine Nucleoside Phosphorylase, 8-Amino-9-Benzylguanine1
    [CANCER RESEARCH 46, 519-523, February 1986] Potentiation of 2'-Deoxyguanosine Cytotoxicity by a Novel Inhibitor of Furine Nucleoside Phosphorylase, 8-Amino-9-benzylguanine1 Donna S. Shewach,2 Ji-Wang Chern, Katherine E. Pillóte,Leroy B. Townsend, and Peter E. Daddona3 Departments of Internal Medicine [D.S.S., P.E.D.], Biological Chemistry [P.E.D.], and Medicinal Chemistry [J-W.C., K.E.P., L.B.T.], University ol Michigan, Ann Arbor, Michigan 48109 ABSTRACT to the ADA-deficient disease state (2). PNP is an essential enzyme of the purine salvage pathway, We have synthesized and evaluated a series of 9-substituted catalyzing the phosphorolysis of guanosine, inosine, and their analogues of 8-aminoguanine, a known inhibitor of human purine 2'-deoxyribonucleoside derivatives to the respective purine nucleoside phosphorylase (PNP) activity. The ability of these bases. To date, several inhibitors of PNP have been identified, agents to inhibit PNP has been investigated. All compounds were and most of these compounds resemble purine bases or nucleo found to act as competitive (with inosine) inhibitors of PNP, with sides. The most potent inhibitors exhibit apparent K¡values in K¡values ranging from 0.2 to 290 /¿M.Themost potent of these the range of 10~6to 10~7 M (9-12). Using partially purified human analogues, 8-amino-9-benzylguanine, exhibited a K, value that erythrocyte PNP, the diphosphate derivative of acyclovir dis was 4-fold lower than that determined for the parent base, 8- played K¡values of 5.1 x 10~7 to 8.7 x 10~9 M, depending on aminoguanine.
    [Show full text]
  • Protein Import Into Isolated Pea Root Leucoplasts
    ORIGINAL RESEARCH published: 04 September 2015 doi: 10.3389/fpls.2015.00690 Protein import into isolated pea root leucoplasts Chiung-Chih Chu and Hsou-min Li* Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Leucoplasts are important organelles for the synthesis and storage of starch, lipids and proteins. However, molecular mechanism of protein import into leucoplasts and how it differs from that of import into chloroplasts remain unknown. We used pea seedlings for both chloroplast and leucoplast isolations to compare within the same species. We further optimized the isolation and import conditions to improve import efficiency and to permit a quantitative comparison between the two plastid types. The authenticity of the import was verified using a mitochondrial precursor protein. Our results show that, when normalized to Toc75, most translocon proteins are less abundant in leucoplasts than in chloroplasts. A precursor shown to prefer the receptor Toc132 indeed had relatively more similar import efficiencies between chloroplasts and leucoplasts compared to precursors that prefer Toc159. Furthermore we found two precursors that exhibited very high import efficiency into leucoplasts. Their transit peptides may be candidates Edited by: for delivering transgenic proteins into leucoplasts and for analyzing motifs important for Bo Liu, University of California, Davis, USA leucoplast import. Reviewed by: Keywords: leucoplasts, plastid, root, protein import, translocon Kentaro Inoue, University of California, Davis, USA Danny Schnell, Introduction University of Massachusetts, USA *Correspondence: Plastids are essential plant organelles responsible for functions ranging from photosynthesis and Hsou-min Li, biosynthesis of amino acids and fatty acids to assimilation of nitrogen and sulfur (Leister, 2003; Institute of Molecular Biology, Sakamoto et al., 2008).
    [Show full text]
  • Inhibitory Effects of Cordycepin on Platelet Activation Via Regulation of Cyclic Adenosine Monophosphate-Downstream Pathway
    Biomedical Science Letters 2017, 23(3): 251~260 Original Article https://doi.org/10.15616/BSL.2017.23.3.251 eISSN : 2288-7415 Inhibitory Effects of Cordycepin on Platelet Activation via Regulation of Cyclic Adenosine Monophosphate-downstream Pathway Dong-Ha Lee† Department of Biomedical Laboratory Science, Korea Nazarene University, Cheonan 31172, Korea Platelet activation is essential at the sites of vascular injury, which leads to hemostasis through adhesion, aggregation, and secretion process. However, potent and continuous platelet activation may be an important reason of circulatory disorders. Therefore, proper regulation of platelet activation may be an effective treatment for vascular diseases. In this research, inhibitory effects of cordycepin (3'-deoxyadenosine) on platelet activation were determined. As the results, cordycepin increased cAMP and cGMP, which are intracellular Ca2+-antagonists. In addition, cordycepin reduced collagen- 2+ elevated [Ca ]i mobilization, which was increased by a cAMP-dependent protein kinase (PKA) inhibitor (Rp-8-Br- cAMPS), but not a cGMP-protein kinase (PKG) inhibitor (Rp-8-Br-cGMPS). Furthermore, cordycepin increased IP3RI 1756 2+ (Ser ) phosphorylation, indicating inhibition of IP3-mediated Ca release from internal store via the IP3RI, which was strongly inhibited by Rp-8-Br-cAMPS, but was not so much inhibited by Rp-8-Br-cGMPS. These results suggest that the 2+ 1756 reduction of [Ca ]i mobilization is caused by the cAMP/A-kinase-dependent IP3RI (Ser ) phosphorylation. In addition, cordycepin increased the phosphorylation of VASP (Ser157) known as PKA substrate, but not VASP (Ser239) known as PKG substrate. Cordycepin-induced VASP (Ser157) phosphorylation was inhibited by Rp-8-Br-cAMPS, but was not inhibited by Rp-8-Br-cGMPS, and cordycepin inhibited collagen-induced fibrinogen binding to αIIb/β3, which was increased by Rp-8-Br-cAMPS, but was not inhibited by Rp-8-Br-cGMPS.
    [Show full text]
  • Plasma Deoxyadenosine, Adenosine, and Erythrocyte Deoxyatp Are Elevated at Birth in an Adenosine Deaminase-Deficient Child
    Plasma deoxyadenosine, adenosine, and erythrocyte deoxyATP are elevated at birth in an adenosine deaminase-deficient child. R Hirschhorn, … , A Rubinstein, P Papageorgiou J Clin Invest. 1980;65(3):768-771. https://doi.org/10.1172/JCI109725. Research Article We have determined concentrations of adenosine, deoxyadenosine, and deoxyATP (dATP) in cord blood from an infant prenatally diagnosed as ADA deficient. Plasma deoxyadenosine and adenosine were already elevated in cord blood (0.7 and 0.5 microM vs. normal of less than 0.07 microM). Elevation of plasma deoxyadenosine has not previously been documented in these children. Erythrocyte dATP content was also elevated at birth (215 nmol/ml packed erythrocytes vs. normal of 2.9). These elevated concentrations of adenosine, deoxyadenosine, and dATP are similar to those we observed in another older adenosine deaminase-deficient patient and may explain the impaired immune function and lymphopenia seen at birth. Find the latest version: https://jci.me/109725/pdf RAPID PUBLICATIONS Plasma Deoiyadenosine, Adenosine, and Erythrocyte deoxyATP are Elevated at Birth in an Adenosine Deaminase-deficient Child ROCHELLE HIRSCHHORN and VIVIAN ROEGNER, Department of Medicine, New York University School of Medicine, New York 10016 ARYE RUBINSTEIN, Department of Pediatrics, Albert Einstein College of Medicine, New York 10461 PHOTINI PAPAGEORGIOU, Department of Pediatrics, Rutgers University Medical School, New Brunswick, Netv Jersey 08854 A B S T RA C T We have determined concentrations of amounts of deoxyadenosine, another substrate of ADA, adenosine, deoxyadenosine, and deoxyATP (dATP) in in their urine (4-11). Additionally, deoxyATP (dATP), a cord blood from an infant prenatally diagnosed as ADA metabolite of deoxyadenosine, is markedly increased deficient.
    [Show full text]
  • Microscope Studies on the Morphogenesis of Plastids V
    Bot. Mag. Tokyo 84: 123-136 (March 25, 1971) Electron Microscope Studies on the Morphogenesis of Plastids V. Concerning One-dimensional Metamorphosis of the Plastids in Cryptomeriac Leaves* by Susumu TOYAMA** and Kazuo FUNAZAKIS** Received November 25, 1970 Abstract To know about the mechanism of interconversion of plastids, electron micro- scopic observations were made on Cryptomeria leaves which aquire a reddish brown color in winter and recover their green color in coming spring to summer. In normal green leaves, two different kinds of plastids have been observed, viz, the chloroplasts having well organized grana structure in mesophyll cells and those completely lacking grana lamellae in bundle sheath cells. General feature of plastids in reddish brown leaves, may be summarized as follows : (1) The presence of red granules of rhodoxanthin (a carotenoid), and a well developed lamellar system involving grana- and intergrana-lamellae. (2) The plastoglobules, osmio- philic granules in plastids, increase in number and size as compared with the chloroplasts in normal green leaves. (3) Shrinkage which is one of the character- istic features of senescent plastids is not observed. (4) RNA content in plastid stroma is almost unchanged throughout an entire leaf stage ranging from normal green to subsequent regreening. Basic structure of the plastids in regreened leaves is quite similar to that in winter leaves, except for some increase of thylakoid membrane and decrease of osmiophilic granules. Accordingly, it is presumed that the plastids appearing in reddish brown leaves are not mere chro- moplasts but those having an incipient nature of the chloroplast, since real chromoplasts can not be converted into the chloroplasts.
    [Show full text]
  • Biochemical Basis for Differential Deoxyadenosine Toxicity To
    Proc. Natl. Acad. Sci. USA Vol. 76, No. 5, pp. 2434-2437, May 1979 Medical Sciences Biochemical basis for differential deoxyadenosine toxicity to T and B lymphoblasts: Role for 5'-nucleotidase (deoxyadenosine kinase/deoxyadenylate kinase/immunodeficiency) ROBERT L. WORTMANN, BEVERLY S. MITCHELL, N. LAWRENCE EDWARDS, AND IRVING H. Fox Human Purine Research Center, Departments of Internal Medicine and Biological Chemistry, Clinical Research Center, University of Michigan Medical Center, Ann Arbor, Michigan 48109 Communicated by James B. Wyngaarden, March 7, 1979 ABSTRACT Deoxyadenosine metabolism was investigated tained from Calbiochem. Erythro-9-[3-(2-hydroxynonyl)]- in cultured human cells to elucidate the biochemical basis for adenine (EHNA) was a gift from G. B. Elion of Burroughs the sensitivity of T lymphoblasts and the resistance of B lym- Wellcome (Research Triangle Park, NC). Horse serum was phoblasts to deoxyadenosine toxicity. T lymphoblasts have a 20- to 45-fold greater capacity to synthesize deoxyadenosine nu- obtained from Flow Laboratories (Rockville, MD), and Eagle's cleotides than B lymphoblasts at deoxyadenosine concentrations minimal essential medium was purchased from GIBCO. From of 50-300 ,uM. During the synthesis of dATP, T lymphoblasts Amersham/Searle, [U-14C]deoxyadenosine (505 mCi/mmol), accumulate large quantities of dADP, whereas B lymphoblasts [8-14C]hypoxanthine (52.5 mCi/mmol), and [U-14C]deoxy- do not accumu ate dADP. Enzymes affecting deoxyadenosine adenosine monophosphate (574 mCi/mmol) were purchased; nucleotide synthesis were assayed in these cells. No substantial and, from ICN, [8-14C]adenosine monophosphate (34.4 mCi/ differences were evident in activities of deoxyadenosine kinase (ATP: deoxyadenosine 5'-phosphotransferase, EC 2.7.1.76) or mmol) was purchased (1 Ci = 3.7 X 1010 becquerels).
    [Show full text]
  • Malate- and Pyruvate-Dependent Fattyacid Synthesis In
    Plant Physiol. (1992) 98, 1233-1238 Received for publication July 9, 1991 0032-0889/92/98/1 233/06/$01 .00/0 Accepted October 10, 1991 Malate- and Pyruvate-Dependent Fatty Acid Synthesis in Leucoplasts from Developing Castor Endosperm' Ronald G. Smith*2, David A. Gauthier, David T. Dennis3, and David H. Turpin Department of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 ABSTRACT or leucoplast glycolytic enzymes are more than adequate to endosperm Leucoplasts were isolated from the endosperm of developing account for the triacylglycerol synthesis of castor castor (Ricinis communis) endosperm using a discontinuous Per- (17). However, glycolytic intermediates have not been well coil gradient. The rate of fatty acid synthesis was highest when characterized as carbon sources for fatty acid synthesis (18). malate was the precursor, at 155 nanomoles acetyl-CoA equiva- In this study, we present data regarding the kinetics and lents per milligram protein per hour. Pyruvate and acetate also exogenous cofactor requirements for fatty acid synthesis in were precursors of fatty acid synthesis, but the rates were ap- isolated leucoplast preparations using pyruvate, malate, and proximately 4.5 and 120 times less, respectively, than when acetate as carbon sources. We show that malate and pyruvate malate was the precursor. When acetate was supplied to leuco- support much higher rates of fatty acid synthesis than does plasts, exogenous ATP, NADH, and NADPH were required to acetate and the metabolism of both these substrates alleviates obtain maximal rates of fatty acid synthesis. In contrast, the any requirement for externally added reductant. Based on the incorporation of malate and pyruvate into fatty acids did not measurement of leucoplast-associated NADP+-malic enzyme require a supply of exogenous reductant.
    [Show full text]
  • One-Pot Multi-Enzymatic Production of Purine Derivatives with Application in Pharmaceutical and Food Industry
    Article One-Pot Multi-Enzymatic Production of Purine Derivatives with Application in Pharmaceutical and Food Industry Javier Acosta 1, Jon del Arco 1, Sara Martinez-Pascual 1, Vicente Javier Clemente-Suárez 1,2 and Jesús Fernández-Lucas 1,2,* 1 Applied Biotechnology Group, European University of Madrid, c/ Tajo s/n, Villaviciosa de Odón, Madrid 28670, Spain; [email protected] (J.A.); [email protected] (J.d.A.); [email protected] (S.M.-P.); [email protected] (V.J.C.-S.) 2 Grupo de Investigación en Desarrollo Agroindustrial Sostenible, Universidad de la Costa, CUC, Calle 58 # 55-66, Barranquilla 080002, Colombia * Correspondence: [email protected]; Tel.: +34-912-115147 Received: 30 November 2017; Accepted: 28 December 2017; Published: 1 January 2018 Abstract: Biocatalysis reproduce nature’s synthetic strategies in order to synthesize different organic compounds. Natural metabolic pathways usually involve complex networks to support cellular growth and survival. In this regard, multi-enzymatic systems are valuable tools for the production of a wide variety of organic compounds. Methods: The production of different purine nucleosides and nucleoside-5′-monophosphates has been performed for first time, catalyzed by the sequential action of 2′-deoxyribosyltransferase from Lactobacillus delbrueckii (LdNDT) and hypoxanthine-guanine-xanthine phosphoribosyltransferase from Thermus themophilus HB8 (TtHGXPRT). Results: The biochemical characterization of LdNDT reveals that the enzyme is active and stable in a broad range of pH, temperature, and ionic strength. Substrate specificity studies showed a high promiscuity in the recognition of purine analogues. Finally, the enzymatic production of different purine derivatives was performed to evaluate the efficiency of multi-enzymatic system LdNDT/TtHGXPRT.
    [Show full text]
  • Deoxyadenosine Triphosphate As a Mediator of Deoxyguanosine Toxicity in Cultured T Lymphoblasts
    Deoxyadenosine triphosphate as a mediator of deoxyguanosine toxicity in cultured T lymphoblasts. G J Mann, R M Fox J Clin Invest. 1986;78(5):1261-1269. https://doi.org/10.1172/JCI112710. Research Article The mechanism by which 2'-deoxyguanosine is toxic for lymphoid cells is relevant both to the severe cellular immune defect of inherited purine nucleoside phosphorylase (PNP) deficiency and to attempts to exploit PNP inhibitors therapeutically. We have studied the cell cycle and biochemical effects of 2'-deoxyguanosine in human lymphoblasts using the PNP inhibitor 8-aminoguanosine. We show that cytostatic 2'-deoxyguanosine concentrations cause G1-phase arrest in PNP-inhibited T lymphoblasts, regardless of their hypoxanthine guanine phosphoribosyltransferase status. This effect is identical to that produced by 2'-deoxyadenosine in adenosine deaminase-inhibited T cells. 2'-Deoxyguanosine elevates both the 2'-deoxyguanosine-5'-triphosphate (dGTP) and 2'-deoxyadenosine-5'-triphosphate (dATP) pools; subsequently pyrimidine deoxyribonucleotide pools are depleted. The time course of these biochemical changes indicates that the onset of G1-phase arrest is related to increase of the dATP rather than the dGTP pool. When dGTP elevation is dissociated from dATP elevation by coincubation with 2'-deoxycytidine, dGTP does not by itself interrupt transit from the G1 to the S phase. It is proposed that dATP can mediate both 2'-deoxyguanosine and 2'-deoxyadenosine toxicity in T lymphoblasts. Find the latest version: https://jci.me/112710/pdf Deoxyadenosine Triphosphate as a Mediator of Deoxyguanosine Toxicity in Cultured T Lymphoblasts G. J. Mann and R. M. Fox Ludwig Institute for Cancer Research (Sydney Branch), University ofSydney, Sydney, New South Wales 2006, Australia Abstract urine of PNP-deficient individuals, with elevation of plasma inosine and guanosine and mild hypouricemia (3).
    [Show full text]
  • Revised ST.26 – 26/Oct/2016 ANNEX I
    Revised ST.26 – 26/Oct/2016 ANNEX I ST.26 - ANNEX I CONTROLLED VOCABULARY Final Draft TABLE OF CONTENTS SECTION 1: LIST OF NUCLEOTIDES ................................................................................................................................. 2 SECTION 2: LIST OF MODIFIED NUCLEOTIDES .............................................................................................................. 2 SECTION 3: LIST OF AMINO ACIDS ................................................................................................................................... 4 SECTION 4: LIST OF MODIFIED AND UNUSUAL AMINO ACIDS ..................................................................................... 5 SECTION 5: FEATURE KEYS FOR NUCLEIC SEQUENCES ............................................................................................ 6 SECTION 6: QUALIFIERS FOR NUCLEIC SEQUENCES ................................................................................................ 21 SECTION 7: FEATURE KEYS FOR AMINO ACID SEQUENCES ..................................................................................... 40 SECTION 8: QUALIFIERS FOR AMINO ACID SEQUENCES ........................................................................................... 47 SECTION 9: GENETIC CODE TABLES ............................................................................................................................. 48 Revised ST.26 – 26/Oct/2016 ANNEX I SECTION 1: LIST OF NUCLEOTIDES The nucleotide base codes to be used in sequence
    [Show full text]
  • Increased Excretion of Modified Adenine Nucleosides by Children with Adenosine Dearninase Deficiency
    Pediatr. Res. 16: 362-369 (1982) Increased Excretion of Modified Adenine Nucleosides by Children with Adenosine Dearninase Deficiency ROCHELLE HIRSCHHORN,'"~ HOWARD RATECH, ARYE RUBINSTEIN, PHOTINI PAPAGEORGIOU, HERNANT KESARWALA, ERWIN GELFAND, AND VIVIEN ROEGNER-MANISCALCO Departments of Medicine and Pathology, New York University School of Medicine, New York, New York [R.H., H.R., and V.R.-M.];Department of Pediatrics, Albert Einstein College of Medicine, Bronx, New York [A.R.]; Department of Pediatrics, Rutgers University Medical ~chool,Piscataway, New Jersey [P.P., and H.K.]; and Department of Pediatrics, Hospital for Sick Children, Toronto, Ontario, Canada [E. G.] Summary tially in, and prevents proliferation of, irnmunocompetent cells, primarily of the T cell class (2, 5, 6, 23, 38, 49, 54). There is also We have identified seven adenine nucleosides in urines of un- in vivo and/or in vitro evidence for alternative mechanisms of treated adenosine deaminase (ADA) deficient patients, four of toxicity, which would operate via depletion of pyrimidine pools, which (adenosine, 2'-deoxyadenosine, 1-methyladenosine and N6- depletion of phosphoribosyl pyrophosphate and increases in cyclic methyladenosine) have been previously identified in urines of AMP or S-adenosyl homocysteine (16, 21, 24, 40, 46, 55). All of normals and/or ADA deficient patients. We confirm that ADA these mechanisms are dependent on accumulation of the substrates deficient patients excrete markedly increased amounts of 2'-deox- of ADA, adenosine and 2'-deoxyadenosine. yadenosine (582 k 363 versus normal of < 0.1 nmoles/mg creati- In addition to adenosine and 2'-deoxyadenosine, several other nine) and increased amounts of adenosine (29.4 & 5.7 versus modified adenine nucleosides occur naturally (17, 19) and are normal of 4.12 & 1.0 nmoles/mg creatinine).
    [Show full text]
  • Stromule Biogenesis in Maize Chloroplasts 192 6.1 Introduction 192
    Plastid Tubules in Higher Plants: An Analysis of Form and Function Mark T. Waters, BA (Oxon) A thesis submitted to the University of Nottingham for the degree of Doctor of Philosophy, September 2004 ABSTRACT Besides photosynthesis, plastids are responsible for starch storage, fatty acid biosynthe- sis and nitrate metabolism. Our understanding of plastids can be improved with obser- vation by microscopy, but this has been hampered by the invisibility of many plastid types. By targeting green fluorescent protein (GFP) to the plastid in transgenic plants, the visualisation of plastids has become routinely possible. Using GFP, motile, tubular protrusions can be observed to emanate from the plastid envelope into the surrounding cytoplasm. These structures, called stromules, vary considerably in frequency and length between different plastid types, but their function is poorly understood. During tomato fruit ripening, chloroplasts in the pericarp cells differentiate into chro- moplasts. As chlorophyll degrades and carotenoids accumulate, plastid and stromule morphology change dramatically. Stromules become significantly more abundant upon chromoplast differentiation, but only in one cell type where plastids are large and sparsely distributed within the cell. Ectopic chloroplast components inhibit stromule formation, whereas preventing chloroplast development leads to increased numbers of stromules. Together, these findings imply that stromule function is closely related to the differentiation status, and thus role, of the plastid in question. In tobacco seedlings, stromules in hypocotyl epidermal cells become longer as plastids become more widely distributed within the cell, implying a plastid density-dependent regulation of stromules. Co-expression of fluorescent proteins targeted to plastids, mi- tochondria and peroxisomes revealed a close spatio-temporal relationship between stromules and other organelles.
    [Show full text]