Us 2012/0074.014 A1 2 .. 1

Total Page:16

File Type:pdf, Size:1020Kb

Us 2012/0074.014 A1 2 .. 1 US 2012O074O14A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2012/0074.014 A1 Tran et al. (43) Pub. Date: Mar. 29, 2012 (54) PRODUCT TYPICALLY BASED ON SALT OF Publication Classification PEROXYMONOSULFURIC ACID AND (51) Int. Cl SUITABLE FOR MEDICINAL USAGE, AND iBio/02 (2006.01) ASSOCATED PRODUCT FABRICATION B23P 19/00 (2006.01) A633/42 (2006.01) (75) Inventors: David Van Tran, San Jose, CA A6IR 9/14 (2006.01) (US); David Nguyen Tran, San CD7C 409/244 (2006.01) Jose, CA (US) A6II 3/327 (2006.01) s (52) U.S. Cl. ............. 206/438: 562/1; 514/578; 424/605; 424/400; 29/428 (73) Assignee: LuTran Industries, Inc. (57) ABSTRACT 21) Appl. No.: 13AO47,742 Products based on salt of peroxyperoxVmonosulfuric acid are suit (21) Appl. No 9 able for treating or/and preventing diseases and other debili tating medical conditions caused by bacterial, eukaryotic, (22) Filed: Mar. 14, 2011 prion, and viral pathogens and by non-pathogenic inflamma tion. The products may alternatively be based on inorganic Related U.S. Application Data halide and an oxidizing agent reactable in water with the inorganic halide to generate hypohalite ions. In addition, the (60) Provisional application No. 61/386,928, filed on Sep. products can be employed in other applications such as com 27, 2010. mercial and industrial applications. 5T. 2 .. 2. 1.4. J., Patent Application Publication Mar. 29, 2012 Sheet 1 of 2 US 2012/0074014 A1 cro Q-D 22 Fig. 2a Fig.2b Patent Application Publication Mar. 29, 2012 Sheet 2 of 2 US 2012/0074014 A1 90 92 US 2012/0074014 A1 Mar. 29, 2012 PRODUCT TYPCALLY BASED ON SALT OF the antibiotic. The adverse side effects of antibiotics are var PEROXYMONOSULFURIC ACID AND ied, and range from fever and nausea to major allergic reac SUITABLE FOR MEDICINAL USAGE, AND tions. ASSOCATED PRODUCT FABRICATION 0007 Fungi are eukaryotic pathogens similar to bacteria. Spores are metabolic byproducts of the life cycle of some CROSS-REFERENCE TO RELATED bacteria and fungi. Bacteria produce endospores located APPLICATION within the cytoplasm of the parental cells. Fungi produce a 0001. This claims priority to U.S. provisional patent appli variety of exospores. Spores are highly resistant to physical cation 61/386,928, filed 27 Sep. 2010, the contents of which and chemical agents. are incorporated by reference to the extent not repeated 0008. In medical parasitology, the term “parasite' means a herein. This is also related to U.S. patent application Ser. No. eukaryotic pathogenic organism. Hence, protozoan and meta 12/726,326, filed 17 Mar. 2009, the contents of which are Zoan infectious agents are classified as parasites whereas likewise incorporated by reference to the extent not repeated bacteria and viruses are not. Many parasites, such as proto herein. Zoa, fleas, and worms (helminths), carry disease or cause Sores or lesions which can become infected. FIELD OF USE 0009 Parasites live on or in the host from which it gets Some or all of its nourishment. Parasites are generally harmful 0002 This relates to products suitable for treating and to their hosts. The damage ranges widely from minor incon preventing debilitating conditions, including debilitating Venience to debilitating or fatal disease. An ectoparasite, Such medical conditions of humans. This also relates to manufac as a louse, tick, or leech, lives or feeds on the outer Surface of turing Such products. the host's body. Ectoparasites do not usually cause disease themselves. However, they are frequently a vector of disease. BACKGROUND OF THE INVENTION For example, tick parasites transmit organisms that can cause 0003 Inflammation is caused by tissue injury consisting disease. An endoparasite lives inside the body of its host. of complex reactions involving vascular and connective tis Endoparasites include organisms such as tapeworms, hook Sues. Tissue damage may result from microbial invasion, worms, and trypanosomes that live within the host's organs or auto-immune processes, tissue infection, allograft rejection, tissues as well as organisms such as sporozoans that invade and such hurtful and/or destructive external influences as the host's cells. heat, cold, radiant energy, electrical or chemical stimuli, and 0010 Aprion is an infectious agent generally made solely mechanical trauma. Tissue damage may involve any part of of protein and lacking nucleic acid. Prions are believed to the human body such as the joints (arthritis), bowels (inflam infect and propagate by refolding abnormally into a structure matory bowel disease), and lungs (pulmonary inflammation). which converts normal molecules of the protein into an abnor Whatever the cause or bodily site, inflammatory responses to mally structured form. Prions are generally quite resistant to tissue damage are quite similar, consisting of complicated denaturation by protease, heat, radiation, and formalin treat functional and cellular adjustments involving microcircula ments, although potency or infectivity may be reduced. tion, fluid shifts, and inflammatory cells (leukocytes). When 0011 A virus consists of a single nucleic acid, either deox tissue damage occurs, soluble chemical Substances are elabo yribonucleic acid (“DNA) or ribonucleic acid (“RNA”), and rated which initiate the inflammatory response. Inflammation a protein shell or coat Surrounding the nucleic acid. A com can be mild and self-limited or prolonged and seriously plete viral particle is called a virion. A virus uses the machin debilitating and chronic. ery of a host cell to reproduce and resides within the host cell. 0004 Numerous drugs have been developed to fight Consequently, viruses are difficult to eliminate without kill inflammation inhumans. The most prominent in current treat ing the host cells. It is believed that viral infections trigger ment are anti-inflammatory steroidal drugs, corticosteroids inflammatory responses which do not respond to anti-viral and non-steroidal anti-inflammatory drugs such as salicy drugs. Patients often ask for, and physicians often prescribe, lates. While these drugs are generally effective, they often antibiotics. While antibiotics destroy or prevent the growth of have adverse side effects. bacteria, antibiotics are useless in treating viral (and fungal) 0005. A pathogen is an infectious biological agent, some infections. Their misuse in treating viral diseases is one of the times referred to as a germ, which causes disease or illness to causes of antibiotic resistance to bacteria. its host. Many medical advances, such as vaccination, antibi (0012 Sporkenbach et al. (“Sporkenbach'), U.S. Pat. No. otics, and fungicides, have been used to safeguard against 4.404,191, discloses a viricide technique for inactivating infection by pathogens. Nevertheless, pathogens continue to viruses on animate and inanimate surfaces by contacting the threaten human life. Primary pathogens are bacteria, eukary surfaces with a salt of peroxymonosulfuric acid (H2SOs) otes, prions, and viruses. commonly known as Caro's acid. The peroxymonosulfuric 0006 Bacteria constitute one of the smallest organisms acid salt, applied from an aqueous solution, can be a salt of an containing all the material required for growth and self-rep alkali metal Such as potassium, Sodium, or lithium, a salt of an lication. Bacterial infections can be treated with antibiotics, alkaline earth metal Such as calcium or magnesium, or an classified as bacteriocidal if they kill bacteria and as bacte ammonium salt. Sporkenbach preferably employs KHSOs as riostatic if they prevent the bacteria from multiplying so the the peroxymonosulfuric acid salt. KHSOs is provided from human immune system can overcome them. There are many the mixed triple salt having the chemical formula 2KHSOs. types of antibiotics. Each type of antibiotic inhibits a process KHSOKSO, where KHSO is potassium hydrogen sulfate whose pathogen is different from that found in the host. The and KSO is potassium sulfate sometimes referred to as effectiveness of individual antibiotics varies with the location dipotassium sulfate. of the infection, the ability of the antibiotic to reach the site of (0013 KHSOs and 2KHSO.KHSOKSO, each have infection, and the ability of the bacteria to resist or inactivate multiple chemical names. Both KHSOs and 2KHSOs. US 2012/0074014 A1 Mar. 29, 2012 KHSOKSO are commonly referred to as “potassium phosphate, disodium phosphate, trisodium phosphate, tetra monopersulfate'. To avoid confusion, KHSOs is referred to Sodium pyrophosphate, monopotassium phosphate, dipotas herein as "potassium hydrogen peroxymonosulfate' or sim sium phosphate, tripotassium phosphate, and tetrapotassium ply “potassium peroxymonosulfate. 2KHSOs. KHSO. pyrophosphate. According to Auchincloss, one embodiment KSO. is referred to herein as “potassium monopersulfate of the biocide apparently consisted of 1.5 parts of sodium triple salt” or sometimes simply as "potassium monoperSul chloride, 50 parts of potassium monopersulfate triple salt, 10 fate’. parts of Sulfamic acid, 5 parts of malic or Succinic acid, 18.5 0014 Sporkenbach identifies poliovirus, coxsackie virus, parts of sodium hexametaphosphate and (possibly) other simian vacuolating virus 40 and adenovirus as being inacti alkali metal phosphate, and 15 parts of sodium dodecylben vated by potassium hydrogen peroxymonosulfate. Poliovirus Zene Sulfonate as the Surfactant. causes poliomyelitis. There are two forms of coxsackie Virus, 0019 Auchincloss reported generally good results in vari type A and type B. Coxsackie A virus causes hand,
Recommended publications
  • Peroxy Compounds Human Health and Ecological Draft Risk Assessment DP 455445, 455446
    Peroxy Compounds Human Health and Ecological Draft Risk Assessment DP 455445, 455446 UNITED STATES ENVIRONMENTAL PROTECTION AGENCY WASHINGTON, D.C. 20460 OFFICE OF CHEMICAL SAFETY AND POLLUTION PREVENTION MEMORANDUM Date: March 11, 2020 SUBJECT: Registration Review Draft Risk Assessment for the Peroxy Compounds PC Code: 000595, 063201, 063604, 063607, DP Barcode: 455445, 455446 063209, 128860 Decision No: 558073, 558074 Docket No: EPA-HQ-OPP-2009-0546 Regulatory Action: Registration Review Case No: 6059, 4072, 5081 Risk Assessment Type: DRA CAS No: 7722-84-1, 79-21-0, 33734-57-5, 15630-89-4, 10058-23-8, 70693-62-8 TO: Kendall Ziner, Chemical Review Manager Rick Fehir, Ph.D., Team Lead Rose Kyprianou, Branch Chief Regulatory Management Branch (RMB) II Antimicrobials Division (7510P) Office of Pesticide Programs FROM: Andrew Byro, Ph.D., Chemist Kathryn Korthauer, Biologist Timothy Dole, Industrial Hygienist Deborah Burgin, Ph.D., DABT, Toxicologist Risk Assessment and Science Support Branch Antimicrobials Division (7510P) Office of Pesticide Programs THROUGH: Judy Facey, Ph.D., Human Health Risk Assessment Process Leader MP for JF Diana Hsieh, Ecological Risk Assessment Process Leader MP for DH Timothy Leighton, Senior Science Advisor MP for TL Laura Parsons, Associate Branch Chief Melissa Panger, Ph.D., Branch Chief Risk Assessment and Science Support Branch Antimicrobials Division (7510P) This document provides the draft human health and ecological risk assessment conducted in support of the antimicrobial use sites of the following peroxy compounds: hydrogen peroxide, peracetic acid, peroxyoctanoic acid, and sodium percarbonate. Page 1 of 74 Peroxy Compounds Human Health and Ecological Draft Risk Assessment DP 455445, 455446 Although the peroxymonosulfate compounds were included in the peroxy compounds Final Work Plan (FWP), they will not be included in this risk assessment.
    [Show full text]
  • Wo 2007/056463 A2
    (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 PCT 18 May 2007 (18.05.2007) WO 2007/056463 A2 (51) International Patent Classification: (74) Agents: WILLIAMS, Kathleen et al.; Edwards Angell C12Q 1/70 (2006.01) C12Q 1/68 (2006.01) Palmer & Dodge LLP, P.O. Box 55874, Boston, MA 02205 (US). (21) International Application Number: (81) Designated States (unless otherwise indicated, for every PCT/US2006/043502 kind of national protection available): AE, AG, AL, AM, AT,AU, AZ, BA, BB, BG, BR, BW, BY, BZ, CA, CH, CN, (22) International Filing Date: CO, CR, CU, CZ, DE, DK, DM, DZ, EC, EE, EG, ES, FI, 9 November 2006 (09.1 1.2006) GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IS, JP, KE, KG, KM, KN, KP, KR, KZ, LA, LC, LK, LR, LS, (25) Filing Language: English LT, LU, LV,LY,MA, MD, MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PG, PH, PL, PT, RO, RS, (26) Publication Language: English RU, SC, SD, SE, SG, SK, SL, SM, SV, SY, TJ, TM, TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW (30) Priority Data: (84) Designated States (unless otherwise indicated, for every 60/735,085 9 November 2005 (09. 11.2005) US kind of regional protection available): ARIPO (BW, GH, GM, KE, LS, MW, MZ, NA, SD, SL, SZ, TZ, UG, ZM, (71) Applicant (for all designated States except US): ZW), Eurasian (AM, AZ, BY, KG, KZ, MD, RU, TJ, TM), PRIMERA BIOSYSTEMS, INC.
    [Show full text]
  • Nucleotide Sequence and Phylogenetic Analysis of a Bamboo Mosaic Potexvirus Isolate from Common Bamboo (Bambusa Vulgaris Mcclure)
    YangBot. Bull. et al. Acad. Nucleotide Sin. (1997) sequence 38: 77-84 of BaMV-V RNA 77 Nucleotide sequence and phylogenetic analysis of a bamboo mosaic potexvirus isolate from common bamboo (Bambusa vulgaris McClure) Chi-Chen Yang1,2, Jih-Shiou Liu1, Chan-Pin Lin2 and Na-Sheng Lin1,3 1Institute of Botany, Academia Sinica, Taipei, Taiwan 115, Republic of China 2Department of Plant Pathology and Entomology, National Taiwan University, Taipei, Taiwan, Republic of China (Received September 20, 1996; Accepted January 30, 1997) Abstract. The complete cDNA sequence corresponding to the genomic RNA of an isolate bamboo mosaic potexvirus (BaMV-V) from common bamboo (Bambusa vulgaris McClure) was determined. This isolate is the first potexvirus with which a satellite RNA has been associated. The genome organization of BaMV-V, similar to those of other potexviruses, contained five open reading frames (ORFs 15) coding for polypeptides with molecular weight of 156 kDa, 28 kDa, 13 kDa, 6 kDa, and 25 kDa, respectively. Nucleotide sequence analysis showed a 10.0% difference from the BaMV-O isolate previously described whereas the amino acid comparison showed a difference of 3.2%. When three conservative domains of RNA dependent RNA polymerase (RdRp) were used for phylogenetic analysis, the greatest variation between two strains of each virus was only 12.8% of that between the two closest members of the potexvirus group. The grouping of potexviruses distinct from other groups of plant viruses was also confirmed by a comparision of three conservative motifs of RdRp. Keywords: Bamboo mosaic virus; Nucleotide sequence; Potexvirus. Introduction virus M, PVM) (Zavriev et al., 1991), hordeivirus (e.g.
    [Show full text]
  • Tamada-Text R3 HK-TT
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Okayama University Scientific Achievement Repository Tamada & Kondo - 1 Journal of General Plant Pathology Biological and genetic diversity of plasmodiophorid-transmitted viruses and their vectors Tetsuo Tamada* and Hideki Kondo Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan. Current address for T. Tamada: Kita 10, Nishi 1, 13-2-606, Sapporo, 001-0010, Japan. *Corresponding author: Tetsuo Tamada; E-mail: [email protected] Total text pages 32 Word counts: 10 words (title); 147 words (Abstract); 6004 words (Main Text) Tables: 3; Figure: 1; Supplementary figure: 1 Tamada & Kondo - 2 Abstract About 20 species of viruses belonging to five genera, Benyvirus, Furovirus, Pecluvirus, Pomovirus and Bymovirus, are known to be transmitted by plasmodiophorids. These viruses have all positive-sense single-stranded RNA genomes that consist of two to five RNA components. Three species of plasmodiophorids are recognized as vectors: Polymyxa graminis, P. betae, and Spongospora subterranea. The viruses can survive in soil within the long-lived resting spores of the vector. There are biological and genetic variations in both virus and vector species. Many of the viruses have become the causal agents of important diseases in major crops, such as rice, wheat, barley, rye, sugar beet, potato, and groundnut. Control measure is dependent on the development of the resistant cultivars. During the last half a century, several virus diseases have been rapidly spread and distributed worldwide. For the six major virus diseases, their geographical distribution, diversity, and genetic resistance are addressed.
    [Show full text]
  • Viruses Virus Diseases Poaceae(Gramineae)
    Viruses and virus diseases of Poaceae (Gramineae) Viruses The Poaceae are one of the most important plant families in terms of the number of species, worldwide distribution, ecosystems and as ingredients of human and animal food. It is not surprising that they support many parasites including and more than 100 severely pathogenic virus species, of which new ones are being virus diseases regularly described. This book results from the contributions of 150 well-known specialists and presents of for the first time an in-depth look at all the viruses (including the retrotransposons) Poaceae(Gramineae) infesting one plant family. Ta xonomic and agronomic descriptions of the Poaceae are presented, followed by data on molecular and biological characteristics of the viruses and descriptions up to species level. Virus diseases of field grasses (barley, maize, rice, rye, sorghum, sugarcane, triticale and wheats), forage, ornamental, aromatic, wild and lawn Gramineae are largely described and illustrated (32 colour plates). A detailed index Sciences de la vie e) of viruses and taxonomic lists will help readers in their search for information. Foreworded by Marc Van Regenmortel, this book is essential for anyone with an interest in plant pathology especially plant virology, entomology, breeding minea and forecasting. Agronomists will also find this book invaluable. ra The book was coordinated by Hervé Lapierre, previously a researcher at the Institut H. Lapierre, P.-A. Signoret, editors National de la Recherche Agronomique (Versailles-France) and Pierre A. Signoret emeritus eae (G professor and formerly head of the plant pathology department at Ecole Nationale Supérieure ac Agronomique (Montpellier-France). Both have worked from the late 1960’s on virus diseases Po of Poaceae .
    [Show full text]
  • Pmtv, Pomovirus)
    Gil et al. Actual Biol 33 (94): 69-84, 2011 CARACTERIZACIÓN GENOTÍPICA DE AISLAMIENTOS COLOMBIANOS DEL POTATO MOP-TOP VIRUS (PMTV, POMOVIRUS) GENOTYPIC CHARACTERIZATION OF COLOMBIAN ISOLATES OF POTATO MOP-TOP VIRUS (PMTV, POMOVIRUS) José F. Gil1, 4, Pablo A. Gutiérrez1, 5, José M. Cotes2, 6, Elena P. González3, 7, Mauricio Marín1, 8 Resumen Recientemente se detectó en Colombia la presencia del virus mop-top de la papa (PMTV, Pomovirus), transmitido por zoosporas del protozoo Spongospora subterranea f. sp. subterranea, agente causal de la sarna polvosa de la papa. Esta investigación se planteó con el fin de evaluar las características genotípicas de las cepas virales del PMTV obtenidas a partir de 20 muestras de suelos de cultivos de papa de los departamentos de Antioquia, Boyacá, Cundinamarca y Nariño. Para esto, se amplificaron mediante RT-PCR las regiones parciales que codifican para los genes de la cápside (CP) y del segundo gen del triple bloque de genes (TGB2), secuenciándose y comparándose con las secuencias de este virus depositadas en las bases de datos moleculares. Adicionalmente, se seleccionaron dos cepas del virus para aumentar el cubrimiento de las secuencias de los segmentos dos y tres (ARN 2 y ARN 3) del genoma viral. Los resultados reconfirmaron la presencia del virus PMTV en Colombia, detectándose dos variantes principales (I y II), una de ellas correspondiente al genotipo distribuido mundialmente (I); mientras que la otra variante (II) representa aislamientos virales de PMTV no registrados hasta ahora en otros países del mundo. Se espera que la información generada en esta investigación sea considerada en los programas de certificación de tubérculo semilla y del manejo cuarentenario de patógenos del cultivo de papa en el país.
    [Show full text]
  • ICTV Code Assigned: 2011.001Ag Officers)
    This form should be used for all taxonomic proposals. Please complete all those modules that are applicable (and then delete the unwanted sections). For guidance, see the notes written in blue and the separate document “Help with completing a taxonomic proposal” Please try to keep related proposals within a single document; you can copy the modules to create more than one genus within a new family, for example. MODULE 1: TITLE, AUTHORS, etc (to be completed by ICTV Code assigned: 2011.001aG officers) Short title: Change existing virus species names to non-Latinized binomials (e.g. 6 new species in the genus Zetavirus) Modules attached 1 2 3 4 5 (modules 1 and 9 are required) 6 7 8 9 Author(s) with e-mail address(es) of the proposer: Van Regenmortel Marc, [email protected] Burke Donald, [email protected] Calisher Charles, [email protected] Dietzgen Ralf, [email protected] Fauquet Claude, [email protected] Ghabrial Said, [email protected] Jahrling Peter, [email protected] Johnson Karl, [email protected] Holbrook Michael, [email protected] Horzinek Marian, [email protected] Keil Guenther, [email protected] Kuhn Jens, [email protected] Mahy Brian, [email protected] Martelli Giovanni, [email protected] Pringle Craig, [email protected] Rybicki Ed, [email protected] Skern Tim, [email protected] Tesh Robert, [email protected] Wahl-Jensen Victoria, [email protected] Walker Peter, [email protected] Weaver Scott, [email protected] List the ICTV study group(s) that have seen this proposal: A list of study groups and contacts is provided at http://www.ictvonline.org/subcommittees.asp .
    [Show full text]
  • The Development and Characterisation of Grapevine Virus-Based
    The development and characterisation of grapevine virus-based expression vectors by Jacques du Preez Presented in partial fulfilment of the requirements for the degree Doctor of Philosophy at the Department of Genetics, Stellenbosch University March 2010 Supervisors: Prof JT Burger and Dr DE Goszczynski Study leader: Dr D Stephan Declaration I, the undersigned, hereby declare that the work contained in this thesis is my own original work and that I have not previously in its entirety or in part submitted it at any university for a degree. ______________________ Date: _______________ Jacques du Preez Copyright © 2010 Stellenbosch University All rights reserved ii Abstract Grapevine ( Vitis vinifera L.) is a very important agricultural commodity that needs to be protected. To achieve this several in vivo tools are needed for the study of this crop and the pathogens that infect it. Recently the grapevine genome has been sequenced and the next important step will be gene annotation and function using these in vivo tools. In this study the use of Grapevine virus A (GVA), genus Vitivirus , family Flexiviridae , as transient expression and VIGS vector for heterologous protein expression and functional genomics in Nicotiana benthamiana and V . vinifera were evaluated. Full-length genomic sequences of three South African variants of the virus (GTR11, GTG111 and GTR12) were generated and used in a molecular sequence comparison study. Results confirmed the separation of GVA variants into three groups, with group III (mild variants) being the most distantly related. It showed the high molecular heterogeneity of the virus and that ORF 2 was the most diverse. The GVA variants GTG111, GTR12 and GTR11 were placed in molecular groups I, II and III respectively.
    [Show full text]
  • Overlapping Genes Produce Proteins with Unusual Sequence Properties And
    JVI Accepts, published online ahead of print on 29 July 2009 J. Virol. doi:10.1128/JVI.00595-09 Copyright © 2009, American Society for Microbiology and/or the Listed Authors/Institutions. All Rights Reserved. 1 Overlapping genes produce proteins with unusual sequence properties and 2 offer insight into de novo protein creation 3 4 Corinne Rancurel1, Mahvash Khosravi2, Keith A. Dunker2, Pedro R. Romero2*, and David Karlin3* 5 6 1 Architecture et Fonction des Macromolécules Biologiques, Case 932, Campus de Luminy, 13288 Marseille 7 Cedex 9, France 8 2 Center for Computational Biology and Bioinformatics, 410 West 10th Street, Suite 5000, Indiana University 9 - Purdue University, Indianapolis, IN 46202-5122, USA, Downloaded from 10 3 25, rue de Casssis, 13008 Marseille, FRANCE 11 12 * Corresponding authors: [email protected], [email protected] 13 14 Running Title : Overlapping proteins have unusual sequence properties http://jvi.asm.org/ 15 Keywords 16 de novo gene creation; de novo protein creation; novel proteins; new proteins; orphan proteins; orphan 17 genes; ORFans; overlapping genes; overlapping reading frames; overprinting; unstructured proteins; 18 disordered proteins; intrinsic disorder; structural disorder; disorder prediction; profile-profile comparison; on April 22, 2020 by guest 19 PFAM; viral genomics; viral bioinformatics; viral structural genomics. 20 21 Abbreviations 22 Only abbreviations used in the main text are listed here; others are given in the figure captions. 23 30K, conserved domain of the 30K family of movement proteins; aa, amino acid; dsRNA, double-stranded 24 RNA; GT, guanylyltransferase; MP, movement protein; MT, methyltransferase; N, nucleoprotein; NSs, non 25 structural protein of orthobunyaviruses; ORF, open reading frame; PDB, protein databank (database of 26 protein structures); PFAM, Protein families (database of families of protein sequences); ssRNA, single- 27 stranded RNA; TGB, triple gene block; RE, relative (compositional) entropy; tm, transmembrane segment.
    [Show full text]
  • Tamada-Text R3 HK-TT
    Tamada & Kondo - 1 Journal of General Plant Pathology Biological and genetic diversity of plasmodiophorid-transmitted viruses and their vectors Tetsuo Tamada* and Hideki Kondo Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan. Current address for T. Tamada: Kita 10, Nishi 1, 13-2-606, Sapporo, 001-0010, Japan. *Corresponding author: Tetsuo Tamada; E-mail: [email protected] Total text pages 32 Word counts: 10 words (title); 147 words (Abstract); 6004 words (Main Text) Tables: 3; Figure: 1; Supplementary figure: 1 Tamada & Kondo - 2 Abstract About 20 species of viruses belonging to five genera, Benyvirus, Furovirus, Pecluvirus, Pomovirus and Bymovirus, are known to be transmitted by plasmodiophorids. These viruses have all positive-sense single-stranded RNA genomes that consist of two to five RNA components. Three species of plasmodiophorids are recognized as vectors: Polymyxa graminis, P. betae, and Spongospora subterranea. The viruses can survive in soil within the long-lived resting spores of the vector. There are biological and genetic variations in both virus and vector species. Many of the viruses have become the causal agents of important diseases in major crops, such as rice, wheat, barley, rye, sugar beet, potato, and groundnut. Control measure is dependent on the development of the resistant cultivars. During the last half a century, several virus diseases have been rapidly spread and distributed worldwide. For the six major virus diseases, their geographical distribution, diversity, and genetic resistance are addressed. Keywords Soil-borne viruses; Benyvirus; Furovirus; Pecluvirus; Pomovirus; Bymovirus; Vector transmission; Plasmodiophorids; Polymyxa; Spongospora Introduction There is a group of viruses to be transmitted by olpidium and plasmodiophorid vectors, which is called soil-borne fungus-transmitted viruses.
    [Show full text]
  • Small Hydrophobic Viral Proteins Involved in Intercellular Movement of Diverse Plant Virus Genomes Sergey Y
    AIMS Microbiology, 6(3): 305–329. DOI: 10.3934/microbiol.2020019 Received: 23 July 2020 Accepted: 13 September 2020 Published: 21 September 2020 http://www.aimspress.com/journal/microbiology Review Small hydrophobic viral proteins involved in intercellular movement of diverse plant virus genomes Sergey Y. Morozov1,2,* and Andrey G. Solovyev1,2,3 1 A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia 2 Department of Virology, Biological Faculty, Moscow State University, Moscow, Russia 3 Institute of Molecular Medicine, Sechenov First Moscow State Medical University, Moscow, Russia * Correspondence: E-mail: [email protected]; Tel: +74959393198. Abstract: Most plant viruses code for movement proteins (MPs) targeting plasmodesmata to enable cell-to-cell and systemic spread in infected plants. Small membrane-embedded MPs have been first identified in two viral transport gene modules, triple gene block (TGB) coding for an RNA-binding helicase TGB1 and two small hydrophobic proteins TGB2 and TGB3 and double gene block (DGB) encoding two small polypeptides representing an RNA-binding protein and a membrane protein. These findings indicated that movement gene modules composed of two or more cistrons may encode the nucleic acid-binding protein and at least one membrane-bound movement protein. The same rule was revealed for small DNA-containing plant viruses, namely, viruses belonging to genus Mastrevirus (family Geminiviridae) and the family Nanoviridae. In multi-component transport modules the nucleic acid-binding MP can be viral capsid protein(s), as in RNA-containing viruses of the families Closteroviridae and Potyviridae. However, membrane proteins are always found among MPs of these multicomponent viral transport systems.
    [Show full text]
  • Type D Primate Retroviruses: a Review1
    [CANCER RESEARCH 38, 3123-3139, October 1978] Type D Primate Retroviruses: A Review1 Donald Fine and Gerald Schochetman Viral Oncology Program, Frederick Cancer Research Center. Frederick, Maryland 21701 Abstract The prototype virus of the type D retroviruses is the techniques. The retrovirus associated with the induction of Mason-Pfizer monkey virus (MPMV). MPMV was originally mammary cancer in mice, MMTV,2 is morphologically dis isolated from a breast carcinoma of a female rhesus tinct from the type C viruses and is the prototype of the type monkey (an Old World monkey). MPMV is of obvious B virus group (30). A retrovirus group of primate origin, importance in that it is the only retrovirus thus far isolated which has properties similar to the type C and type B from a mammary tumor of a primate and has been shown viruses but is morphologically distinct from them, has been to have transforming potential for primate cells in vitro. designated genus Oncornavirus D (30). The prototype virus Subsequent to the isolation of MPMV, viruses morpholog of this genus is the MPMV. MPMV was originally isolated ically and ¡mmunologicallyindistinguishable from MPMV from a mammary carcinoma of a female rhesus monkey (an have been isolated from normal placenta and lactating Old World monkey) (19, 60). Because mammary carcinomas mammary glands of other rhesus monkeys in captivity. represent the most prevalent form of neoplasia in humans Recently, viruses morphologically resembling MPMV have and, furthermore, because the incidence of mammary tu been isolated from a langur monkey (another Old World mors in subhuman primates is rare (61, 62, 70, 78), MPMV monkey) and from squirrel monkeys (a New World mon is of obvious potential importance because it is the only key).
    [Show full text]