Research · Science Forschung · Wissenschaft Recherche · Science

Total Page:16

File Type:pdf, Size:1020Kb

Research · Science Forschung · Wissenschaft Recherche · Science Water quality in dental treatment units Research and Science Research · Science Forschung · Wissenschaft Recherche · Science Publisher Editor-in-chief Editors Assistant Editors Herausgeber Chefredaktor Redaktoren Redaktions-Assistenten Editeur Rédacteur en chef Rédacteurs Rédacteurs assistants Schweizerische Zahnärzte- Adrian Lussi, Bern Urs Belser, Genève Brigitte Zimmerli, Bern Gesellschaft SSO Andreas Filippi, Basel Klaus Neuhaus, Bern Société Suisse Rudolf Gmür, Zürich d’Odonto-Stomatologie CH-3000 Bern 7 Adresse der Advisory board K.W. Grätz, Zürich T. Peltomäki, Zürich wissenschaftlichen Gutachtergremium Ch. Hämmerle, Zürich M. Perrier, Lausanne N. Hardt, Luzern Ch. Ramseier, Bern Redaktion Comité de lecture T. Imfeld, Zürich M. Richter, Genève Prof. Adrian Lussi T. Attin, Zürich K.H. Jäger, Basel H.F. Sailer, Zürich Klinik für Zahnerhaltung, P. Baehni, Genève J.-P. Joho, Genève G. Salvi, Bern Präventiv- und Kinder- J.-P. Bernard, Genève R. Jung, Zürich J. Samson, Genève zahnmedizin C.E. Besimo, Basel S. Kiliaridis, Genève U.P. Saxer, Zürich Freiburgstr. 7, 3010 Bern M.M. Bornstein, Bern I. Krejci, Genève J.-P. Schatz, Genève D. Bosshardt, Bern J.Th. Lambrecht, Basel S. Scherrer, Genève S. Bouillaguet, Genève N.P. Lang, Bern P.R. Schmidlin, Zürich U. Brägger, Bern T. Lombardi, Genève A. Sculean, Bern W. Buchalla, Zürich H.U. Luder, Zürich R. Seemann, Bern D. Buser, Bern H. Lüthy, Neuchâtel J. Türp, Basel M. Cattani, Genève C. Marinello, Basel H. van Waes, Zürich B. Ciucchi, Genève G. Menghini, Zürich P. Velvart, Zürich K. Dula, Bern R. Mericske-Stern, Bern T. von Arx, Bern D. Ettlin, Zürich J. Meyer, Basel T. Waltimo, Basel G. Eyrich, Zürich J.-M. Meyer, Chêne-Bougeries F. Weber, Zürich J. Fischer, Zürich T. Mitsiadis, Zürich R. Weiger, Basel L.M. Gallo, Zürich A. Mombelli, Genève A. Wichelhaus, Basel U. Gebauer, Bern W. Mörmann, Zürich A. Wiskott, Genève R. Glauser, Zürich F. Müller, Genève M. Zehnder, Zürich W. Gnoinski, Zürich S. Palla, Zürich H.F. Zeilhofer, Basel T. Göhring, Zürich S. Paul, Zürich N.U. Zitzmann, Basel Schweiz Monatsschr Zahnmed Vol. 119 10/2009 975 Research and Science Articles published in this section have been reviewed by three members of the Editorial Review Board Jürg Barben1 Water Quality Claudia E. Kuehni2 Jürg Schmid3 in Dental Chair Units 1 Head, Division of Paediatric Pulmonology, Children’s Hospital, St. Gallen A Random Sample in the Canton of St. Gallen 2 Institute of Social and Preventive Medicine, University of Bern, Bern 3 Department of Health and Key words: drinking water, water quality, practice hygiene, Consumer Protection, Head of Pseudomonas aeruginosa, Legionella pneumophila department of biology and microbiology, St. Gallen Corresponding author Dr. med. J. Barben Summary This study aimed to identify the aeruginosa was found in both water samples Leitender Arzt Pneumologie/ microbial contamination of water from dental in 6/76 (8%) of the DCUs. Legionella were Allergologie Ostschweizer Kinderspital chair units (DCUs) using the prevalence of found in both samples in 15 (20%) of the CH-9006 St. Gallen Pseudomonas aeruginosa, Legionella species DCUs tested. Legionella anisa was identified Tel. 071 243 71 11 and heterotrophic bacteria as a marker of pol- in seven samples and Legionella pneumo- Fax 071 243 76 99 lution in water in the area of St. Gallen, Swit- phila was found in eight. DCUs which were E-mail: [email protected] zerland. Water (250 ml) from 76 DCUs was less than five years old were contaminated Schweiz Monatsschr Zahnmed 119: 976–980 (2009) collected twice (early on a morning before less often than older units (25% und 77%, Accepted for publication: using all the instruments and after using the p < 0.001). This difference remained signifi- 2nd June 2009 DCUs for at least two hours) either from the cant (0 = 0.0004) when adjusted for manufac- high-speed handpiece tube, the 3 in 1 syringe turer and sampling location in a multivariable or the micromotor for water quality testing. An logistic regression. A large proportion of the increased bacterial count (> 300 CFU/ml) was DCUs tested did not comply with the Swiss found in 46 (61%) samples taken before use drinking water standards nor with the recom- of the DCU, but only in 29 (38%) samples mendations of the American Centers for taken two hours after use. Pseudomonas Disease Control and Prevention (CDC). Introduction Pseudomonas aeruginosa, which can be found in stagnant water (Govan et al. 1996, Saiman et al. 2003). The transmission of pathogens to patients during dental treat- Several previous investigations found that the water which ment has been a topic of discussion for years, which is why reached the DCU failed to meet drinking water standards. In dental unit water has been investigated again and again (Exner Switzerland there are few studies on this topic, perhaps because et al. 1981, Panagakos et al. 2001). Because irreversible damage the water quality here is believed to be good. One study from may be caused to teeth when using high-speed handpieces Bern showed that only 10% of DCUs complied with all criteria without sufficient cooling, water spray, both to clear the work- required for drinking water and that the tolerated margin of ing area and for cooling, is an indispensable component of the 100 microbes per ml was frequently exceeded, however, three modern dental unit. Aerosol from these instruments has not minutes rinsing was sufficient to guarantee the water quality only increased the danger of infection for patient and dentist, (Tonetti-Eberle et al. 2001). In recent years various efforts but also continually increased the germ count in the dental have been made and numerous methods of disinfection have surgery (Dombrowsky et al. 1980). In particular, bacterial bio- been investigated with a view to improving the water quality film formation in the dental chair units (DCU) presents a big hindering the formation of biofilm in DCUs (Wirthlin et al. problem and poses a risk of infection not only for dental staff 2003, McDowell et al. 2004). For this purpose, the American but also for immunocompromised patients or persons suffering Centers for Disease Control and Prevention (CDC) have recently from other severe diseases (Pankhurst et al. 1995, Williams et published new guidelines for infection control in dental health- al. 1996, Barbeau et al. 1998, Walker et al. 2000). Patients care settings (Kohn et al. 2003). with cystic fibrosis (CF), an inherited disease with thickened The aim of the present study was to determine whether the mucous in the lung, are particularly prone to infection with DCU water quality in the St. Gallen region of Switzerland met 976 Schweiz Monatsschr Zahnmed Vol. 119 10/2009 Water quality in dental treatment units Research and Science the Swiss drinking water standards or whether dental treat- were identified by sequencing the mip gene (Ratcliff et al. ment might pose a risk for patients with diseases such as CF. 2003). Statistical analyses: The data were analysed using STATA Materials and Methods (StataCorp. 2007. Stata Statistical Software: Release 10.0. Col- lege Station, TX: StataCorp LP). As the microbial count data Water samples were taken from a total of 80 DCUs in 40 ran- were not normally distributed, we used medians rather than domly chosen dental practices in the St. Gallen area. The sam- means to describe average microbial counts. Our main out- ples were taken either from the high-speed handpiece tube, come (dependent variable) was the proportion of water sam- the 3 in 1 syringe or the micromotor. The dentist decided ples with a microbial count above the cut-off (300 CFU/ml for where the sample was taken from, but the water was sampled total microbial count, 10 CFU/l for Legionella und < 1 CFU/ml twice at the same location first on a Monday morning, before for Pseudomonas aeruginosa). These values were given as per- the DCU had been used, and also after use for at least two centages with a 95% confidence interval (95% CI). In order to hours. The water was collected by the dentist, or by another determine whether the proportion of positive samples was member of staff, in a sterile 250 ml glass containing sodium associated with the age and type of DCU as well as the sam- thiosulfate to inactivate oxidising disinfectants. All samples pling site, the data were first cross-tabulated and then further were brought to the Department of Health and Consumer Protec- investigated using univariate and multivariate logistic regres- tion on the same day and were processed within 24 hours. The sion analyses. Statistical significance was tested using a Chi2 DCU type and age were recorded on a questionnaire. test for the cross-tabulation and Likelihood ratio tests for the The standard method for water quality determination in logistic regressions. Switzerland was used to determine the number of bacteria (aerobic mesophilic bacteria) as follows: one ml of water was Results transferred into a Petri dish with 25 ml sterile liquid methods Agar (Difco, 279740) which, once it had set, was incubated at Two 250 ml water samples were taken correctly from 76 of the 30 °C for 72 hours. Then bacteria present were counted as 80 DCUs tested and could be used for investigation. In two colony forming units (CFU) but not specified further. Accord- cases, too little water was collected in the bottle (< 200 ml). In ing to official Swiss hygiene guidelines for the drinking water another case, the second sample was collected too early, and supply, values below 300 CFU/ml are regarded as normal, but in another, the sample was stored for longer than 24 hours. Of pathogens should not be present (Eidgenössisches Departe- the 76 water samples, 20 were taken from the high-speed hand- ment des Innern 2005). piece tube, 38 from the 3 in 1 spray and 16 from the micromo- Pseudomonas aeruginosa was isolated and identified from the tor; in two cases the sampling location was not recorded.
Recommended publications
  • BD-CS-057, REV 0 | AUGUST 2017 | Page 1
    EXPLIFY RESPIRATORY PATHOGENS BY NEXT GENERATION SEQUENCING Limitations Negative results do not rule out viral, bacterial, or fungal infections. Targeted, PCR-based tests are generally more sensitive and are preferred when specific pathogens are suspected, especially for DNA viruses (Adenovirus, CMV, HHV6, HSV, and VZV), mycobacteria, and fungi. The analytical sensitivity of this test depends on the cellularity of the sample and the concentration of all microbes present. Analytical sensitivity is assessed using Internal Controls that are added to each sample. Sequencing data for Internal Controls is quantified. Samples with Internal Control values below the validated minimum may have reduced analytical sensitivity or contain inhibitors and are reported as ‘Reduced Analytical Sensitivity’. Additional respiratory pathogens to those reported cannot be excluded in samples with ‘Reduced Analytical Sensitivity’. Due to the complexity of next generation sequencing methodologies, there may be a risk of false-positive results. Contamination with organisms from the upper respiratory tract during specimen collection can also occur. The detection of viral, bacterial, and fungal nucleic acid does not imply organisms causing invasive infection. Results from this test need to be interpreted in conjunction with the clinical history, results of other laboratory tests, epidemiologic information, and other available data. Confirmation of positive results by an alternate method may be indicated in select cases. Validated Organisms BACTERIA Achromobacter
    [Show full text]
  • Mariem Joan Wasan Oloroso
    Interactions between Arcobacter butzleri and free-living protozoa in the context of sewage & wastewater treatment by Mariem Joan Wasan Oloroso A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science in Environmental Health Sciences School of Public Health University of Alberta © Mariem Joan Wasan Oloroso, 2021 Abstract Water reuse is increasingly becoming implemented as a sustainable water management strategy in areas around the world facing freshwater shortages and nutrient discharge limits. However, there are a host of biological hazards that must be assessed prior to and following the introduction of water reuse schemes. Members of the genus Arcobacter are close relatives to the well-known foodborne campylobacter pathogens and are increasingly being recognized as emerging human pathogens of concern. Arcobacters are prevalent in numerous water environments due to their ability to survive in a wide range of conditions. They are particularly abundant in raw sewage and are able to survive wastewater treatment and disinfection processes, which marks this genus as a potential pathogen of concern for water quality. Because the low levels of Arcobacter excreted by humans do not correlate with the high levels of Arcobacter spp. present in raw sewage, it was hypothesised that other microorganisms in sewage may amplify the growth of Arcobacter species. There is evidence that Arcobacter spp. survive both within and on the surface of free-living protozoa (FLP). As such, this thesis investigated the idea that Arcobacter spp. may be growing within free-living protozoa also prevalent in raw sewage and providing them with protection during treatment and disinfection processes.
    [Show full text]
  • Diapositive 1
    29.04.2013 ESCMID-BERLIN «Culturomics» © by author ESCMID Online Lecture Library Didier Raoult Marseille - France [email protected] www.mediterranee-infection.com As samples in 2012 We received -220,000 samples for culture (bactéria, fungi, viruses) - 200,000 PCR were performed - 115,000 serological testing were tested © by author Real-time laboratory surveillance of sexually-transmissible infections in Marseille University hospitals reveals rise of gonorrhea, syphilis and HIV seroconversions in 2012. PhilippeESCMID Colson1,2 , Frédérique Online Gouriet1,2 Lecture , Sékéné Badiaga 2,3Library, Catherine Tamalet 1,2, Andreas Stein2,4, Didier Raoult1,2 *. Eurosurveillance 2013 2 Culture has been negleted in clinical microbiology, very few new media have been recently very few introduced but it is still central for: Causality Suceptibility testing Genome sequencing© by author ESCMID Online Lecture Library Pathophysiology 3 NEW IDENTIFICATIONS Helicobacter pylori • Peptic ulcer disease • Cancer of the stomach, grown in 1983 © by author ESCMIDSeen sinceOnline the Lecture 19th century Library 4 © by author ESCMID Online Lecture Library 5 PROGRESSES MADE IN MICROBIOLOGY FROM 1979 TO 2012 THANKS TO THE DEVELOPMENT OF NEW TECHNOLOGIES © by author a) the ESCMIDleft ordinate axis refers toOnline the cumulative numbers Lecture of bacterial species Library with validly published names (green curve); the right ordinate axis refers to the cumulative numbers of sequenced bacterial genomes (purple) and sequenced viral genomes (blue); 6 © by author b) the left ordinate axis refers to the numbers of articles containing “metagenome” as keyword (red) and of articles containing “microbiota” as keyword (grey); the right ordinate axisESCMID refers to the numbers Online of articles containing Lecture “MALDI-TOF” andLibrary “clinical microbiology” as keywords (orange).
    [Show full text]
  • Genetic and Functional Studies of the Mip Protein of Legionella
    t1.ì. Genetic and Functional Studies of the Mip Protein of Legionella Rodney Mark Ratcliff, BSc (Hons)' MASM Infectious Diseases Laboratories Institute of Medical and Veterinary Science and Department of Microbiology and Immunology UniversitY of Adelaide. Adelaide, South Australia A thesis submitted to the University of Adelaide for the degree of I)octor of Philosophy 15'h March 2000 amended 14th June 2000 Colonies of several Legionella strains on charcoal yeast extract agar (CYE) after 4 days incubation at 37"C in air. Various magnifications show typical ground-glass opalescent appearance. Some pure strains exhibit pleomorphic growth or colour. The top two photographs demonstrate typical red (LH) and blue-white (RH) fluorescence exhibited by some species when illuminated by a Woods (IJV) Lamp. * t Table of Contents .1 Chapter One: Introduction .1 Background .............'. .2 Morphology and TaxonomY J Legionellosis ............. 5 Mode of transmission "..'....'. 7 Environmental habitat 8 Interactions between Legionella and phagocytic hosts 9 Attachment 11 Engulfment and internalisation.'.. 13 Intracellular processing 13 Intracellular replication of legionellae .. " "' " "' 15 Host cell death and bacterial release 18 Virulence (the Genetic factors involved with intracellular multiplication and host cell killing .20 icm/dot system) Legiolysin .25 Msp (Znn* metaloprotease) ...'..... .25 .28 Lipopolysaccharide .29 The association of flagella with disease.. .30 Type IV fimbriae.... .31 Major outer membrane proteins....'.......'. JJ Heat shock proteins'.'. .34 Macrophage infectivity potentiator (Mip) protein Virulenceiraits of Legionella species other than L. pneumophila..........' .39 phylogeny .41 Chapter One (continued): Introduction to bacterial classification and .41 Identificati on of Legionella...'.,..'.. .46 Phylogeny .52 Methods of phylogenetic analysis' .53 Parsimony methods.'.. .55 Distance methods UPGMA cluster analYsis.'.'...
    [Show full text]
  • Critical Review: Propensity of Premise Plumbing Pipe Materials to Enhance Or Diminish Growth of Legionella and Other Opportunistic Pathogens
    pathogens Review Critical Review: Propensity of Premise Plumbing Pipe Materials to Enhance or Diminish Growth of Legionella and Other Opportunistic Pathogens Abraham C. Cullom 1, Rebekah L. Martin 1,2 , Yang Song 1, Krista Williams 3, Amanda Williams 4, Amy Pruden 1 and Marc A. Edwards 1,* 1 Civil and Environmental Engineering, Virginia Tech, 1145 Perry St., 418 Durham Hall, Blacksburg, VA 24061, USA; [email protected] (A.C.C.); [email protected] (R.L.M.); [email protected] (Y.S.); [email protected] (A.P.) 2 Civil and Environmental Engineering, Virginia Military Institute, Lexington, VA 24450, USA 3 TechLab, 2001 Kraft Drive, Blacksburg, VA 24060, USA; [email protected] 4 c/o Marc Edwards, Civil and Environmental Engineering, Virginia Tech, 1145 Perry St., 418 Durham Hall, Blacksburg, VA 24061, USA; [email protected] * Correspondence: [email protected] Received: 9 October 2020; Accepted: 13 November 2020; Published: 17 November 2020 Abstract: Growth of Legionella pneumophila and other opportunistic pathogens (OPs) in drinking water premise plumbing poses an increasing public health concern. Premise plumbing is constructed of a variety of materials, creating complex environments that vary chemically, microbiologically, spatially, and temporally in a manner likely to influence survival and growth of OPs. Here we systematically review the literature to critically examine the varied effects of common metallic (copper, iron) and plastic (PVC, cross-linked polyethylene (PEX)) pipe materials on factors influencing OP growth in drinking water, including nutrient availability, disinfectant levels, and the composition of the broader microbiome. Plastic pipes can leach organic carbon, but demonstrate a lower disinfectant demand and fewer water chemistry interactions.
    [Show full text]
  • EVALUATION of the P45 MOBILE INTEGRATIVE ELEMENT and ITS ROLE IN
    EVALUATION OF THE p45 MOBILE INTEGRATIVE ELEMENT AND ITS ROLE IN Legionella pneumophila VIRULENCE A Dissertation by LANETTE M. CHRISTENSEN Submitted to the Office of Graduate and Professional Studies of Texas A&M University in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY Chair of Committee, Jeffrey D. Cirillo Committee Members, James Samuel Jon Skare Farida Sohrabji Head of Program, Warren Zimmer May 2018 Major Subject: Medical Sciences Copyright 2018 Lanette Christensen ABSTRACT Legionella pneumophila are aqueous environmental bacilli that live within protozoal species and cause a potentially fatal form of pneumonia called Legionnaires’ disease. Not all L. pneumophila strains have the same capacity to cause disease in humans. The majority of strains that cause clinically relevant Legionnaires’ disease harbor the p45 mobile integrative genomic element. Contribution of the p45 element to L. pneumophila virulence and ability to withstand environmental stress were addressed in this study. The L. pneumophila Philadelphia-1 (Phil-1) mobile integrative element, p45, was transferred into the attenuated strain Lp01 via conjugation, designating p45 an integrative conjugative element (ICE). The resulting trans-conjugate, Lp01+p45, was compared with strains Phil-1 and Lp01 to assess p45 in virulence using a guinea pig model infected via aerosol. The p45 element partially recovered the loss of virulence in Lp01 compared to that of Phil-1 evident in morbidity, mortality, and bacterial burden in the lungs at the time of death. This phenotype was accompanied by enhanced expression of type II interferon in the lungs and spleens 48 hours after infection, independent of bacterial burden.
    [Show full text]
  • Effects of Cold Recovery Technology on the Microbial Drinking Water Quality
    Environmental Research 183 (2020) 109175 Contents lists available at ScienceDirect Environmental Research journal homepage: www.elsevier.com/locate/envres Effects of cold recovery technology on the microbial drinking water quality in unchlorinated distribution systems T ∗ Jawairia Imtiaz Ahmada,e, Gang Liua,b, , Paul W.J.J. van der Wielenc,f, Gertjan Medemaa,c,g, Jan Peter van der Hoeka,d a Sanitary Engineering, Department of Water Management, Faculty of Civil Engineering and Geosciences, Delft University of Technology, P.O. Box 5048, 2600GA, Delft, the Netherlands b Key Laboratory of Drinking Water Science and Technology, Research Centre for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China c KWR Watercycle Research Institute, P.O. Box 1072, 3430 BB, Nieuwegein, the Netherlands d Waternet, Korte Ouderkerkerdijk 7, 1096 AC, Amsterdam, the Netherlands e Institute of Environmental Sciences and Engineering, School of Civil and Environmental Engineering, National University of Science and Technology, H-12 Sector, Islamabad, Pakistan f Laboratory of Microbiology, Wageningen University, P.O. Box 8033, 6700, EH, Wageningen, the Netherlands g Michigan State University, 1405, S Harrison Rd East-Lansing, 48823, USA ARTICLE INFO ABSTRACT Keywords: Drinking water distribution systems (DWDSs) are used to supply hygienically safe and biologically stable water Drinking water distribution system for human consumption. The potential of thermal energy recovery from drinking water has been explored re- Microbial ecology cently to provide cooling for buildings. Yet, the effects of increased water temperature induced by this “cold Cold recovery recovery” on the water quality in DWDSs are not known. The objective of this study was to investigate the Drinking water quality impact of cold recovery from DWDSs on the microbiological quality of drinking water.
    [Show full text]
  • HL7 Implementation Guide for CDA Release 2: NHSN Healthcare Associated Infection (HAI) Reports, Release 2 (U.S
    CDAR2L3_IG_HAIRPT_R2_D2_2009FEB HL7 Implementation Guide for CDA Release 2: NHSN Healthcare Associated Infection (HAI) Reports, Release 2 (U.S. Realm) Draft Standard for Trial Use February 2009 © 2009 Health Level Seven, Inc. Ann Arbor, MI All rights reserved HL7 Implementation Guide for CDA R2 NHSN HAI Reports Page 1 Draft Standard for Trial Use Release 2 February 2009 © 2009 Health Level Seven, Inc. All rights reserved. Co-Editor: Marla Albitz Contractor to CDC, Lockheed Martin [email protected] Co-Editor/Co-Chair: Liora Alschuler Alschuler Associates, LLC [email protected] Co-Chair: Calvin Beebe Mayo Clinic [email protected] Co-Chair: Keith W. Boone GE Healthcare [email protected] Co-Editor/Co-Chair: Robert H. Dolin, M.D. Semantically Yours, LLC [email protected] Co-Editor Jonathan Edwards CDC [email protected] Co-Editor Pavla Frazier RN, MSN, MBA Contractor to CDC, Frazier Consulting [email protected] Co-Editor: Sundak Ganesan, M.D. SAIC Consultant to CDC/NCPHI [email protected] Co-Editor: Rick Geimer Alschuler Associates, LLC [email protected] Co-Editor: Gay Giannone M.S.N., R.N. Alschuler Associates LLC [email protected] Co-Editor Austin Kreisler Consultant to CDC/NCPHI [email protected] Primary Editor: Kate Hamilton Alschuler Associates, LLC [email protected] Primary Editor: Brett Marquard Alschuler Associates, LLC [email protected] Co-Editor: Daniel Pollock, M.D. CDC [email protected] HL7 Implementation Guide for CDA R2 NHSN HAI Reports Page 2 Draft Standard for Trial Use Release 2 February 2009 © 2009 Health Level Seven, Inc. All rights reserved. Acknowledgments This DSTU was produced and developed in conjunction with the Division of Healthcare Quality Promotion, National Center for Preparedness, Detection, and Control of Infectious Diseases (NCPDCID), and Centers for Disease Control and Prevention (CDC).
    [Show full text]
  • Babela Massiliensis, a Representative of A
    Pagnier et al. Biology Direct (2015) 10:13 DOI 10.1186/s13062-015-0043-z RESEARCH Open Access Babela massiliensis, a representative of a widespread bacterial phylum with unusual adaptations to parasitism in amoebae Isabelle Pagnier1, Natalya Yutin2, Olivier Croce1, Kira S Makarova2, Yuri I Wolf2, Samia Benamar1, Didier Raoult1, Eugene V Koonin2 and Bernard La Scola1* Abstract Background: Only a small fraction of bacteria and archaea that are identifiable by metagenomics can be grown on standard media. Recent efforts on deep metagenomics sequencing, single-cell genomics and the use of specialized culture conditions (culturomics) increasingly yield novel microbes some of which represent previously uncharacterized phyla and possess unusual biological traits. Results: We report isolation and genome analysis of Babela massiliensis, an obligate intracellular parasite of Acanthamoeba castellanii. B. massiliensis shows an unusual, fission mode of cell multiplication whereby large, polymorphic bodies accumulate in the cytoplasm of infected amoeba and then split into mature bacterial cells. This unique mechanism of cell division is associated with a deep degradation of the cell division machinery and delayed expression of the ftsZ gene. The genome of B. massiliensis consists of a circular chromosome approximately 1.12 megabase in size that encodes, 981 predicted proteins, 38 tRNAs and one typical rRNA operon. Phylogenetic analysis shows that B. massiliensis belongs to the putative bacterial phylum TM6 that so far was represented by the draft genome of the JCVI TM6SC1 bacterium obtained by single cell genomics and numerous environmental sequences. Conclusions: Currently, B. massiliensis is the only cultivated member of the putative TM6 phylum. Phylogenomic analysis shows diverse taxonomic affinities for B.
    [Show full text]
  • CGM-18-001 Perseus Report Update Bacterial Taxonomy Final Errata
    report Update of the bacterial taxonomy in the classification lists of COGEM July 2018 COGEM Report CGM 2018-04 Patrick L.J. RÜDELSHEIM & Pascale VAN ROOIJ PERSEUS BVBA Ordering information COGEM report No CGM 2018-04 E-mail: [email protected] Phone: +31-30-274 2777 Postal address: Netherlands Commission on Genetic Modification (COGEM), P.O. Box 578, 3720 AN Bilthoven, The Netherlands Internet Download as pdf-file: http://www.cogem.net → publications → research reports When ordering this report (free of charge), please mention title and number. Advisory Committee The authors gratefully acknowledge the members of the Advisory Committee for the valuable discussions and patience. Chair: Prof. dr. J.P.M. van Putten (Chair of the Medical Veterinary subcommittee of COGEM, Utrecht University) Members: Prof. dr. J.E. Degener (Member of the Medical Veterinary subcommittee of COGEM, University Medical Centre Groningen) Prof. dr. ir. J.D. van Elsas (Member of the Agriculture subcommittee of COGEM, University of Groningen) Dr. Lisette van der Knaap (COGEM-secretariat) Astrid Schulting (COGEM-secretariat) Disclaimer This report was commissioned by COGEM. The contents of this publication are the sole responsibility of the authors and may in no way be taken to represent the views of COGEM. Dit rapport is samengesteld in opdracht van de COGEM. De meningen die in het rapport worden weergegeven, zijn die van de auteurs en weerspiegelen niet noodzakelijkerwijs de mening van de COGEM. 2 | 24 Foreword COGEM advises the Dutch government on classifications of bacteria, and publishes listings of pathogenic and non-pathogenic bacteria that are updated regularly. These lists of bacteria originate from 2011, when COGEM petitioned a research project to evaluate the classifications of bacteria in the former GMO regulation and to supplement this list with bacteria that have been classified by other governmental organizations.
    [Show full text]
  • ESCMID Online Lecture Library © by Author ESCMID Online Lecture Library Latex Agglutination Test
    The etiological agent: Legionella pneumophila and other Legionella spp. Valeria Gaia © by author National Reference Centre for Legionella ESCMIDc/o Online Microbiology Lecture laboratory Library Ente Ospedaliero Cantonale Bellinzona - Switzerland © by author ESCMID Online Lecture Library Hystory of Legionnaires’ Disease July 21st 1976 - Philadelphia • 58th Convention of the American Legion at the Bellevue-Stratford Hotel • > 4000 World War II Veterans with families & friends • 600 persons staying at the hotel © by author • ESCMIDJuly 23nd: convention Online closed Lecture Library • Several veterans showed symptoms of pneumonia Searching for the causative agent David Fraser: CDC – Atlanta •Influenza virus? •Nickel intoxication? •Toxin? o 2603 toxicology tests o 5120 microscopy exams o 990 serological tests© by author ESCMIDEverybody seems Online to agree: Lecture it’s NOT a bacterialLibrary disease! July 22nd – August 2nd •High fever •Coughing •Breathing difficulties •Chest pains •Exposed Population =© people by authorstaying in the lobby or outside the Bellevue Stratford Hotel «Broad Street Pneumonia» •221ESCMID persons were Online infected (182+39 Lecture «Broad StreetLibrary Pneumonia» ) 34 patients died (29+5) September 1976-January 1977 Joseph McDade: aims to rule out Q-fever (Rickettsiae) •Injection of “infected” pulmonary tissue in Guinea Pigs microscopy: Cocci and small Bacilli not significant at the time •Inoculation in embryonated eggs + antibiotics to inhibit the growth of contaminating bacteria No growth Microscopy on the
    [Show full text]
  • 1 Bacterial Community Structure Correlates with Legionella 2
    Electronic Supplementary Material (ESI) for Environmental Science: Water Research & Technology. This journal is © The Royal Society of Chemistry 2020 1 Bacterial Community Structure Correlates with Legionella 2 pneumophila Colonization of New York City High Rise Building 3 Premises Plumbing Systems 4 5 Supplementary Information 6 7 8 9 10 11 Xiao Ma a, David Pierre a, Kyle Bibby b, c, 1, Janet E. Stout a, b, * 12 13 14 15 16 17 18 19 20 a Special Pathogens Laboratory, Pittsburgh, PA 15219, USA 21 b Department of Civil and Environmental Engineering, University of Pittsburgh, Pittsburgh, PA 22 15261, USA 23 c Department of Computational and Systems Biology, University of Pittsburgh Medical School, 24 Pittsburgh, PA 15261, USA 25 26 27 28 *Corresponding Author: Janet E. Stout, 1401 Forbes Ave, Suite 401, Pittsburgh, PA 15219, 29 [email protected], 412-281-5335 30 31 1 (Current affiliation) Department of Civil and Environmental Engineering and Earth Sciences, 32 University of Notre Dame, Notre Dame, IN 46556, USA 33 34 35 36 37 38 39 40 1 41 SI-Table 1. RDP taxonomy classification results of pure culture Legionella DNA Pure culture Assigned taxa Percentage assigned Legionella pneumophila Legionella pneumophila 99.80% Legionella (unclassified species) 0.02% Legionella cherrii 0.02% Not assigned as Legionellaceae 0.16% Legionella micdadei Legionella micdadei 99.90% Legionella cherrii 0.02% Not assigned as Legionellaceae 0.08% Legionella anisa Legionella (unclassified species) 9.23% Legionella cherrii 90.40% Legionella gratiana 0.03% Legionella steelei 0.08% Legionella steigerwaltii 0.06% Not assigned as Legionellaceae 0.21% 42 43 44 SI-Table 2.
    [Show full text]