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Annual Conference Abstracts
ANNUAL CONFERENCE 14-17 April 2014 Arena and Convention Centre, Liverpool ABSTRACTS SGM ANNUAL CONFERENCE APRIL 2014 ABSTRACTS (LI00Mo1210) – SGM Prize Medal Lecture (LI00Tu1210) – Marjory Stephenson Climate Change, Oceans, and Infectious Disease Prize Lecture Dr. Rita R. Colwell Understanding the basis of antibiotic resistance University of Maryland, College Park, MD, USA as a platform for early drug discovery During the mid-1980s, satellite sensors were developed to monitor Laura JV Piddock land and oceans for purposes of understanding climate, weather, School of Immunity & Infection and Institute of Microbiology and and vegetation distribution and seasonal variations. Subsequently Infection, University of Birmingham, UK inter-relationships of the environment and infectious diseases Antibiotic resistant bacteria are one of the greatest threats to human were investigated, both qualitatively and quantitatively, with health. Resistance can be mediated by numerous mechanisms documentation of the seasonality of diseases, notably malaria including mutations conferring changes to the genes encoding the and cholera by epidemiologists. The new research revealed a very target proteins as well as RND efflux pumps, which confer innate close interaction of the environment and many other infectious multi-drug resistance (MDR) to bacteria. The production of efflux diseases. With satellite sensors, these relationships were pumps can be increased, usually due to mutations in regulatory quantified and comparatively analyzed. More recent studies of genes, and this confers resistance to antibiotics that are often used epidemic diseases have provided models, both retrospective and to treat infections by Gram negative bacteria. RND MDR efflux prospective, for understanding and predicting disease epidemics, systems not only confer antibiotic resistance, but altered expression notably vector borne diseases. -
Extensive Microbial Diversity Within the Chicken Gut Microbiome Revealed by Metagenomics and Culture
Extensive microbial diversity within the chicken gut microbiome revealed by metagenomics and culture Rachel Gilroy1, Anuradha Ravi1, Maria Getino2, Isabella Pursley2, Daniel L. Horton2, Nabil-Fareed Alikhan1, Dave Baker1, Karim Gharbi3, Neil Hall3,4, Mick Watson5, Evelien M. Adriaenssens1, Ebenezer Foster-Nyarko1, Sheikh Jarju6, Arss Secka7, Martin Antonio6, Aharon Oren8, Roy R. Chaudhuri9, Roberto La Ragione2, Falk Hildebrand1,3 and Mark J. Pallen1,2,4 1 Quadram Institute Bioscience, Norwich, UK 2 School of Veterinary Medicine, University of Surrey, Guildford, UK 3 Earlham Institute, Norwich Research Park, Norwich, UK 4 University of East Anglia, Norwich, UK 5 Roslin Institute, University of Edinburgh, Edinburgh, UK 6 Medical Research Council Unit The Gambia at the London School of Hygiene and Tropical Medicine, Atlantic Boulevard, Banjul, The Gambia 7 West Africa Livestock Innovation Centre, Banjul, The Gambia 8 Department of Plant and Environmental Sciences, The Alexander Silberman Institute of Life Sciences, Edmond J. Safra Campus, Hebrew University of Jerusalem, Jerusalem, Israel 9 Department of Molecular Biology and Biotechnology, University of Sheffield, Sheffield, UK ABSTRACT Background: The chicken is the most abundant food animal in the world. However, despite its importance, the chicken gut microbiome remains largely undefined. Here, we exploit culture-independent and culture-dependent approaches to reveal extensive taxonomic diversity within this complex microbial community. Results: We performed metagenomic sequencing of fifty chicken faecal samples from Submitted 4 December 2020 two breeds and analysed these, alongside all (n = 582) relevant publicly available Accepted 22 January 2021 chicken metagenomes, to cluster over 20 million non-redundant genes and to Published 6 April 2021 construct over 5,500 metagenome-assembled bacterial genomes. -
1985517720.Pdf
JOURNAL OF BACTERIOLOGY, Jan. 2009, p. 347–354 Vol. 191, No. 1 0021-9193/09/$08.00ϩ0 doi:10.1128/JB.01238-08 Copyright © 2009, American Society for Microbiology. All Rights Reserved. Complete Genome Sequence and Comparative Genome Analysis of Enteropathogenic Escherichia coli O127:H6 Strain E2348/69ᰔ† Atsushi Iguchi,1 Nicholas R. Thomson,2 Yoshitoshi Ogura,1,3 David Saunders,2 Tadasuke Ooka,3 Ian R. Henderson,4 David Harris,2 M. Asadulghani,1 Ken Kurokawa,5 Paul Dean,6 Brendan Kenny,6 Michael A. Quail,2 Scott Thurston,2 Gordon Dougan,2 Tetsuya Hayashi,1,3 Julian Parkhill,2 and Gad Frankel7* Division of Bioenvironmental Science, Frontier Science Research Center,1 and Division of Microbiology, Department of Infectious Diseases, Faculty of Medicine,3 University of Miyazaki, Miyazaki, Japan; Pathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom2; School of Immunity and Infection, University of Downloaded from Birmingham, Birmingham, United Kingdom4; Department of Biological Information, School and Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Kanagawa, Japan5; Institute of Cell and Molecular Biosciences, University of Newcastle, Newcastle upon Tyne, United Kingdom6; and Centre for Molecular Microbiology and Infection, Division of Cell and Molecular Biology, Imperial College London, London, United Kingdom7 Received 5 September 2008/Accepted 15 October 2008 Enteropathogenic Escherichia coli (EPEC) was the first pathovar of E. coli to be implicated in human disease; however, no EPEC strain has been fully sequenced until now. Strain E2348/69 (serotype O127:H6 belonging to E. http://jb.asm.org/ coli phylogroup B2) has been used worldwide as a prototype strain to study EPEC biology, genetics, and virulence. -
Holding Hands with Bacteria the Life and Work of Marjory Stephenson
SPRINGER BRIEFS IN MOLECULAR SCIENCE HISTORY OF CHEMISTRY Soňa Štrbáňová Holding Hands with Bacteria The Life and Work of Marjory Stephenson 123 SpringerBriefs in Molecular Science History of Chemistry Series editor Seth C. Rasmussen, Fargo, North Dakota, USA More information about this series at http://www.springer.com/series/10127 Soňa Štrbáňová Holding Hands with Bacteria The Life and Work of Marjory Stephenson 1 3 Soňa Štrbáňová Academy of Sciences of the Czech Republic Prague Czech Republic ISSN 2191-5407 ISSN 2191-5415 (electronic) SpringerBriefs in Molecular Science ISSN 2212-991X SpringerBriefs in History of Chemistry ISBN 978-3-662-49734-0 ISBN 978-3-662-49736-4 (eBook) DOI 10.1007/978-3-662-49736-4 Library of Congress Control Number: 2016934952 © The Author(s) 2016 This work is subject to copyright. All rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed. The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. -
Microbiology Society Activities
MICROBIOLOGY TODAY 48:1 May 2021 Microbiology Today 48:1 May 2021 Life on a Changing Planet Life on a Changing Planet Exploring the relationship between climate change and the microbial world Forest Fire in Dixie National Forest, Utah, USA. santirf/iStock which in turn increase the risk of COVID-19 complications. impact on respiratory health of affected communities. Curr Opin Pulm Wildfire smoke exposure might also increase the likelihood of Med 2019;25:179–187. comorbidities, including cardiovascular diseases, respiratory Wu X, Nethery RC, Sabath MB, Braun D, Dominici F. Air pollution and diseases, diabetes and hypertension, leading to an increased COVID-19 mortality in the United States: strengths and limitations of an ecological regression analysis. Sci Adv 2020;6:eabd4049. COVID-19 risk. Higher daily average PM2.5 concentrations during the wildfire season in western US states were positively Gosling SN, Bryce EK, Dixon PG, Gabriel KMA, Gosling EY et al. associated with increased influenza rates the following A glossary for biometeorology. Int J Biometeorol 2014;58:277–308. winter, indicating strong evidence for delayed effects of wildfire exposure. Research on understanding the underlying mechanisms between wildfire exposure and respiratory Rosa von Borries infection is an area of active investigation. Consultant at World Meteorological Organization, In particular, vulnerable population groups such as socio- Bernhard-Lichtenberg-Str 15, 10407 Berlin, economically disadvantaged populations, individuals with Germany comorbidities and the elderly face higher risks of experiencing [email protected] the combined consequences of COVID-19 and wildfires. @rosavborries In the US, migrant farmworkers who were continuously linkedin.com/in/rosa-von-borries-5b4987197 exposed to wildfire smoke and deemed essential workers during the pandemic faced much higher risks of severe Rosa von Borries holds an MSc in Public Health from London School health consequences from wildfire smoke and COVID-19. -
Quadram Institute Newsletter
Autumn 2019 Welcome to the newsle�er of the Quadram Ins�tute. This issue highlights recent research breakthroughs at the We con�nue to build our team and are pleased to welcome Quadram Ins�tute (QI) that could have posi�ve impacts on Professor Cynthia Whitchurch to the QI. Cynthia is se�ng public health. Working with clinicians our researchers have up a research group inves�ga�ng bacterial lifestyles, and shown how the latest sequencing technologies can aid in how these make them more infec�ous or resistant to diagnos�cs and surveillance. Coupling these techniques an�microbials. Cynthia joins us from the ithree ins�tute at with ‘Big Data’ analy�cal approaches will be vital to the University of Technology Sydney. Her research led to addressing 21st century popula�on health challenges, and the discovery that extracellular DNA is required for biofilm the QI aims to be a leader in this area. development. Big Data in the NHS was the topic of a roundtable We con�nue to welcome visitors to our new building to discussion I a�ended with Patricia Hart at the policy share our vision to understand how food and microbes development think tank Reform. This roundtable was interact to promote health and prevent disease. In June, we sponsored by QI and explored how universi�es and industry had the honour of hos�ng His Excellency Simon Smits, can work with government to realise poten�al applica�ons Ambassador of the Netherlands to the UK. The Ambassador of Big Data. The event was chaired by Baroness Blackwood, visited the Norwich Research Park as part of an Parliamentary Under-Secretary of State, Department of interna�onal trade delega�on to East Anglia to learn about Health and Social Care (DHSC) and included senior the region’s world-leading life sciences research and trade policy-makers, public service prac��oners, academics and opportuni�es. -
Curriculum Vitae Professor Mark John Pallen
Curriculum Vitae Professor Mark John Pallen MA (Hons) Cantab, MBBS, MD, PhD January 2014 Mark Pallen — Curriculum vitae Personal Details Name Mark John Pallen Date of Birth 6 July 1960 Nationality British Address 17 Lodge Drive, Malvern Worcestershire, WR14 4LS E-mail address [email protected] Telephone 01684 567710 (home); 07824 086946 (mobile) Web Page: http://tinyurl.com/ncul2p3 Twitter: http://twitter.com/mjpallen YouTube Channel: http://www.youtube.com/user/pallenm/ Education and Qualifications PhD 1998 Imperial College, London An investigation into the links between stationary phase and virulence in Salmonella enterica enterica serovar Typhimurium MD 1993 St Bartholomew's Hospital Medical College Detection and characterisation of diphtheria toxin genes and insertion sequences MRCPath by examination in Medical Microbiology 1991 (upgraded to FRCPath 2005) MB BS 1981-84 London Hospital Medical College Undergraduate Prizes: LEPRA National Essay Prize, 1982 Turnbull Prize in Pathology, 1983, 1984 Sutton Prize in Pathology, 1983 BA (Hons) in Medical Sciences 1978-81 University of Cambridge Fitzwilliam College (Lower Second, converted to MA, 1985) Page 1 Mark Pallen — Curriculum vitae Employment Professor of Microbial Genomics Head of Division of Microbiology and Infection Apr 2013-now Warwick Medical School, University of Warwick Professor of Microbial Genomics 2001-2013 University of Birmingham Professor and Head of Department 1999-2001 Department of Microbiology and Immunobiology Queen’s University, Belfast Senior Lecturer (Honorary Consultant) 1992–99 Department of Medical Microbiology St Bartholomew's and the Royal London School of Medicine and Dentistry (Queen Mary Westfield College) Visiting Research Fellow 1994–97 Department of Biochemistry Imperial College of Science, Technology and Medicine (on a Wellcome Trust Research Leave Fellowship, working at Imperial, while still employed by Barts) Lecturer (Hon. -
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F r-nierobiologytodcly i W; vol33i oug06 ,: qumrter{y rn{-}#r.}rin*nf thw s**:imty f'*r 6*[":*l"C*l rnicrr:hl*i*E5r I f vcl33(3) [*j'l-l l.-ili:i i" t'.ir'iliL.i i{:}li 90 News 128 Cradline 134 Reviews 122 Meetings 130 Hotoff the press 139 Addresses 124 Schoolzone132 Coingpublic it'l i:)'i-:il;I i i i::ji-i-l:; 117 Usingmicroscopy to enhanceundergraduate teaching 127 Letter 136 obituaries i:l l'Tl{,-li:}S 96 Fluorescencemicroscopy Canyou seethe asa researchtool in bacterial light? cellbiology lain Hagan , AgnesCrallert & Jeff Errington SteveBagley The revolution of new views of the subcellularorganization Simpleand affordable steps to exploitrecent of bacteria. advancesin ffuorescenceimaging. 100 |nvestigating a bacterial killer usingatomic force microscopy 118 HenryBaker: author of the MeganNufiez & EileenSpain first m icroscopy labo ratory Learnabout the secretlife of the predatorykiller, Bdellovibrio. manual Virusesand intracellular RichardBurns This18th century polymath played a big partin popularizing movement earlymicroscopes. TomWileman How do virusesmanaSe to move within and between the cellsof their host? Comment - Openoption for SCM 108 Studyingsingle molecules in journals microbialsystems RonFraser & RobinDunford ChristophBaumann Openaccess demands by grant-awardingbodies Individualmolecules in livingcells can now be observed. arecausing problems for publishers. {ovr:r inoge Microscopelenses. Tony Craddock / SciencePhoto Library Theviews expressed fditr.rrDrCavinThomas[lcii|*riili{l*"lrdDr5ueAssinder'Professor|ainHagan,ProfessorBertRlma -
70Th Anniversary Collection of the Microbiology Society: Journal of General Virology Robin A
Journal of General Virology (2015), 00, 1–3 DOI 10.1099/jgv.0.000286 Commentary 70th Anniversary Collection of the Microbiology Society: Journal of General Virology Robin A. Weiss Correspondence Division of Infection & Immunity, University College London, London WC1E 6BT, UK Robin A. Weiss [email protected] To mark the 70th anniversary of the founding of the Society From its inception, the Journal of General Virology took for General Microbiology (now renamed the Microbiology papers on the structure and design of virus particles, Society) it was decided to showcase 70 salient publications such as human adenovirus type 5. In a superb biochemical from the archives of its various journals. The Journal of Gen- and structural analysis comprising three consecutive eral Virology was allocated 15 papers. I was invited to curate papers, the second paper by Russell et al. (1967) showed them and given a carte blanche which ones to choose. True that when heated to 56 8C, the icosahedral capsid ruptured to the name of the journal, I picked a broad range of viruses at the penton bases and liberated viral DNA. They also cor- and a paper on prion disease. If readers are disappointed not rectly predicted that unknown nucleocore proteins exist to see their own most cherished contribution featured that in later years became important for understanding among them, please consider the odds: only 15 from over cell transformation and early steps in virus replication. 15 000 Journal of General Virology articles could be selected The only paper among the 15 selected that does not present and I gave more weight to older papers to recall contri- primary research data is the commentary on virus diversity butions by the pioneers of virology. -
Clinical Metagenomics
Clinical metagenomics Nick Loman Jonathan Eisen Mick Watson 16S vs metagenomics • Cheap • Expensive • Targets single marker • In theory can detect gene anything • Limited to bacteria • Harder to analyse • Relatively easy to analyse • Fewer biases (?) • Lots of known biases • Taxonomic assignment at • Function information species level problematic directly accessible • Function can only be • Strain-level inferred, not detected information • Goes deeper • Shallower Definition of a metagenome • The collection of genomes and genes from the members of a microbiota • Microbiota: The assemblage of microorganisms present in a defined environment. • Microbiome: This term refers to the entire habitat, including the microorganisms, their genomes (i.e., genes) and the surrounding environmental conditions. http://www.allthingsgenomics.com/blog/2013/1/11/the-vocabulary-used-to-describe- microbial-communities-microbiome-metagenome-microbiota Metagenomics – Your questions • What are the best ways to address getting representation of bacteria, viruses, fungi and others? Techniques for doing so? – Thoughts on the use of physical enrichment techniques to isolate microbe of interest rather than traditional metagenomic sequencing? • What are the best bioinformatic software packages and pipelines for functional analysis? – What are the best analysis pipelines for full viral sequencing to detect whether mutations are true or not? Comparing closely related taxa? • As an initial approach, should one try 16s sequencing prior to shotgun sequencing if interested -
Microbiologytoday Biology and Pathogenesis Current Technology and Author: Naveed Khan Molecular Biology Applications
Caister Academic Press New Books for 2009 www.caister.com Acanthamoeba Lactobacillus Real-Time PCR microbiologytoday Biology and Pathogenesis Current Technology and Author: Naveed Khan Molecular Biology Applications ... available now! c. 220 pp., February 2009 From Genomics to Probiotics Edited by: J. Logan, K. Edwards and N. Saunders ISBN: 978-1-904455-43-1 $310 / £150 Edited by: Åsa Ljungh and Torkel Wadström x + 284 pp., January 2009 The first comprehensive review of c. 220 pp., January 2009 ISBN 978-1-904455-39-4 $310 / £150 Acanthamoeba research to be published. ISBN 978-1-904455-41-7 $310 / £150 A comprehensive guide to the latest PCR The current state of research on every aspect An essential reference for all dairy of this organism, detailing major advances platforms, fluorescent chemistries, validation technologists, microbiologists and in areas such as genomics, molecular and software, data analysis, internal and external cellular biology, life cycles, geographical biotechnologists. Includes phylogenetics, controls and a wide range of applications: distribution, role in ecosystem, morphology, taxonomy, comparative genomics, functional clinical diagnostics, biodefense, RNA vol35|nov08 genomics, the intestinal microflora, surface motility, phylogenetics, genotyping, metabolism, expression studies, validation of array data, quarterly regulation of morphogenesis, host-parasite proteins, stress responses, interaction with mutation detection, food authenticity and interactions, the molecular and immunological the immune system, probiotics, anti-cancer legislation, NASBA, and molecular halotyping. basis of pathogenesis, methods of transmission, potential, and much more. Essential reading for magazine of epidemiology, clinical manifestation, diagnosis, all scientists involved with lactic acid bacteria treatment, new target development and drug or probiotic research and a recommended book the society resistance. -
Downloaded from the SGM Website
F I: t' SGMHeadquarterc MarlborouqhHouse. Articles Basingsto[eRoad, Spencers Thingsthat go rotin the night - Wood,Reading RG7 lAG Tel.01 18 988 1800 a reviewof biodeteriorationGlyn Morton 103 Fax01 189885656 [email protected] Everythingyou wanted to knowaboutthe dry-rot SGMWebsite fungusbutwere afraid to askJohnW Palfreyman http:./www.sgm.ac.uk &NiaA.White 107 Editor Lichens,agents of monumentaldestruction DrMerielJones MarkR.D.Seaward 110 EditorialBoard ProfessorDave Kelly Conservationof monu m ental stones bv bacterial ProfessorTonyNash biomineralizationBrunetla Perito &Giorgio Mastromei 1 13 ManagingEditor JanetHurst Sulfate-red uci n g bacteriain biofiI ms on metalIic Production Editor materialsand corrosion lwonaB. Beech 11 5 lanAtherton AssistantEditorand TheBiodeterioration Centre, University of Herbfordshire BookReviewManager RichardSmith 1 18 JaniceMeekings Pilzkrieg :the German warti me quest for penicil lin Gontributions Theseare always welcome and GilbertShama 120 shouldbe addressed tothe Editor AcuteRespi ratory rome(SARS) (c/o SGM Headquarters), Severe Synd FaveJones 124 CopyDates Lastdates for receipt of copy atMarlborouqh House are aeneratuopv Regular Featunes November2003 issue 1 Sept Februarv2004 issue 8 December MicroShorts 117&141 AOVerUSemen$ (LKl-.l November2003 issue 29 Sept SocietyNews February2004 issue1 9 January MayCouncilMeeting 126 Advertisements Above:Ascanning usuallycaused bysulfate- NewsofMembers 126 (SRB) Allenquiriesshould be sentto: electronmicrograph of the reducingbacteria and StaffNews 126 Domin