DOCSLIB.ORG

How Can Whole-Genome Sequencing Help Eradicate Tuberculosis?

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
How Can Whole-Genome Sequencing Help Eradicate Tuberculosis? How can whole-genome sequencing help eradicate tuberculosis? ECCMID, Amsterdam 2016 Timothy Walker University of Oxford ESCMID eLibrary by author I have nothing to declare ESCMID eLibrary by author Scientific / technical obstacles to progress Reservoir of 2 billion people with latent infection Vaccine is insufficiently effective Unable to predict which latently infected patients will manifest disease Available diagnostics are often basic (e.g. limited to smear microscopy) Phenotypic DST, where available, is slow, expensive, and imperfect Treatment courses are long, can be toxic and expensive for drug resistant disease PreventionESCMID of transmission remains relatively eLibrary neglected by author ESCMID eLibrary by author ESCMID eLibrary by author ESCMID eLibrary by author ESCMID eLibrary by author REACHING THE TARGETS To reach the targets set out in the End TB Strategy, the annual decline in global TB incidence rates must first accelerate from an average of 2% per year in 2015 to 10% per year by 2025. Secondly, the proportion of people with TB who die from the disease (the case-fatality ratio) needs to decline from a projected 15% in 2015 to 6.5% by 2025. These declines in deaths and incidence by 2025 while ambitious are feasible with existing tools complemented by universal health coverage and social protection. Global strategy and targets for To sustain progress beyond 2025 and achieve the SDG* tuberculosis prevention, care 2030 and End TB 2035 targets, additional tools must be ENDING THE TB EPIDEMIC and control after 2015 available by 2025. In particular, a new vaccine that is Ending the global TB epidemic is feasible with dramatic effective pre- and post-exposure and a safer and more decline i n TB deaths and cases, and elimination of effective treatment for latent TB infection are needed to economic and social burden of TB. Failure to do so Gwill obal strategy and targets for tuberculosis reduce the number of new TB cases arising from the carry serious individual and global public health Global strategy and targets for prevenatpiporonxim,a ctealy r2 ebil liaonn pedop cle owonrldtwridoe lw ahof atree inrf e2cte0d 15 consequences. tuberculosis prevention, care with M. tuberculosis, as well as better diagnosticasn adn cdo snatfreorl after 2015 and easier treat ment including shorter drug regimens for TB Achievement of this goal by 2035 requires: A world free of tuberculosis VISION disease. For new tools to be available by 2025, greatly – zero deaths, disease and suffering due to tuberculosis 1. Expanding the scope and reach of interventions for Gl obal esntharnacedt eangd yim maendiadte tinaverstgmeentts sin froesera rcthu abnde rculosis TB care and prevention, with a focus on high-impGaOctA, L End the global tuberculosis epidemic development ar e required. integrated and patient-centered approaches; MILESTONES TARGETS pINDrICeATvOReS n tion, care and control after 2015 2. Eliciti ng full benefits of health and development 2020 2025 SDG 2030* END TB 2035 Redu ction in numbeTr hofe T Bf digeauthrse below shows the projected acceleration of the 35% 75% 90% 95% policies and systems, through engaging a mcuocmhp ared with 2015d (e%c) l ine in global TB incidence rates with optimization of wider set of collaborators across governmeRendtu,c tion in TB incidceunrcer erantet tools coAm wboi2nr0le%dd f rewei tohf tpurboegr5c0ru%el soss isto wards 80u%n iversal 90% VcIoSmIOpaNre d with 2015 (%) (<85/100 000) (<55/100 000) (<20/100 000) (<10/100 000) communities and the private sector; health coverage –a znedr os odecaiatlh sp, rdoisteacsteio ann dfr soumffe 2ri0n1g 5d,u aen tod ttuhbee rculosis TB-affected families facing Zero Zero Zero Zero catastrophic costs due to TB (%) 3. Pursuing new scientific knowledge and innovatGi oOnAsL additional impacEt nodf tnheew g ltooboalls t ubbye 2rc0u2l5o.s is epidemic that can dramatically change TB prevention PanRdIN CIPLES MILESTONES TARGETS IN DICATORS care. 1. Government stewardship and accountabilit2y0, 2w0it h monitoring a2n0d2 e5va luation SDG 2030* END TB 2035 Re2d. ucSttiroonn ign cnouamlitbioern owf iTthB cdievailt shosc iety organizations and communities 3. Protection and promotion of human rights, 3e5th%ic s and equity 75% 90% 95% To ensure full impact, these actions must buildco mopna red with 2015 (%) Re4d. ucAtdioanp itna tTiBon in ocfi dthene cset rraatteeg y and targets at co2u0n%t ry level, with glob50a%l c ollaboration 80% 90% principles of government stewardship, engagemencot mopfa r ed with 2015 (%) (<85/100 000) (<55/100 000) (<20/100 000) (<10/100 000) PILLARS AND COMPONENTS civil society, human rights and equity, and adaptatioTnB- atfofe cted families facing 1. INTEGRATED, PATIENT-CENTRED CARE ANDZ ePrRoE VENTION Zero Zero Zero catastrophic costs due to TB (%) the unique context of diverse epidemics and settings . A. Early diagnosis of tuberculosis including universal drug-susceptibility testing, and systematic screening of PRINCcIoPnLtaEcSts and high-risk groups B. Treatment of all people with tuberculosis including drug-resistant tuberculosis, and patient support 1. Government stewardship and accountability, with monitoring and evaluation C. Collaborative tuberculosis/HIV activities, and management of co-morbidities 2. Strong coalition with civil society organizations and communities D. Preventive treatment of persons at high risk, and vaccination against tuberculosis 3.2 . P BrOoLteDc PtiOoLnI CaInEdS ApNroDm SoUtPioPnO oRfT hIVuEm SaYnST rEigMhSts , ethics and equity 4. AAd. aPpotlaittiicoanl coofm thmeit smtreantte wgyit ha nade tqauragteet sre asto cuorcuenst froyr l etuvbeel,r wcuiltohs igsl ocabrael acnodll apbreovreantitoionn ESCMIDB. Engagement of communities, ci vil society orga nizaeLibrarytions, and public and private care providers PILLARS AND COMPONENTS C. Universal health coverage policy, and regulatory frameworks for case notification, vital registration, quality 1. INTEGRATED, PATIENT-CENTRED CARE AND PREVENTION and rational use of medicines, and infection control A. Early diagnosis of tuberculosis including universal drug-susceptibility testing, and systematic screening of KEY TB FACTS D. Social protection, poverty alleviation and actions on other determinants of tuberculosis contacts and high-risk groups In 2013, 9 million people fell ill with TB and 1.5 milli3o. nIN dTEieNdSI FfIrEoDm RE iStE, AinRCcHlu AdNinDg IN 3N6O0V A0T0I0O Na mong people who were HIV-positive. BA. TDreisactomveerny,t doefv aelllo ppemoepnlet awnidt hra tpuibde urpctualkoes iosf i neclwu dtoinogls d, irnutge-rrveesnitsitoannst a tnudb setrrcautelogsieiss, and patient support In 2013 , there were an estimated 480 000 new cases CoB.f . CmRoeulslaletbaiordcrrhau tgiov -eor pettusimbiseitzreac unimlto psTliesB/m.H eInVt atcitoinv iatineds ,i manpda cmt, aanadg permomenote o ifn cnoo-vmatoiorbnsid ities D. Preventive treatment of persons at high risk, and vaccination against tuberculosis 2.T H BEO GLDLO PBOALLI CSITERSA ATNEGDY S AUNPDPO TRATRIGVEET SSY FSOTRE MTUSB ERCULOSIS PREVENTION, CARE AND CONTROL AFTER 2015, ACHIEVEMENTS CHALLENGES A. PoliticaWl EcoRmE EmNitDmOeRnStE wD iBthY aAdLeLq MuaEtMe BreEsRo SuTrAceTsE Sfo Ar Tt uTbHeEr c2u0l1o4s iWs cOaRreLD a nHdE ApLreTHve AnStiSoEnM BLY. B. Engagement of communities, civil society organizations, and public and private care providers * The U nited Nations is in th e proc ess of dbyefining a post-2015 develo pmentauthor agenda. A set of “Sustainable Development Goals” (SDGs) are being developed for 20C3.0 ; UTBn isi vpreorpsoaseld h toe bael tphar tc oof vthee raagegned ap aondli gcoya,ls a. nd regulatory frameworks for case notification, vital registration, quality and rational use of medicines, and infection control D. Social protection, poverty alleviation and actions on other determinants of tuberculosis 3. INTENSIFIED RESEARCH AND INNOVATION 45% decreasA. eD is covery, dev3el ompmilenlit aondn ra ppide upotapkel oef n ew tools, iMnteDRrventi-oTns Band c straistegiiess 37 million B. Research to optimize implementation and impact, and promote innovations lives saved in TB mortality rate who fall ill with TB still detection, waiting lists for treatment and since 2000 since 1990 unreached every year THE GLOBAL STRATEGY AND TARGETS FOR TUBERCULOSIS PREVquaENTlIiOtyN of, C AcRaEr eA ND CONTROL AFTER 2015, WERE ENDORSED BY ALL MEMBER STATES AT THE 2014 WORLD HEALTH ASSEMBLY. WHO Global Tuberculosis Report 2014 * The United Nations is in the process of defining a post-2015 development agenda. A set of “Sustainable Development Goals” (SDGs) are being developed for 2030; TB is proposed to be part of the agenda and goals. © World Health Organization December 2014 Desirable characteristics of a new diagnostic assay: 1. Identify the species 2. Determine all drug susceptibilities 3. Identify predictors of virulence 4. Link the organism to others to indicate source of acquisition 5. Rapid / point-of-care 6. Affordable ESCMID7. One single assay eLibrary by author ESCMIDIdentifying mycobacterial eLibrary species by author Mycobacterium abscessus Mycobacterium diernhoferi Mycobacterium hafniae (aka haemophilum) Mycobacterium riyadhense Mycobacterium acapulcensis Mycobacterium doricum Mycobacterium hassiacum Mycobacterium rufum Mycobacterium aemonae Mycobacterium duvalii Mycobacterium heckeshornense Mycobacterium runyonii (aka chelonae) Mycobacterium africanum Mycobacterium elephantis Mycobacterium heidelbergense Mycobacterium rutilum Mycobacterium agreste Mycobacterium europaeum Mycobacterium hiberniae Mycobacterium salmoniphilum Mycobacterium
Load more

Recommended publications
  • Discovery of a Novel Mycobacterium Asiaticum PRA-Hsp65 Pattern
    Infection, Genetics and Evolution 76 (2019) 104040 Contents lists available at ScienceDirect Infection, Genetics and Evolution journal homepage: www.elsevier.com/locate/meegid Short communication Discovery of a novel Mycobacterium asiaticum PRA-hsp65 pattern T ⁎ William Marco Vicente da Silva , Mayara Henrique Duarte, Luciana Distásio de Carvalho, Paulo Cesar de Souza Caldas, Carlos Eduardo Dias Campos, Paulo Redner, Jesus Pais Ramos National Reference Laboratory for Tuberculosis, Centro de Referência Professor Hélio Fraga, Escola Nacional de Saúde Pública, Fiocruz, RJ, Brazil ARTICLE INFO ABSTRACT Keywords: Twenty-one pulmonary sputum samples from nine Brazilian patients were analyzed by the PRA-hsp65 method PRA-hsp65 for identification of Mycobacterium species and the results were compared by sequencing. We reported a mu- Identification tation at the position 381, that generates a suppression cutting site in the BstEII enzyme, thus leading to a new M. asiaticum PRA-hsp65 pattern for M. asiaticum identification. Nontuberculous mycobacteria (NTM) are opportunistic human pa- widely used for identification of Mycobacterium species. The PRA-hsp65 thogens. NTM are widespread in nature and are found in environmental methodology consists of restriction analysis of a 441 bp PCR fragment sources, including water, soil, and aerosols. They are resistant to most of the hsp65 gene with enzymes BstEII and HaeIII (Campos et al., 2012; disinfectants, including those used in treated water. More than 170 Devulder, 2005; Tamura et al., 2011; Verma et al., 2017). Nowadays, NTM species have been described (http://www.bacterio.net/ M. asiaticum has a single pattern described as type 1 in the PRAsite mycobacterium.html), however, the knowledge about NTM infections database (http://app.chuv.ch/prasite/index.html) based on the fol- is still limited (Chin'ombe et al., 2016; Tortoli, 2014).
    [Show full text]
  • Basic Biology and Applications of Actinobacteria
    Edited by Shymaa Enany Basic Biology and Applications of ActinobacteriaBasic of Biology and Applications Actinobacteria have an extensive bioactive secondary metabolism and produce a huge Basic Biology and amount of naturally derived antibiotics, as well as many anticancer, anthelmintic, and antifungal compounds. These bacteria are of major importance for biotechnology, medicine, and agriculture. In this book, we present the experience of worldwide Applications of Actinobacteria specialists in the field of Actinobacteria, exploring their current knowledge and future prospects. Edited by Shymaa Enany ISBN 978-1-78984-614-0 Published in London, UK © 2018 IntechOpen © PhonlamaiPhoto / iStock BASIC BIOLOGY AND APPLICATIONS OF ACTINOBACTERIA Edited by Shymaa Enany BASIC BIOLOGY AND APPLICATIONS OF ACTINOBACTERIA Edited by Shymaa Enany Basic Biology and Applications of Actinobacteria http://dx.doi.org/10.5772/intechopen.72033 Edited by Shymaa Enany Contributors Thet Tun Aung, Roger Beuerman, Oleg Reva, Karen Van Niekerk, Rian Pierneef, Ilya Korostetskiy, Alexander Ilin, Gulshara Akhmetova, Sandeep Chaudhari, Athumani Msalale Lupindu, Erasto Mbugi, Abubakar Hoza, Jahash Nzalawahe, Adriana Ribeiro Carneiro Folador, Artur Silva, Vasco Azevedo, Carlos Leonardo De Aragão Araújo, Patricia Nascimento Da Silva, Jorianne Thyeska Castro Alves, Larissa Maranhão Dias, Joana Montezano Marques, Alyne Cristina Lima, Mohamed Harir © The Editor(s) and the Author(s) 2018 The rights of the editor(s) and the author(s) have been asserted in accordance with the Copyright, Designs and Patents Act 1988. All rights to the book as a whole are reserved by INTECHOPEN LIMITED. The book as a whole (compilation) cannot be reproduced, distributed or used for commercial or non-commercial purposes without INTECHOPEN LIMITED’s written permission.
    [Show full text]
  • S1 Sulfate Reducing Bacteria and Mycobacteria Dominate the Biofilm
    Sulfate Reducing Bacteria and Mycobacteria Dominate the Biofilm Communities in a Chloraminated Drinking Water Distribution System C. Kimloi Gomez-Smith 1,2 , Timothy M. LaPara 1, 3, Raymond M. Hozalski 1,3* 1Department of Civil, Environmental, and Geo- Engineering, University of Minnesota, Minneapolis, Minnesota 55455 United States 2Water Resources Sciences Graduate Program, University of Minnesota, St. Paul, Minnesota 55108, United States 3BioTechnology Institute, University of Minnesota, St. Paul, Minnesota 55108, United States Pages: 9 Figures: 2 Tables: 3 Inquiries to: Raymond M. Hozalski, Department of Civil, Environmental, and Geo- Engineering, 500 Pillsbury Drive SE, Minneapolis, MN 554555, Tel: (612) 626-9650. Fax: (612) 626-7750. E-mail: [email protected] S1 Table S1. Reference sequences used in the newly created alignment and taxonomy databases for hsp65 Illumina sequencing. Sequences were obtained from the National Center for Biotechnology Information Genbank database. Accession Accession Organism name Organism name Number Number Arthrobacter ureafaciens DQ007457 Mycobacterium koreense JF271827 Corynebacterium afermentans EF107157 Mycobacterium kubicae AY373458 Mycobacterium abscessus JX154122 Mycobacterium kumamotonense JX154126 Mycobacterium aemonae AM902964 Mycobacterium kyorinense JN974461 Mycobacterium africanum AF547803 Mycobacterium lacticola HM030495 Mycobacterium agri AY438080 Mycobacterium lacticola HM030495 Mycobacterium aichiense AJ310218 Mycobacterium lacus AY438090 Mycobacterium aichiense AF547804 Mycobacterium
    [Show full text]
  • Phylogenomic Analysis of the Species of the Mycobacterium Tuberculosis
    Phylogenomic analysis of the species of the Mycobacterium tuberculosis complex demonstrates that Mycobacterium africanum, Mycobacterium bovis, Mycobacterium caprae, Mycobacterium microti and Mycobacterium pinnipedii are later heterotypic synonyms of Mycobacterium tuberculosis Marco Riojas, Katya Mcgough, Cristin Rider-Riojas, Nalin Rastogi, Manzour Hernando Hazbón To cite this version: Marco Riojas, Katya Mcgough, Cristin Rider-Riojas, Nalin Rastogi, Manzour Hernando Hazbón. Phy- logenomic analysis of the species of the Mycobacterium tuberculosis complex demonstrates that My- cobacterium africanum, Mycobacterium bovis, Mycobacterium caprae, Mycobacterium microti and Mycobacterium pinnipedii are later heterotypic synonyms of Mycobacterium tuberculosis. Inter- national Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2018, 68 (1), pp.324-332. 10.1099/ijsem.0.002507. pasteur-01986654 HAL Id: pasteur-01986654 https://hal-riip.archives-ouvertes.fr/pasteur-01986654 Submitted on 18 Jan 2019 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. RESEARCH ARTICLE Riojas et al., Int J Syst Evol Microbiol 2018;68:324–332 DOI 10.1099/ijsem.0.002507 Phylogenomic analysis of the species of the Mycobacterium tuberculosis complex demonstrates that Mycobacterium africanum, Mycobacterium bovis, Mycobacterium caprae, Mycobacterium microti and Mycobacterium pinnipedii are later heterotypic synonyms of Mycobacterium tuberculosis Marco A.
    [Show full text]
  • Numerical Analysis of Rapidly Growing, Scotochromogenic Mycobacteria, Including Mycobacterium O Buense Sp
    INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, July 1981, p. 263-275 Vol. 31, No. 3 0020-7713/81/030263-13$02.00/0 Numerical Analysis of Rapidly Growing, Scotochromogenic Mycobacteria, Including Mycobacterium o buense sp. nov., norn. rev., Mycobacterium rhodesiae sp. nov., nom. rev., Mycobacterium aichiense sp. nov., norn. rev., Mycobacterium chubuense sp. nov., norn. rev., and Mycobacterium tokaiense sp. nov., nom. rev. MICHIO TSUKAMURA, SHOJI MIZUNO, AND SUM10 TSUKAMURA The National Chubu Hospital, Obu, Aichi, Japan 474 We performed numerical analyses of 155 strains of rapidly growing, scotochrom- ogenic mycobacteria by two different methods; in one method we used 104 characters, and in the other we used 84 characters. The following taxa appeared as distinct clusters: Myco bacterium thermoresistibile, Myco bacterium flavescens, Mycobacterium duvalii, Mycobacterium phlei, “Mycobacterium o buense,” My- co bacterium parafortuitum, Mycobacterium vaccae, Mycobacterium sphagni, “Mycobacterium aichiense,” “Mycobacterium rhodesiae,” Mycobacterium neoaurum, “Mycobacterium chubuense,” “Mycobacterium tokaiense,” and My- cobacterzum komossense (names in quotation marks are not on the Approved Lists of Bacterial Names). M. flavescens strains were divided into two subgroups, one consisting of strains isolated in Japan and the other consisting of strains isolated in Rhodesia and strains received from the American Type Culture Collection, including the type strain of M. flavescens (ATCC 14474). We found that there are many species of rapidly growing, scotochromogenic mycobacteria, and we believe that new species should be recognized and named on the basis of at least three strains. The following species appeared to be distinct from all presently named species: “Mycobacteriumgallinarum,” “Mycobacterium armen- tun,” “Mycobacterium pelpallidurn,” and “Mycobacterium taurus.” However, each of these species was proposed on the basis of only one or two strains.
    [Show full text]
  • Mycobacterium Caprae – the First Case of the Human Infection in Poland
    Annals of Agricultural and Environmental Medicine 2020, Vol 27, No 1, 151–153 CASE REPORT www.aaem.pl Mycobacterium caprae – the first case of the human infection in Poland Monika Kozińska1,A-D , Monika Krajewska-Wędzina2,B , Ewa Augustynowicz-Kopeć1,A,C-E 1 Department of Microbiology, National Tuberculosis and Lung Diseases Research Institute (NTLD), Warsaw, Poland 2 Department of Microbiology, National Veterinary Research Institute (NVRI), Puławy, Poland A – Research concept and design, B – Collection and/or assembly of data, C – Data analysis and interpretation, D – Writing the article, E – Critical revision of the article, F – Final approval of article Kozińska M, Augustynowicz-Kopeć E, Krajewska-Wędzina M. Mycobacterium caprae – the first case of the human infection in Poland. Ann Agric Environ Med. 2020; 27(1): 151–153. doi: 10.26444/aaem/108442 Abstract The strain of tuberculous mycobacteria called Mycobacterium caprae infects many wild and domestic animals; however, because of its zoonotic potential and possibility of transmission between animals and humans, it poses a serious threat to public health. Due to diagnostic limitations regarding identification of MTB strains available data regarding the incidence of M. caprae, human infection does not reflect the actual size of the problem. Despite the fact that the possible routes of tuberculosis transmission are known, the epidemiological map of this zoonosis remains underestimated. The progress in diagnostic techniques, application of advanced methods of mycobacterium genome differentiation and cooperation between scientists in the field of veterinary medicine and microbiology, have a profound meaning for understanding the phenomenon of bovine tuberculosis and its supervise its incidence. This is the first bacteriologically confirmed case of human infection of M.
    [Show full text]
  • Identification of Different Subtypes of Rapid Growing Atypical
    International Journal of Mycobacteriology xxx (2016) xxx– xxx Available at www.sciencedirect.com ScienceDirect journal homepage: www.elsevier.com/locate/IJMYCO Identification of different subtypes of rapid growing Atypical Mycobacterium from water and soil sources: Using PCR-RFLP using hsp65 and rRNA 16s–23s genes Mohammad Varahram a, Parissa Farnia a,*, Shima Saif a, Mehran Marashian a, Poopak Farnia a,b, Jaladein Ghanavi a, Ali Akbar Velayati a a Mycobacteriology Research Centre (MRC), National Research Institute of Tuberculosis and Lung Disease (NRITLD), Shahid Beheshti University of Medical Sciences, Tehran, Iran b Department of Biotechnology Advanced Technologies in Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran ARTICLE INFO ABSTRACT Article history: Objective/Background: Nontuberculosis mycobacteria (NTM) are a diverse group of microor- Received 13 September 2016 ganisms that cause a variety of diseases in humans including skin, respiratory, and gas- Accepted 14 September 2016 trointestinal tract infection. Generally, NTM are classified into two categories: rapid Available online xxxx (<7 days) and slow growing (>7 days). In this study, we aimed to investigate NTM frequency and prevalence in environmental samples. Additionally, we tried to identify various sub- Keywords: types of isolated rapid growing mycobacteria (RGM). Iran Methods: Through a prospective descriptive cross-sectional study, water and soil samples Mycobacterium fortuitum were gathered from four neighboring towns around Tehran, the capital of Iran, at different 2 RGM geographic directions. Every 100 m of the studied areas gave one sample containing 6 g of Soil soil in 3–5 cm depth deposited in 50 mL sterile water as sampling media. After digestion Water and decontamination, DNA from culture-positive specimens (RGM) were extracted using phenol–chloroform methods.
    [Show full text]
  • Bison Bonasus
    Annals of Agricultural and Environmental Medicine ORIGINAL ARTICLE www.aaem.pl Microbiological and molecular monitoring for ONLINE FIRST bovine tuberculosis inONLINE the Polish population FIRST of European bison (Bison bonasus) Anna Didkowska1,A-F , Blanka Orłowska1,A-C,F , Monika Krajewska-Wędzina2,A,C,F , Ewa Augustynowicz-Kopeć3,A-C,F , Sylwia Brzezińska3,B-C,E-F , Marta Żygowska1,A-B,D,F , Jan Wiśniewski1,B-C,F , Stanisław Kaczor4,B,F , Mirosław Welz5,A,C,F , Wanda Olech6,A,E-F , Krzysztof Anusz1,A-F 1 Department of Food Hygiene and Public Health Protection, Institute of Veterinary Medicine, University of Life Sciences (SGGW), Warsaw, Poland 2 Department of Microbiology, National Veterinary Research Institute, Puławy, Poland ONLINE FIRST ONLINE3 FIRST Department of Microbiology, National Tuberculosis Reference Laboratory, National Tuberculosis and Lung Diseases Research Institute, Warsaw, Poland 4 County Veterinary Inspectorate, Sanok, Poland 5 General Veterinary Inspectorate, Warsaw, Poland 6 Department of Animal Genetics and Conservation, Institute of Animal Sciences, University of Life Sciences (SGGW), Warsaw, Poland A – Research concept and design, B – Collection and/or assembly of data, C – Data analysis and interpretation, D – Writing the article, E – Critical revision of the article, F – Final approval of article Didkowska A, Orłowska B, Krajewska-Wędzina M, Augustynowicz-Kopeć E, Brzezińska S, Żygowska M, Wiśniewski J, Kaczor S, Welz M, Olech W, Anusz K. Microbiological and molecular monitoring for bovine tuberculosis in the Polish population of European bison (Bison bonasus). Ann Agric Environ Med. doi: 10.26444/aaem/130822 Abstract Introduction and objective. In recent years, bovine tuberculosis (BTB) has become one of the major health hazards facing the European bison (EB, Bison bonasus), a vulnerable species that requires active protection, including regular and effective health monitoring.
    [Show full text]
  • A Simple and Efficient Multiplex PCR Assay for the Identification of Mycobacteriumgenus and Mycobacterium Tuberculosis Complex T
    http://dx.doi.org/10.3349/ymj.2013.54.5.1220 Original Article pISSN: 0513-5796, eISSN: 1976-2437 Yonsei Med J 54(5):1220-1226, 2013 A Simple and Efficient Multiplex PCR Assay for the Identification ofMycobacterium Genus and Mycobacterium tuberculosis Complex to the Species Level Yeun Kim,1 Yeonim Choi,1 Bo-Young Jeon,1 Hyunwoo Jin,1,2 Sang-Nae Cho,3 and Hyeyoung Lee1 1Department of Biomedical Laboratory Science, College of Health Sciences, Yonsei University, Wonju; 2Department of Clinical Laboratory Science, College of Health Sciences, Catholic University of Pusan, Busan; 3Department of Microbiology, Yonsei University College of Medicine, Seoul, Korea. Received: September 19, 2012 Purpose: The Mycobacterium tuberculosis complex comprises M. tuberculosis, Revised: October 25, 2012 M. bovis, M. bovis bacillus Calmette-Guérin (BCG) and M. africanum, and causes Accepted: October 29, 2012 tuberculosis in humans and animals. Identification of Mycobacterium spp. and M. Corresponding author: Dr. Hyeyoung Lee, tuberculosis complex to the species level is important for practical use in microbi- Department of Biomedical Laboratory Science, College of Health Sciences, Yonsei University, ological laboratories, in addition to optimal treatment and public health. Materials 1 Yonseidae-gil, Wonju 220-710, Korea. and Methods: A novel multiplex PCR assay targeting a conserved rpoB sequence Tel: 82-33-760-2740, Fax: 82-33-760-2561 in Mycobacteria spp., as well as regions of difference (RD) 1 and RD8, was devel- E-mail: [email protected] oped and evaluated using 37 reference strains and 178 clinical isolates. Results: All mycobacterial strains produced a 518-bp product (rpoB), while other bacteria ∙ The authors have no financial conflicts of produced no product.
    [Show full text]
  • Nontuberculous Mycobacterial Species and Mycobacterium Tuberculosis Complex Coinfection in Patients with Pulmonary Tuberculosis in Dr
    [Downloaded free from http://www.ijmyco.org on Saturday, September 28, 2019, IP: 210.57.215.50] Original Research Article Nontuberculous Mycobacterial Species and Mycobacterium Tuberculosis Complex Coinfection in Patients with Pulmonary Tuberculosis in Dr. Soetomo Hospital, Surabaya, Indonesia Ni Made Mertaniasih1,2, Deby Kusumaningrum1,2, Eko Budi Koendhori1,2, Soedarsono3, Tutik Kusmiati3, Desak Nyoman Surya Suameitria Dewi2 Departments of 1Clinical Microbiology and 3Pulmonology, Faculty of Medicine, Airlangga University, Dr. Soetomo Hospital, Surabaya 60131, 2Institute of Tropical Disease, Airlangga University, Surabaya 60115, Indonesia Abstract Objective/Background: The aim of this study was to analyze the detection of nontuberculous mycobacterial (NTM) species derived from sputum specimens of pulmonary tuberculosis (TB) suspects. Increasing prevalence and incidence of pulmonary infection by NTM species have widely been reported in several countries with geographical variation. Materials and Methods: Between January 2014 and September 2015, sputum specimens from chronic pulmonary TB suspect patients were analyzed. Laboratory examination of mycobacteria was conducted in the TB laboratory, Department of Clinical Microbiology, Dr. Soetomo Hospital, Surabaya. Detection and identification of mycobacteria were performed by the standard culture method using the BACTEC MGIT 960 system (BD) and Lowenstein–Jensen medium. Identification of positive Mycobacterium tuberculosis complex (MTBC) was based on positive acid-fast bacilli microscopic smear, positive niacin accumulation, and positive TB Ag MPT 64 test results (SD Bioline). If the growth of positive cultures and acid-fast bacilli microscopic smear was positive, but niacin accumulation and TB Ag MPT 64 (SD Bioline) results were negative, then the isolates were categorized as NTM species. MTBC isolates were also tested for their sensitivity toward first-line anti-TB drugs, using isoniazid, rifampin, ethambutol, and streptomycin.
    [Show full text]
  • Mycobacterium Arupense Among the Isolates of Non-Tuberculous Mycobacteria from Human, Animal and Environmental Samples
    Veterinarni Medicina, 55, 2010 (8): 369–376 Original Paper Mycobacterium arupense among the isolates of non-tuberculous mycobacteria from human, animal and environmental samples M. Slany1, J. Svobodova2, A. Ettlova3, I. Slana1, V. Mrlik1, I. Pavlik1 1Veterinary Research Institute, Brno, Czech Republic 2Regional Institute of Public Health, Brno, Czech Republic 3BioPlus, s.r.o., Brno, Czech Republic ABSTRACT: Mycobacterium arupense is a non-tuberculous, potentially pathogenic species rarely isolated from humans. The aim of the study was to ascertain the spectrum of non-tuberculous mycobacteria within 271 sequenced mycobacterial isolates not belonging to M. tuberculosis and M. avium complexes. Isolates were collected between 2004 and 2009 in the Czech Republic and were examined within the framework of ecological studies carried out in animal populations infected with mycobacteria. A total of thirty-three mycobacterial species were identified. This report describes the isolation of M. arupense from the sputum of three human patients and seven different animal and environmental samples collected in the last six years in the Czech Republic: one isolate from leftover refrigerated organic dog food, two isolates from urine and clay collected from an okapi (Okapia johnstoni) and antelope bongo (Tragelaphus eurycerus) enclosure in a zoological garden, one isolate from the soil in an eagle’s nest (Haliaeetus albicilla) band two isolates from two common vole (Microtus arvalis) livers from one cattle farm. All isolates were identified by biochemical tests, morphology and 16S rDNA sequencing. Also, retrospective screening for M. arupense occurrence within the collected isolates is presented. Keywords: 16S rDNA sequencing; non-tuberculous mycobacteria; ecology Non-tuberculous mycobacteria (NTM) are ubiq- According to the commonly used Runyon clas- uitous in the environment and are responsible for sification scheme, NTM are categorized by growth several diseases in humans and/or animals known rate and pigmentation.
    [Show full text]
  • Health Monitoring for Your Zebrafish Colonies
    Discover better insight Health Monitoring for your zebrafish colonies The clear choice for a comprehensive health monitoring program. BioResearch Your partner in discovery Contents Introduction . 3 Edwardsiella ictaluri. 4 Flavobacterium columnare . 5 Ichthyophthirius multifiliis. 6 Infectious spleen and kidney necrosis virus (ISKNV) . 7 Mycobacterium abscessus . 8 Mycobacterium chelonae . .9 Mycobacterium fortuitum. 10 Mycobacterium haemophilum. 11 Mycobacterium marinum. 12 Mycobacterium peregrinum . 13 Piscinoodinium pillulare . 14 Pleistophora hyphessobryconis . 15 Pseudocapillaria tomentosa . 16 Pseudoloma neurophilia . 17 Profiles and Pricing. 18 Specimen preparation and shipping . 20 Additional resources . 21 Introduction A growing number of researchers are choosing zebrafish as models for biomedical research because of the advantages zebrafish offer over other animal models for certain studies. First, their small size and ease of breeding make zebrafish relatively inexpensive to maintain, which allows researchers to perform experiments using zebrafish that would be cost prohibitive using larger animal models. Secondly, embryos are transparent, which allows easy visualization of cell and organ development and permits experimental manipulations involving DNA or mRNA injection, cell labeling and transplantation. Zebrafish are now commonly employed as models in a diverse range of bioresearch fields, such as immunology, infectious disease, cardiac and vascular disease research, chemical and drug toxicity studies, reproductive biology and cancer research to name a few. As with other vertebrate models used in research, undetected infections can alter, confound or invalidate experimental results. Therefore, it is important to develop and utilize a health monitoring program to detect infectious agents that may affect the animal and the research outcomes. IDEXX BioResearch has developed sensitive molecular diagnostic assays to improve health monitoring for zebrafish colonies.
    [Show full text]