Comprehensive molecular, genomic and phenotypic analysis of a major clone of Enterococcus faecalis MLST ST40.

Autor: Zischka M; Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode Branch, Burgstr. 37, D-38855, Wernigerode, Germany. melanie.zischka@googlemail.com.; Present address: Institute for Pathology, Hannover Medical School (MHH), Hannover, Germany. melanie.zischka@googlemail.com., Künne CT; Functional Genomics of Bacterial Pathogens, Institute for Medical Microbiology, Justus Liebig University Giessen and German Center for Infection Research (DZIF), Partner site Giessen-Marburg-Langen, Campus Giessen, Giessen, Germany. Carsten.Kuenne@mikrobio.med.uni-giessen.de.; Max Planck Institute for Heart and Lung Research, Bad Nauheim, Germany. Carsten.Kuenne@mikrobio.med.uni-giessen.de., Blom J; Center for Biotechnology (CeBiTec)/University of Bielefeld, Bielefeld, Germany. jochen.blom@computational.bio.uni-giessen.de.; Institute for Bioinformatics and Systems Biology, Justus Liebig University Giessen, Giessen, Germany. jochen.blom@computational.bio.uni-giessen.de., Wobser D; Division of Infectious Diseases, Department of Medicine, University Hospital Freiburg, Freiburg, Germany. dominique.wobser@googlemail.com., Sakιnç T; Division of Infectious Diseases, Department of Medicine, University Hospital Freiburg, Freiburg, Germany. tuersak@googlemail.com., Schmidt-Hohagen K; Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Braunschweig, Germany. k.schmidt-hohagen@tu-braunschweig.de., Dabrowski PW; Robert Koch Institute, ZBS 1 Highly Pathogenic Viruses, Centre for Biological Threats and Special Pathogens, Berlin, Germany. dabrowskiw@rki.de., Nitsche A; Robert Koch Institute, ZBS 1 Highly Pathogenic Viruses, Centre for Biological Threats and Special Pathogens, Berlin, Germany. nitschea@rki.de., Hübner J; Division of Infectious Diseases, Department of Medicine, University Hospital Freiburg, Freiburg, Germany. johueb@gmail.com.; Division of Pediatric Infectious Diseases, Hauner Children's Hospital, Ludwig-Maximilians University Munich, Munich, Germany. johueb@gmail.com., Hain T; Functional Genomics of Bacterial Pathogens, Institute for Medical Microbiology, Justus Liebig University Giessen and German Center for Infection Research (DZIF), Partner site Giessen-Marburg-Langen, Campus Giessen, Giessen, Germany. torsten.hain@mikrobio.med.uni-giessen.de., Chakraborty T; Functional Genomics of Bacterial Pathogens, Institute for Medical Microbiology, Justus Liebig University Giessen and German Center for Infection Research (DZIF), Partner site Giessen-Marburg-Langen, Campus Giessen, Giessen, Germany. Trinad.Chakraborty@mikrobio.med.uni-giessen.de., Linke B; Center for Biotechnology (CeBiTec)/University of Bielefeld, Bielefeld, Germany. burkhard.linke@computational.bio.uni-giessen.de.; Institute for Bioinformatics and Systems Biology, Justus Liebig University Giessen, Giessen, Germany. burkhard.linke@computational.bio.uni-giessen.de., Goesmann A; Center for Biotechnology (CeBiTec)/University of Bielefeld, Bielefeld, Germany. Alexander.Goesmann@computational.bio.uni-giessen.de.; Institute for Bioinformatics and Systems Biology, Justus Liebig University Giessen, Giessen, Germany. Alexander.Goesmann@computational.bio.uni-giessen.de., Voget S; Goettingen Genomics Laboratory, Georg August University, Goettingen, Germany. svoget@uni-goettingen.de., Daniel R; Goettingen Genomics Laboratory, Georg August University, Goettingen, Germany. rdaniel@gwdg.de., Schomburg D; Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Braunschweig, Germany. d.schomburg@tu-bs.de., Hauck R; Department of Veterinary Medicine, Institute for Poultry Diseases, Free University Berlin, Berlin, Germany. ruediger.hauck@bvl.bund.de., Hafez HM; Department of Veterinary Medicine, Institute for Poultry Diseases, Free University Berlin, Berlin, Germany. Hafez.Mohamed@fu-berlin.de., Tielen P; Institute for Microbiology, Technische Universität Braunschweig, Braunschweig, Germany. petra.tielen@googlemail.com., Jahn D; Institute for Microbiology, Technische Universität Braunschweig, Braunschweig, Germany. d.jahn@tu-bs.de., Solheim M; Laboratory of Microbial Gene Technology and Food Microbiology, The Norwegian University of Life Sciences, Ås, Norway. margrete.solheim@umb.no., Sadowy E; National Medicines Institute, Warsaw, Poland. ewasadowy@cls.edu.pl., Larsen J; Statens Serum Institute, Copenhagen, Denmark. JRL@ssi.dk., Jensen LB; Division of Microbiology, National Food Institute, Danish Technical University, Copenhagen, Denmark. LJE@food.dtu.dk., Ruiz-Garbajosa P; Department of Microbiology, Hospital Ramon y Cajal, Madrid, Spain. patruizg@gmail.com., Quiñones Pérez D; Instituto de Medicina Tropical Pedro Kourí, Servicio de Bacteriología-Micología, La Habana, Cuba. Dia@ipk.sld.cu., Mikalsen T; Department of Medical Biology, Faculty of Health Sciences, Research Group for Host Microbe Interactions, University of Tromsø, Tromsø, Norway. theresa.mikalsen@uit.no., Bender J; Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode Branch, Burgstr. 37, D-38855, Wernigerode, Germany. benderj@rki.de., Steglich M; Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode Branch, Burgstr. 37, D-38855, Wernigerode, Germany. steglichm@rki.de., Nübel U; Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode Branch, Burgstr. 37, D-38855, Wernigerode, Germany. uln14@dsmz.de.; Leibniz-Institut DSMZ - Deutsche Sammlung von Mikrorganismen und Zellkulturen GmbH, Braunschweig, Germany. uln14@dsmz.de., Witte W; Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode Branch, Burgstr. 37, D-38855, Wernigerode, Germany. wittew@rki.de., Werner G; Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode Branch, Burgstr. 37, D-38855, Wernigerode, Germany. wernerg@rki.de.
Jazyk: angličtina
Zdroj: BMC genomics [BMC Genomics] 2015 Mar 12; Vol. 16, pp. 175. Date of Electronic Publication: 2015 Mar 12.
DOI: 10.1186/s12864-015-1367-x
Abstrakt: Background: Enterococcus faecalis is a multifaceted microorganism known to act as a beneficial intestinal commensal bacterium. It is also a dreaded nosocomial pathogen causing life-threatening infections in hospitalised patients. Isolates of a distinct MLST type ST40 represent the most frequent strain type of this species, distributed worldwide and originating from various sources (animal, human, environmental) and different conditions (colonisation/infection). Since enterococci are known to be highly recombinogenic we determined to analyse the microevolution and niche adaptation of this highly distributed clonal type.
Results: We compared a set of 42 ST40 isolates by assessing key molecular determinants, performing whole genome sequencing (WGS) and a number of phenotypic assays including resistance profiling, formation of biofilm and utilisation of carbon sources. We generated the first circular closed reference genome of an E. faecalis isolate D32 of animal origin and compared it with the genomes of other reference strains. D32 was used as a template for detailed WGS comparisons of high-quality draft genomes of 14 ST40 isolates. Genomic and phylogenetic analyses suggest a high level of similarity regarding the core genome, also demonstrated by similar carbon utilisation patterns. Distribution of known and putative virulence-associated genes did not differentiate between ST40 strains from a commensal and clinical background or an animal or human source. Further analyses of mobile genetic elements (MGE) revealed genomic diversity owed to: (1) a modularly structured pathogenicity island; (2) a site-specifically integrated and previously unknown genomic island of 138 kb in two strains putatively involved in exopolysaccharide synthesis; and (3) isolate-specific plasmid and phage patterns. Moreover, we used different cell-biological and animal experiments to compare the isolate D32 with a closely related ST40 endocarditis isolate whose draft genome sequence was also generated. D32 generally showed a greater capacity of adherence to human cell lines and an increased pathogenic potential in various animal models in combination with an even faster growth in vivo (not in vitro).
Conclusion: Molecular, genomic and phenotypic analysis of representative isolates of a major clone of E. faecalis MLST ST40 revealed new insights into the microbiology of a commensal bacterium which can turn into a conditional pathogen.
Databáze: MEDLINE
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