Whole-genome sequencing as standard practice for the analysis of clonality in outbreaks of meticillin-resistant Staphylococcus aureus in a paediatric setting

Journal of Hospital Infection

Volumn 93, Issue 4, 2016, Pages 375-381

  Ugolotti, E ^a   Larghero, P ^a   Vanni, I ^a,b   Bandettini, R ^a   Tripodi, G ^a   Melioli, G ^a   Di Marco, E ^a   Raso, A ^a   Biassoni, R ^a  

^a G GASLINI INSTITUTE   (Italy)

^b UNIVERSITY OF GENOA   (Italy)

Author keywords

Hospital associated infections; MRSA; Paediatric hospital outbreak; Whole genome sequencing

Indexed keywords

GENOMIC DNA;

ALLELE; ARTICLE; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIUM EXAMINATION; BACTERIUM ISOLATE; CLINICAL PRACTICE; CLONAL VARIATION; CONTROLLED STUDY; EPIDEMIC; GENE LOCUS; GENE SEQUENCE; GENETIC DIFFERENCE; GENETIC PROCEDURES; GENOTYPE; HUMAN; METHICILLIN RESISTANT STAPHYLOCOCCUS AUREUS; MULTILOCUS SEQUENCE TYPING; NONHUMAN; PEDIATRICS; PHENOTYPE; PHYLOGENY; PULSED FIELD GEL ELECTROPHORESIS; WHOLE GENOME SEQUENCING; CLASSIFICATION; CROSS INFECTION; DISEASE TRANSMISSION; DNA SEQUENCE; EVALUATION STUDY; GENETICS; HOSPITAL; INFANT; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR EPIDEMIOLOGY; MOLECULAR TYPING; NEWBORN; PROCEDURES; STAPHYLOCOCCAL INFECTIONS; TRANSMISSION;

CROSS INFECTION; DISEASE OUTBREAKS; DISEASE TRANSMISSION, INFECTIOUS; GENOME, BACTERIAL; HOSPITALS, PEDIATRIC; HUMANS; INFANT; INFANT, NEWBORN; METHICILLIN-RESISTANT STAPHYLOCOCCUS AUREUS; MOLECULAR EPIDEMIOLOGY; MOLECULAR TYPING; SEQUENCE ANALYSIS, DNA; STAPHYLOCOCCAL INFECTIONS;

EID: 84966714169     PISSN: 01956701     EISSN: 15322939     Source Type: Journal    
DOI: 10.1016/j.jhin.2016.04.003     Document Type: Article

References (16)

1. 1 Harris, S.R., Feil, E.J., Holden, M.T.G., et al. Evolution of MRSA during hospital transmission and intercontinental spread. Science 22 (2010), 469–674.
2. 2 Deurenberg, R.H., Stobberigh, E.E., The evolution of Staphylococcus aureus. Infect Genet Evol 8 (2008), 747–763.
3. 3 Moellering, R.C. Jr., MRSA: the first half century. J Antimicrob Chemother 67 (2012), 4–11.
4. 4 Campanile, F., Bongiorno, D., Perz, M., et al. Epidemiology of Staphylococcus aureus in Italy: first nationwide survey, 2012. J Glob Antimicrob Res 3 (2015), 247–254.
5. 5 Frénay, H.M., Bunschoten, A.E., Schouls, L.M., et al. Molecular typing of methicillin-resistant Staphylococcus aureus on the basis of protein A gene polymorphism. Eur J Clin Microbiol Infect Dis 15 (1996), 60–64.
6. 6 Enright, M.C., Day, N.P., Davies, C.E., Peacock, S.J., Spratt, B.G., Multilocus sequence typing for characterization of methicillin-resistant and methicillin-susceptible clones of Staphylococcus aureus. J Clin Microbiol 38 (2000), 1008–1015.
7. 7 Ugolotti, E., Bandettini, R., Marchese, A., et al. Molecular characterization of hospital-acquires methicillin resistant Staphylococcus aureus strains in pediatric outbreaks using variable tandem repeat analysis with spa and Clfb-typing. Diagn Microbiol Infect Dis 69 (2011), 213–217.
8. 8 Stefani, S., Chung, D.R., Lindsay, J.A., et al. Meticillin-resistant Staphylococcus aureus (MRSA): global epidemiology and harmonisation of typing methods. Agents Chemother 39 (2012), 273–282.
9. 9 Köser, C.U., Holden, M.T., Ellington, M.J., et al. Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak. N Engl J Med 366 (2012), 2267–2275.
10. 10 Harris, S.R., Cartwright, E.J., Török, M.E., et al. Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study. Lancet Infect Dis 13 (2013), 130–136.
11. 11 Sabat, A.J., Budimir, A., Nashev, D., et al. Overview of molecular typing methods for outbreak detection and epidemiological surveillance. Euro Surveill, 18, 2013 pii=20380.
12. 12 Clinical and Laboratory Standards Institute, Performance standard for antimicrobial susceptibility testing: twenty-second informational supplement (M100–S22). 2012, CLSI, Wayne, PA.
13. 13 Chevreux, B., Wetter, T., Suhai, S., Genome sequence assembly using trace signals and additional sequence information. Comput Sci Biology Proc Germ Conf Bioinform 99 (1999), 45–56.
14. 14 Bankevich, A., Nurk, S., Antipov, D., et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19 (2012), 455–477.
15. 15 Bentley, S.D., Parkhill, J., Genomic perspectives on the evolution and spread of bacterial pathogens. Proc R Soc B, 282, 2015, 1821.
16. 16 Struelens, M.J., Brisse, S., From molecular to genomic epidemiology: transforming surveillance and control of infectious diseases. Euro Surveill, 18, 2013 pii=20386.