Skip to main navigation menu Skip to main content Skip to site footer
##common.pageHeaderLogo.altText##

Viewpoint

Vol. 149 No. 0102 (2019)

Bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform

  • Jonas Marschall
DOI
https://doi.org/10.4414/smw.2019.14707
Cite this as:
Swiss Med Wkly. 2019;149:w14707
Published
08.01.2019

References

  1. Egli A, Blanc DS, Greub G, Keller PM, Lazarevic V, Lebrand A, et al. Improving the quality and workflow of bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform. Swiss Med Wkly. 2018;148:w14693. doi:.https://doi.org/10.4414/smw.2018.14693
  2. Wassilew N, Seth-Smith HM, Rolli E, Fietze Y, Casanova C, Führer U, et al. Outbreak of vancomycin-resistant Enterococcus faecium clone ST796, Switzerland, December 2017 to April 2018. Euro Surveill. 2018;23(29). doi:.https://doi.org/10.2807/1560-7917.ES.2018.23.29.1800351
  3. Sommerstein R, Führer U, Lo Priore E, Casanova C, Meinel DM, Seth-Smith HM, et al.; On Behalf Of Anresis; On Behalf Of Swissnoso. Burkholderia stabilis outbreak associated with contaminated commercially-available washing gloves, Switzerland, May 2015 to August 2016. Euro Surveill. 2017;22(49). doi:.https://doi.org/10.2807/1560-7917.ES.2017.22.49.17-00213
  4. Tang P, Croxen MA, Hasan MR, Hsiao WW, Hoang LM. Infection control in the new age of genomic epidemiology. Am J Infect Control. 2017;45(2):170–9. doi:.https://doi.org/10.1016/j.ajic.2016.05.015
  5. Quainoo S, Coolen JPM, van Hijum SAFT, Huynen MA, Melchers WJG, van Schaik W, et al. Whole-Genome Sequencing of Bacterial Pathogens: the Future of Nosocomial Outbreak Analysis. Clin Microbiol Rev. 2017;30(4):1015–63. doi:.https://doi.org/10.1128/CMR.00016-17
  6. Popovich KJ, Snitkin ES. Whole Genome Sequencing-Implications for Infection Prevention and Outbreak Investigations. Curr Infect Dis Rep. 2017;19(4):15. doi:.https://doi.org/10.1007/s11908-017-0570-0
  7. Balloux F, Brønstad Brynildsrud O, van Dorp L, Shaw LP, Chen H, Harris KA, et al. From Theory to Practice: Translating Whole-Genome Sequencing (WGS) into the Clinic. Trends Microbiol. 2018;26(12):1035–48; Epub ahead of print. doi:.https://doi.org/10.1016/j.tim.2018.08.004
  8. Roetzer A, Diel R, Kohl TA, Rückert C, Nübel U, Blom J, et al. Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study. PLoS Med. 2013;10(2):e1001387. doi:.https://doi.org/10.1371/journal.pmed.1001387
  9. Dominguez SR, Anderson LJ, Kotter CV, Littlehorn CA, Arms LE, Dowell E, et al. Comparison of Whole-Genome Sequencing and Molecular-Epidemiological Techniques for Clostridium difficile Strain Typing. J Pediatric Infect Dis Soc. 2016;5(3):329–32. doi:.https://doi.org/10.1093/jpids/piv020
  10. Azarian T, Cook RL, Johnson JA, Guzman N, McCarter YS, Gomez N, et al. Whole-genome sequencing for outbreak investigations of methicillin-resistant Staphylococcus aureus in the neonatal intensive care unit: time for routine practice? Infect Control Hosp Epidemiol. 2015;36(7):777–85. doi:.https://doi.org/10.1017/ice.2015.73
  11. Lytsy B, Engstrand L, Gustafsson Å, Kaden R. Time to review the gold standard for genotyping vancomycin-resistant enterococci in epidemiology: Comparing whole-genome sequencing with PFGE and MLST in three suspected outbreaks in Sweden during 2013-2015. Infect Genet Evol. 2017;54:74–80. doi:.https://doi.org/10.1016/j.meegid.2017.06.010
  12. Kozyreva VK, Crandall J, Sabol A, Poe A, Zhang P, Concepción-Acevedo J, et al. Laboratory Investigation of Salmonella enterica serovar Poona Outbreak in California: Comparison of Pulsed-Field Gel Electrophoresis (PFGE) and Whole Genome Sequencing (WGS) Results. PLoS Curr. 2016;8:ecurrents.outbreaks.1bb3e36e74bd5779bc43ac3a8dae52e6. doi:.https://doi.org/10.1371/currents.outbreaks.1bb3e36e74bd5779bc43ac3a8dae52e6
  13. Bergin SM, Periaswamy B, Barkham T, Chua HC, Mok YM, Fung DSS, et al. An Outbreak of Streptococcus pyogenes in a Mental Health Facility: Advantage of Well-Timed Whole-Genome Sequencing Over emm Typing. Infect Control Hosp Epidemiol. 2018;39(7):852–60. doi:.https://doi.org/10.1017/ice.2018.101
  14. Meinel DM, Heinzinger S, Eberle U, Ackermann N, Schönberger K, Sing A. Whole genome sequencing identifies influenza A H3N2 transmission and offers superior resolution to classical typing methods. Infection. 2018;46(1):69–76. doi:.https://doi.org/10.1007/s15010-017-1091-3

Most read articles by the same author(s)