PMID- 29340898
OWN - NLM
STAT- MEDLINE
DCOM- 20180918
LR  - 20200520
IS  - 1435-4373 (Electronic)
IS  - 0934-9723 (Linking)
VI  - 37
IP  - 5
DP  - 2018 May
TI  - Epidemiological aspects of healthcare-associated infections and microbial 
      genomics.
PG  - 823-831
LID - 10.1007/s10096-017-3170-x [doi]
AB  - Hospital-acquired infections (HAIs) are a cause of continuously increasing 
      morbidity and mortality. Most of these infections are caused by a limited set of 
      bacterial species, which share the capability to efficiently spread from patient 
      to patient and to easily acquire antibiotic resistance determinants. This renders 
      correct and rapid species identification and antibiotic susceptibility testing 
      (AST) important and underscores the relevance of bacterial epidemiological 
      typing. The latter is needed for the sensitive detection and exact tracing of 
      nosocomial spread of these potentially multidrug-resistant microorganisms (MDRO). 
      Many microbial typing technologies have been developed and put to some level of 
      executive practice, but it seems that the continued evolution in methodology has 
      currently reached an apex: there is likely to be scientific and practical 
      consensus on the ultimate typing potential of bacterial whole-genome sequencing 
      (WGS). The possibility to perform pan-genomic nucleotide-to-nucleotide 
      comparisons between strains belonging to a single species and to detect even 
      minute changes in nucleotide order will identify closely related organisms, while 
      upon accumulation of such mutations, independent descend can be assumed. 
      Calibration of difference levels [i.e. number of single nucleotide polymorphisms 
      (SNPs)] into categories of inter-strain relatedness needs to be performed in 
      order to generate robust, portable typing schemes. Here, we will briefly discuss 
      the state of affairs regarding bacterial epidemiology based upon WGS, its 
      relatedness with the nomenclature of former typing approaches and the continuing 
      need for a global typing language.
FAU - Mirande, C
AU  - Mirande C
AD  - Research and Development Microbiology, bioMerieux, 3 Route de Port Michaud, 
      38390, La Balme Les Grottes, France. caroline.mirande@biomerieux.com.
FAU - Bizine, I
AU  - Bizine I
AD  - Research and Development Microbiology, bioMerieux, 3 Route de Port Michaud, 
      38390, La Balme Les Grottes, France.
FAU - Giannetti, A
AU  - Giannetti A
AD  - Research and Development Microbiology, bioMerieux, 3 Route de Port Michaud, 
      38390, La Balme Les Grottes, France.
FAU - Picot, N
AU  - Picot N
AD  - IP and Scientific Watch Department, bioMerieux, Chemin de l'Orme, Marcy l'Etoile, 
      France.
FAU - van Belkum, A
AU  - van Belkum A
AD  - Data Analytics Unit, bioMerieux, 3 Route de Port Michaud, 38390, La Balme Les 
      Grottes, France.
LA  - eng
PT  - Journal Article
PT  - Review
DEP - 20180117
PL  - Germany
TA  - Eur J Clin Microbiol Infect Dis
JT  - European journal of clinical microbiology & infectious diseases : official 
      publication of the European Society of Clinical Microbiology
JID - 8804297
SB  - IM
MH  - Bacteria/classification/genetics
MH  - Bacterial Typing Techniques/methods
MH  - Cross Infection/*epidemiology/*microbiology/prevention & control
MH  - Disease Outbreaks
MH  - Genome, Bacterial
MH  - Humans
MH  - *Metagenome
MH  - *Metagenomics/methods
MH  - Microbiota/*genetics
MH  - Molecular Epidemiology
MH  - Whole Genome Sequencing
EDAT- 2018/01/18 06:00
MHDA- 2018/09/19 06:00
CRDT- 2018/01/18 06:00
PHST- 2017/12/19 00:00 [received]
PHST- 2017/12/19 00:00 [accepted]
PHST- 2018/01/18 06:00 [pubmed]
PHST- 2018/09/19 06:00 [medline]
PHST- 2018/01/18 06:00 [entrez]
AID - 10.1007/s10096-017-3170-x [pii]
AID - 10.1007/s10096-017-3170-x [doi]
PST - ppublish
SO  - Eur J Clin Microbiol Infect Dis. 2018 May;37(5):823-831. doi: 
      10.1007/s10096-017-3170-x. Epub 2018 Jan 17.