PMID- 23678062
OWN - NLM
STAT- MEDLINE
DCOM- 20131216
LR  - 20240420
IS  - 1098-660X (Electronic)
IS  - 0095-1137 (Print)
IS  - 0095-1137 (Linking)
VI  - 51
IP  - 7
DP  - 2013 Jul
TI  - Subtyping of Salmonella enterica serovar Newport outbreak isolates by 
      CRISPR-MVLST and determination of the relationship between CRISPR-MVLST and PFGE 
      results.
PG  - 2328-36
LID - 10.1128/JCM.00608-13 [doi]
AB  - Salmonella enterica subsp. enterica serovar Newport (S. Newport) is the third 
      most prevalent cause of food-borne salmonellosis. Rapid, efficient, and accurate 
      methods for identification are required to track specific strains of S. Newport 
      during outbreaks. By exploiting the hypervariable nature of virulence genes and 
      clustered regularly interspaced short palindromic repeats (CRISPRs), we 
      previously developed a sequence-based subtyping approach, designated 
      CRISPR-multi-virulence-locus sequence typing (CRISPR-MVLST). To demonstrate the 
      applicability of this approach, we analyzed a broad set of S. Newport isolates 
      collected over a 5-year period by using CRISPR-MVLST and pulsed-field gel 
      electrophoresis (PFGE). Among 84 isolates, we defined 38 S. Newport sequence 
      types (NSTs), all of which were novel compared to our previous analyses, and 62 
      different PFGE patterns. Our data suggest that both subtyping approaches have 
      high discriminatory abilities (>0.95) with a potential for clustering cases with 
      common exposures. Importantly, we found that isolates from closely related NSTs 
      were often similar by PFGE profile as well, further corroborating the 
      applicability of CRISPR-MVLST. In the first full application of CRISPR-MVLST, we 
      analyzed isolates from a recent S. Newport outbreak. In this blinded study, we 
      confirmed the utility of CRISPR-MVLST and were able to distinguish the 10 
      outbreak isolates, as defined by PFGE and epidemiological data, from a collection 
      of 20 S. Newport isolates. Together, our data show that CRISPR-MVLST could be a 
      complementary approach to PFGE subtyping for S. Newport.
FAU - Shariat, Nikki
AU  - Shariat N
AD  - Department of Food Science, Pennsylvania State University, University Park, 
      Pennsylvania, USA.
FAU - Kirchner, Margaret K
AU  - Kirchner MK
FAU - Sandt, Carol H
AU  - Sandt CH
FAU - Trees, Eija
AU  - Trees E
FAU - Barrangou, Rodolphe
AU  - Barrangou R
FAU - Dudley, Edward G
AU  - Dudley EG
LA  - eng
SI  - GENBANK/KC993008
SI  - GENBANK/KC993009
SI  - GENBANK/KC993010
SI  - GENBANK/KC993011
SI  - GENBANK/KC993012
SI  - GENBANK/KC993013
SI  - GENBANK/KC993014
SI  - GENBANK/KC993015
SI  - GENBANK/KC993016
SI  - GENBANK/KC993017
SI  - GENBANK/KC993018
SI  - GENBANK/KC993019
SI  - GENBANK/KC993020
SI  - GENBANK/KC993021
SI  - GENBANK/KC993022
SI  - GENBANK/KC993023
SI  - GENBANK/KC993024
SI  - GENBANK/KC993025
SI  - GENBANK/KC993026
SI  - GENBANK/KC993027
SI  - GENBANK/KC993028
SI  - GENBANK/KC993029
SI  - GENBANK/KC993030
SI  - GENBANK/KC993031
SI  - GENBANK/KC993032
SI  - GENBANK/KC993033
SI  - GENBANK/KC993034
SI  - GENBANK/KC993035
SI  - GENBANK/KC993036
SI  - GENBANK/KC993037
SI  - GENBANK/KC993038
SI  - GENBANK/KC993039
SI  - GENBANK/KC993040
SI  - GENBANK/KC993041
SI  - GENBANK/KC993042
SI  - GENBANK/KC993043
SI  - GENBANK/KC993044
SI  - GENBANK/KC993045
SI  - GENBANK/KC993046
SI  - GENBANK/KC993047
SI  - GENBANK/KC993048
SI  - GENBANK/KC993049
SI  - GENBANK/KC993050
SI  - GENBANK/KC993051
SI  - GENBANK/KC993052
SI  - GENBANK/KC993053
SI  - GENBANK/KC993054
SI  - GENBANK/KC993055
SI  - GENBANK/KC993056
SI  - GENBANK/KC993057
SI  - GENBANK/KC993058
SI  - GENBANK/KC993059
SI  - GENBANK/KC993060
SI  - GENBANK/KC993061
SI  - GENBANK/KC993062
SI  - GENBANK/KC993063
SI  - GENBANK/KC993064
SI  - GENBANK/KC993065
SI  - GENBANK/KC993066
SI  - GENBANK/KC993067
SI  - GENBANK/KC993068
SI  - GENBANK/KC993069
SI  - GENBANK/KC993070
SI  - GENBANK/KC993071
PT  - Comparative Study
PT  - Evaluation Study
PT  - Journal Article
PT  - Research Support, U.S. Gov't, Non-P.H.S.
DEP - 20130515
PL  - United States
TA  - J Clin Microbiol
JT  - Journal of clinical microbiology
JID - 7505564
RN  - 0 (DNA, Bacterial)
SB  - IM
MH  - Cluster Analysis
MH  - DNA Fingerprinting/*methods
MH  - DNA, Bacterial/chemistry/genetics
MH  - Electrophoresis, Gel, Pulsed-Field/*methods
MH  - Genotype
MH  - Humans
MH  - Molecular Epidemiology/methods
MH  - Molecular Sequence Data
MH  - Multilocus Sequence Typing/*methods
MH  - Salmonella enterica/*classification/*genetics
PMC - PMC3697709
EDAT- 2013/05/17 06:00
MHDA- 2013/12/18 06:00
PMCR- 2014/01/01
CRDT- 2013/05/17 06:00
PHST- 2013/05/17 06:00 [entrez]
PHST- 2013/05/17 06:00 [pubmed]
PHST- 2013/12/18 06:00 [medline]
PHST- 2014/01/01 00:00 [pmc-release]
AID - JCM.00608-13 [pii]
AID - 00608-13 [pii]
AID - 10.1128/JCM.00608-13 [doi]
PST - ppublish
SO  - J Clin Microbiol. 2013 Jul;51(7):2328-36. doi: 10.1128/JCM.00608-13. Epub 2013 
      May 15.