Imperial College London
Alternate

Professor Brian G Spratt FRS

Faculty of Medicine, School of Public Health

Emeritus Professor
 
 
 
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Contact

 

+44 (0)20 7594 3625b.spratt

 
 
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Location

 

G30Medical SchoolSt Mary's Campus

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Summary

 

Publications

Citation

BibTex format

@article{Ahmed:2011:10.1371/journal.pntd.0001374,
author = {Ahmed, A and Thaipadungpanit, J and Boonsilp, S and Wuthiekanun, V and Nalam, K and Spratt, BG and Aanensen, DM and Smythe, LD and Ahmed, N and Feil, EJ and Hartskeerl, RA and Peacock, SJ},
doi = {10.1371/journal.pntd.0001374},
journal = {PLOS Neglected Tropical Diseases},
title = {Comparison of Two Multilocus Sequence Based Genotyping Schemes for Leptospira Species},
url = {http://dx.doi.org/10.1371/journal.pntd.0001374},
volume = {5},
year = {2011}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - Background: Several sequence based genotyping schemes have been developed for Leptospira spp. The objective of thisstudy was to genotype a collection of clinical and reference isolates using the two most commonly used schemes andcompare and contrast the results.Methods and Findings: A total of 48 isolates consisting of L. interrogans (n = 40) and L. kirschneri (n = 8) were typed by the 7locus MLST scheme described by Thaipadungpanit et al., and the 6 locus genotyping scheme described by Ahmed et al.,(termed 7L and 6L, respectively). Two L. interrogans isolates were not typed using 6L because of a deletion of threenucleotides in lipL32. The remaining 46 isolates were resolved into 21 sequence types (STs) by 7L, and 30 genotypes by 6L.Overall nucleotide diversity (based on concatenated sequence) was 3.6% and 2.3% for 7L and 6L, respectively. The D value(discriminatory ability) of 7L and 6L were comparable, i.e. 92.0 (95% CI 87.5–96.5) vs. 93.5 (95% CI 88.6–98.4). The dN/dSratios calculated for each locus indicated that none were under positive selection. Neighbor joining trees werereconstructed based on the concatenated sequences for each scheme. Both trees showed two distinct groupscorresponding to L. interrogans and L. kirschneri, and both identified two clones containing 10 and 7 clinical isolates,respectively. There were six instances in which 6L split single STs as defined by 7L into closely related clusters. We noted twodiscrepancies between the trees in which the genetic relatedness between two pairs of strains were more closely related by7L than by 6L.Conclusions: This genetic analysis indicates that the two schemes are comparable. We discuss their practical advantagesand disadvantages.
AU  - Ahmed,A
AU  - Thaipadungpanit,J
AU  - Boonsilp,S
AU  - Wuthiekanun,V
AU  - Nalam,K
AU  - Spratt,BG
AU  - Aanensen,DM
AU  - Smythe,LD
AU  - Ahmed,N
AU  - Feil,EJ
AU  - Hartskeerl,RA
AU  - Peacock,SJ
DO  - 10.1371/journal.pntd.0001374
PY  - 2011///
SN  - 1935-2735
TI  - Comparison of Two Multilocus Sequence Based Genotyping Schemes for Leptospira Species
T2  - PLOS Neglected Tropical Diseases
UR  - http://dx.doi.org/10.1371/journal.pntd.0001374
UR  - http://hdl.handle.net/10044/1/30002
VL  - 5
ER  -
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