Temporal Changes in Patient-Matched Staphylococcus epidermidis Isolates from Infections:towards Defining a 'True' Persistent Infection
Standard
Temporal Changes in Patient-Matched Staphylococcus epidermidis Isolates from Infections:towards Defining a 'True' Persistent Infection. / Harris, Llinos G; Bodger, Owen; Post, Virginia; Mack, Dietrich; Morgenstern, Mario; Rohde, Holger; Moriarty, T Fintan; Wilkinson, Thomas S.
in: MICROORGANISMS, Jahrgang 8, Nr. 10, 30.09.2020.Publikationen: SCORING: Beitrag in Fachzeitschrift/Zeitung › SCORING: Zeitschriftenaufsatz › Forschung › Begutachtung
Harvard
APA
Vancouver
Bibtex
}
RIS
TY - JOUR
T1 - Temporal Changes in Patient-Matched Staphylococcus epidermidis Isolates from Infections:towards Defining a 'True' Persistent Infection
AU - Harris, Llinos G
AU - Bodger, Owen
AU - Post, Virginia
AU - Mack, Dietrich
AU - Morgenstern, Mario
AU - Rohde, Holger
AU - Moriarty, T Fintan
AU - Wilkinson, Thomas S
PY - 2020/9/30
Y1 - 2020/9/30
N2 - Staphylococcus epidermidis is found naturally on the skin but is a common cause of persistent orthopaedic device-related infections (ODRIs). This study used a pan-genome and gene-by-gene approach to analyse the clonality of whole genome sequences (WGS) of 115 S. epidermidis isolates from 55 patients with persistent ODRIs. Analysis of the 522 gene core genome revealed that the isolates clustered into three clades, and MLST analysis showed that 83% of the isolates belonged to clonal complex 2 (CC2). Analysis also found 13 isolate pairs had different MLST types and less than 70% similarity within the genes; hence, these were defined as re-infection by a different S. epidermidis strain. Comparison of allelic diversity in the remaining 102 isolates (49 patients) revealed that 6 patients had microevolved infections (>7 allele differences), and only 37 patients (77 isolates) had a 'true' persistent infection. Analysis of the core genomes of isolate pairs from 37 patients found 110/841 genes had variations; mainly in metabolism associated genes. The accessory genome consisted of 2936 genes; with an average size of 1515 genes. To conclude, this study demonstrates the advantage of using WGS for identifying the accuracy of a persistent infection diagnosis. Hence, persistent infections can be defined as 'true' persistent infections if the core genome of paired isolates has ≤7 allele differences; microevolved persistent infection if the paired isolates have >7 allele differences but same MLST type; and polyclonal if they are the same species but a different MLST type.
AB - Staphylococcus epidermidis is found naturally on the skin but is a common cause of persistent orthopaedic device-related infections (ODRIs). This study used a pan-genome and gene-by-gene approach to analyse the clonality of whole genome sequences (WGS) of 115 S. epidermidis isolates from 55 patients with persistent ODRIs. Analysis of the 522 gene core genome revealed that the isolates clustered into three clades, and MLST analysis showed that 83% of the isolates belonged to clonal complex 2 (CC2). Analysis also found 13 isolate pairs had different MLST types and less than 70% similarity within the genes; hence, these were defined as re-infection by a different S. epidermidis strain. Comparison of allelic diversity in the remaining 102 isolates (49 patients) revealed that 6 patients had microevolved infections (>7 allele differences), and only 37 patients (77 isolates) had a 'true' persistent infection. Analysis of the core genomes of isolate pairs from 37 patients found 110/841 genes had variations; mainly in metabolism associated genes. The accessory genome consisted of 2936 genes; with an average size of 1515 genes. To conclude, this study demonstrates the advantage of using WGS for identifying the accuracy of a persistent infection diagnosis. Hence, persistent infections can be defined as 'true' persistent infections if the core genome of paired isolates has ≤7 allele differences; microevolved persistent infection if the paired isolates have >7 allele differences but same MLST type; and polyclonal if they are the same species but a different MLST type.
U2 - 10.3390/microorganisms8101508
DO - 10.3390/microorganisms8101508
M3 - SCORING: Journal article
C2 - 33007861
VL - 8
JO - MICROORGANISMS
JF - MICROORGANISMS
SN - 2076-2607
IS - 10
ER -