RT Journal Article
SR Electronic
T1 Identification of pathogens in culture-negative infective endocarditis cases by metagenomic analysis
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 336388
DO 10.1101/336388
A1 Jun Cheng
A1 Huan Hu
A1 Yue Kang
A1 Weizhi Chen
A1 Wei Fang
A1 Kaijuan Wang
A1 Qian Zhang
A1 Aisi Fu
A1 Shuilian Zhou
A1 Chen Cheng
A1 Qingqing Cao
A1 FeiYan Wang
A1 Shela Lee
A1 Zhou Zhou
YR 2018
UL http://biorxiv.org/content/early/2018/06/02/336388.abstract
AB Pathogens identification is critical for the proper diagnosis and precise treatment of infective endocarditis. Although blood and valve cultures are the gold standard for IE pathogens detection, many cases are culture-negative, especially in patients who had received long-term antibiotic treatment, and precise diagnosis has therefore become a major challenge in the clinic. Metagenomic sequencing can provide both information on the pathogenic strain and the antibiotic susceptibility profile of patient samples without culturing, offering a powerful method to deal with culture-negative cases. In this work, we assessed the feasibility of a metagenomic approach to detect the causative pathogens in resected valves from IE patients.Using our in-house developed bioinformatics pipeline, we analyzed the sequencing results generated from both next-generation sequencing and Oxford Nanopore Technologies MinION nanopore sequencing for the direct identification of pathogens from the resected valves of seven clinically culture-negative IE patients according to the modified Duke criteria. Moreover, we were able to simultaneously characterize respective antimicrobial resistance features. This provides clinicians with valuable information to diagnose and treat IE patients after valve replacement surgery.