Draft genome sequences of concurrent Escherichia coli blood and fecal isolates from a patient with bacteremia and diarrhea belie BioFire-based detection of fecal enteropathogenic E. coli.
Draft genome sequences of concurrent Escherichia coli blood and fecal isolates from a patient with bacteremia and diarrhea belie BioFire-based detection of fecal enteropathogenic E. coli.
复制标题
从患有菌血症和腹泻的患者身上同时分离出的大肠杆菌血液和粪便的基因组序列草图与基于 BioFire 的粪便肠病性大肠杆菌检测不符。
DOI：
10.1093/femspd/ftaa058
复制
发表时间：
2020
影响因子：
3.3
通讯作者：
Donnenberg,MichaelS
中科院分区：
文献类型：
--
作者：
Singh,PradipKumar;Johnston,BrianD;Johnson,JamesR;Donnenberg,MichaelS
BioFire FilmArray® Gastrointestinal panel是一种多重PCR检测试剂盒，广泛用于直接从粪便标本中确定传染性胃肠炎的病原学。最近，临床微生物实验室报告了一名腹泻和菌血症成人患者的粪便肠致病性大肠杆菌（EPEC）的BioFire阳性结果。由于EPEC很少感染成人，很少引起菌血症，我们分离粪便E。大肠杆菌鉴定了病人的血液和粪便。大肠杆菌分离株。使用多种方法组合的基因组测序草图表明，血液和粪便菌株几乎相同，来自序列类型963（EPEC组D），并且既不表现出EPEC的毒力基因特征，也不表现出肠外致病性E。大肠杆菌（ExPEC），也不是经典的EPEC相关表型。这些发现支持患者菌血症的肠道来源，但排除EPEC作为致病微生物，并表明复杂样本的多重PCR检测结果可能具有误导性，当与临床信息不一致时应谨慎解释。菌株MVAST 5574和MVAST 5635基因组的BioProject登录号分别为PRJNA 611789和PRJNA 611804。
The BioFire FilmArray® Gastrointestinal panel is a multiplex PCR assay widely used to determine the etiology of infectious gastroenteritis directly from stool specimens. Recently a positive BioFire result for fecal enteropathogenicEscherichia coli(EPEC) was reported by a clinical microbiology laboratory for an adult patient with diarrhea and bacteremia. Since EPEC infrequently infects adults and rarely causes bacteremia, we isolated fecalE. coliand characterized the patient's blood and fecalE. coliisolates. Draft genome sequencing using a combination of methods indicated that the blood and fecal strains are virtually identical, are from sequence type 963 (phylogroup D) and exhibit neither the virulence genes characteristic of EPEC and extraintestinal pathogenicE. coli(ExPEC) nor classic EPEC-associated phenotypes. These findings support a gut source for the patient's bacteremia but exclude EPEC as the causative organism, and suggest that results of multiplex PCR assays from complex samples can be misleading, and should be interpreted with caution when they are discordant with clinical information. BioProject accession numbers for strains MVAST5574 and MVAST5635 genomes are PRJNA611789 and PRJNA611804, respectively.