Taiwan Epidemiology Bulletin


Taiwan Epidemiology Bulletin

Vol.35 No.20

PublishTime:2019/10/22
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Original Article

Application of Next-Generation Sequencing in Public Health—Analysis of NDM-5-Carrying Bacteria, 2014–2017

DOI: 10.6525/TEB.201910_35(20).0001

Yu-Chi Lin1, Hsin-Yi Wei2, Hsiao-Jung Chen1, Jung-Jung Mu1*

2019 Vol.35 No.20

Correspondence Author: Jung-Jung Mu1*

  • 1Center for Diagnostics and Vaccine Development, Centers for Disease Control, Ministry of Health and Welfare, Taiwan
  • 2Taipei Regional Center, Centers for Disease Control, Ministry of Health and Welfare, Taiwan

Abstract:

        Next-Generation Sequencing(NGS) has the advantage of high throughput sequence capacity which provides information on unlimited pathogen targets, resistance genes, as well as outbreak surveillance. In this study, we applied NGS for epidemiological surveillance on the bacterial antimicrobial resistance. From 2014 to 2017, 8 carbapenem-resistant Enterobacteriaceae(CRE)isolates carrying NDM-5 were identified and originated from 2 hospitals in northern Taiwan (HH and TH) and 1 from a hospital in southern Taiwan (CH), respectively. Among them, 5 isolates from HH hospital had high similarity in PFGE phylogenetic analysis, similar plasmid replicon type and size and identical NDM-5-containing contigs. Taken together, these 5 isolates were considered as epidemiologically related strains. Two isolates from TH hospital had lower similarity in PFGE phylogenetic analysis, differences in plasmid types and size. However, the NDM-5-containing contigs were identical, presumably due to the insertion sequence IS26 which is responsible to transmission of the antimicrobial-resistance genes. As of the isolate from CH hospital, the sequence of its NDM-5-containing plasmid was similar tothe internationally epidemic NDM-5 plasmid, indicating that the plasmid might be imported. This study shares the vision on the use of NGS to provide the CRE antimicrobial-resistance information and benefit the epidemiological surveillance in the future. We recommended that CRE in Taiwan should be monitor continuously to follow the distribution and trends of antimicrobial resistant bacteria.

Keywords:Next-generation sequencing, NGS, CRE, NDM-5, IS26

Original Article

Evaluation of Immunochromatographic Rapid Test for Norovirus

DOI: 10.6525/TEB.201910_35(20).0002

Tsung-Ting Hsieh, Shu-Chun Chiu, Wan-Ting Liao, Chih-Tung Lu, Ting-Yo Kuo, Jih-Hui Lin*

2019 Vol.35 No.20

Correspondence Author:  Jih-Hui Lin*

  • Center for Diagnostics and Vaccine Development, Centers for Disease Control, Ministry of Health and Welfare, Taiwan 

Abstract:

        Noroviruses are the major viral pathogen in domestic diarrhea outbreaks. About 40% of the diarrhea outbreaks were attributed to norovirus infection. Because of its high infectiousness, a rapid and accurate detection method is key to the control of norovirus outbreaks. In this study, we randomly selected 101 fecal samples from21 diarrhea outbreaks from January to June 2018 to evaluate the sensitivity and specificity of RIDA® QUICK Norovirus test. The sensitivity of the rapid test was 67.2%, and the specificity was100%. Positive test results confirm the existence of norovirus in fecal samples, but negative test results still needs to be further confirmed by the real-time RT-PCR as the gold standard. Therefore, rapid tests provide a quick preliminary screening, but still cannot replace real-time RT-PCR in laboratories. In order to avoid false negative results that lead to the expansion of the epidemic, submitting the specimens to the laboratory for further confirmation as soon as possible is still necessary.

Keywords:Norovirus, rapid test reagent, real-time RT-PCR

Disease Surveillance

week 40–41 (Sep. 29–Oct. 12, 2019)

DOI: 10.6525/TEB.201910_35(20).0003

Epidemic Intelligence Center, Centers for Disease Control, Ministry of Health and Welfare, Taiwan

2019 Vol.35 No.20

HISTORICAL EPIDEMIOLOGY ARTICLES