https://scholars.lib.ntu.edu.tw/handle/123456789/630421
標題: | Comparison of conventional molecular and whole-genome sequencing methods for differentiating salmonella enterica serovar schwarzengrund isolates obtained from food and animal sources | 作者: | Li, I. Chen Wu, Rayean Hu, Chung Wen Wu, Keh Ming Chen, Zeng Weng CHUNG-HSI CHOU |
關鍵字: | CRISPR; MLST; PFGE; Salmonella; Subtyping; WGS | 公開日期: | 1-十月-2021 | 出版社: | MDPI | 卷: | 9 | 期: | 10 | 來源出版物: | Microorganisms | 摘要: | Over the last decade, Salmonella enterica serovar Schwarzengrund has become more prev-alent in Asia, Europe, and the US with the simultaneous emergence of multidrug-resistant isolates. As these pathogens are responsible for many sporadic illnesses and chronic complications, as well as outbreaks over many countries, improved surveillance is urgently needed. For 20 years, pulsed-field gel electrophoresis (PFGE) has been the gold standard for determining bacterial relatedness by targeting genome-wide restriction enzyme polymorphisms. Despite its utility, recent studies have reported that PFGE results correlate poorly with that of closely related outbreak strains and clonally dominant endemic strains. Due to these concerns, alternative amplification-based molecular methods for bacterial strain typing have been developed, including clustered regular interspaced short palindromic repeats (CRISPR) and multilocus sequence typing (MLST). Furthermore, as the cost of sequencing continues to decrease, whole genome sequencing (WGS) is poised to replace other molecular strain typing methods. In this study, we assessed the discriminatory power of PFGE, CRISPR, MLST, and WGS methods to differentiate between 23 epidemiologically unrelated S. en-terica serovar Schwarzengrund isolates collected over an 18-year period from distinct locations in Taiwan. The discriminatory index (DI) of each method for different isolates was calculated, resulting in values between 0 (not discriminatory) and 1 (highly discriminatory). Our results showed that WGS has the greatest resolution (DI = 0.982) compared to PFGE (DI = 0.938), CRISPR (DI = 0.906), and MLST (DI = 0.463) methods. In conclusion, the WGS typing approach was shown to be the most sensitive for S. enterica serovar Schwarzengrund fingerprinting. |
URI: | https://www.scopus.com/inward/record.uri?eid=2-s2.0-85115851568&doi=10.3390%2fmicroorganisms9102046&partnerID=40&md5=989d6cd2cc3a1f64de36a3789036cfdb https://scholars.lib.ntu.edu.tw/handle/123456789/630421 |
ISSN: | 2076-2607 | DOI: | 10.3390/microorganisms9102046 |
顯示於: | 獸醫學系 |
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