Instituto de Microbiologia, Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, Lisbon, Portugal.
Euro Surveill. 2013 Jan 24;18(4):20382. doi: 10.2807/ese.18.04.20382-en.
Advances in typing methodologies have been the driving force in the field of molecular epidemiology of pathogens. The development of molecular methodologies, and more recently of DNA sequencing methods to complement and improve phenotypic identification methods, was accompanied by the generation of large amounts of data and the need to develop ways of storing and analysing them. Simultaneously, advances in computing allowed the development of specialised algorithms for image analysis, data sharing and integration, and for mining the ever larger amounts of accumulated data. In this review, we will discuss how bioinformatics accompanied the changes in bacterial molecular epidemiology. We will discuss the benefits for public health of specialised online typing databases and algorithms allowing for real-time data analysis and visualisation. The impact of the new and disruptive next-generation sequencing methodologies will be evaluated, and we will look ahead into these novel challenges.
在病原体分子流行病学领域，打字方法的进步一直是推动力量。分子方法的发展，以及最近 DNA 测序方法的发展，补充和改进了表型鉴定方法，同时也产生了大量的数据，需要开发存储和分析这些数据的方法。与此同时，计算技术的进步允许开发专门的算法用于图像分析、数据共享和集成，以及挖掘不断增加的大量累积数据。在这篇综述中，我们将讨论生物信息学如何伴随细菌分子流行病学的变化而发展。我们将讨论专门的在线分型数据库和算法为实时数据分析和可视化带来的公共卫生效益。我们将评估新的、具有颠覆性的下一代测序方法的影响，并展望这些新的挑战。
