Gökdemir Fatma Şeyma, İşeri Özlem Darcansoy, Sharma Abhishek, Achar Premila N, Eyidoğan Füsun
Plant, Soil and Microbial Sciences, Michigan State University, East Lansing, MI 48824, USA.
Department of Molecular Biology and Genetics, Faculty of Science and Letters, Başkent University, Ankara 06790, Turkey.
J Fungi (Basel). 2022 Nov 13;8(11):1195. doi: 10.3390/jof8111195.
Crop output is directly impacted by infections, with fungi as the major plant pathogens, making accurate diagnosis of these threats crucial. Developing technology and multidisciplinary approaches are turning to genomic analyses in addition to traditional culture methods in diagnostics of fungal plant pathogens. The metagenomic next-generation sequencing (mNGS) method is preferred for genotyping identification of organisms, identification at the species level, illumination of metabolic pathways, and determination of microbiota. Moreover, the data obtained so far show that this new approach is promising as an emerging new trend in fungal disease detection. Another approach covered by mNGS technologies, known as metabarcoding, enables use of specific markers specific to a genetic region and allows for genotypic identification by facilitating the sequencing of certain regions. Although the core concept of mNGS remains constant across applications, the specific sequencing methods and bioinformatics tools used to analyze the data differ. In this review, we focus on how mNGS technology, including metabarcoding, is applied for detecting fungal pathogens and its promising developments for the future.
作物产量直接受到感染的影响，真菌是主要的植物病原体，因此准确诊断这些威胁至关重要。除了传统的培养方法外，正在开发的技术和多学科方法还转向基因组分析来诊断真菌性植物病原体。宏基因组下一代测序（mNGS）方法在生物体的基因分型鉴定、物种水平的鉴定、代谢途径的阐明以及微生物群的确定方面具有优势。此外，迄今为止获得的数据表明，这种新方法作为真菌疾病检测的一种新兴趋势很有前景。mNGS技术涵盖的另一种方法称为元条形码技术，它能够使用特定于某一基因区域的特定标记，并通过促进特定区域的测序来进行基因型鉴定。尽管mNGS的核心概念在各种应用中保持不变，但用于分析数据的具体测序方法和生物信息学工具有所不同。在这篇综述中，我们重点关注包括元条形码技术在内的mNGS技术如何应用于检测真菌病原体及其未来的发展前景。
