Next-Generation Sequencing in the Mycology Lab

被引:32
作者
Zoll J. [1 ]
Snelders E. [2 ]
Verweij P.E. [1 ]
Melchers W.J.G. [1 ]
机构
[1] Department of Medical Microbiology, Radboud University Medical Centre, Box 9101, Nijmegen
[2] Institut Pasteur, Unité de Mycologie Moléculaire, Paris
关键词
Clinical mycology lab issues; Mycobiome; Next-generation sequencing; Resistance; Review; Whole genome sequencing;
D O I
10.1007/s12281-016-0253-6
中图分类号
学科分类号
摘要
New state-of-the-art techniques in sequencing offer valuable tools in both detection of mycobiota and in understanding of the molecular mechanisms of resistance against antifungal compounds and virulence. Introduction of new sequencing platform with enhanced capacity and a reduction in costs for sequence analysis provides a potential powerful tool in mycological diagnosis and research. In this review, we summarize the applications of next-generation sequencing techniques in mycology. © 2016, The Author(s).
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收藏
页码:37 / 42
页数:5
相关论文
共 42 条
[1]  
Peterson J., Garges S., Giovanni M., McInnes P., Wang L., Et al., The NIH human microbiome project, Genome Res, 19, pp. 2317-2323, (2009)
[2]  
Huttenhower C., Gevers D., Knight R., Abubucker S., Badger J.H., Chinwalla A.T., Et al., Structure, function and diversity of the healthy human microbiome, Nature, 486, pp. 207-214, (2012)
[3]  
Orgiazzi A., Bianciotto V., Bonfante P., Daghino S., Ghignone S., Lazzari A., Et al., 454 Pyrosequencing analysis of fungal assemblages from geographically distant, disparate soils reveals spatial patterning and a core mycobiome, Diversity, 5, pp. 73-98, (2013)
[4]  
Iliev I.D., Funari V.A., Taylor K.D., Nguyen Q., Reyes C.N., Strom S.P., Et al., Interactions between commensal fungi and the C-type lectin receptor Dectin-1 influence colitis, Science, 336, pp. 1314-1317, (2012)
[5]  
Cui L., Morris A., Ghedin E., The human mycobiome in health and disease, Genome Med, 5, (2013)
[6]  
Huffnagle G.B., Noverr M.C., The emerging world of the fungal microbiome, Trends Microbiol, 21, pp. 334-341, (2013)
[7]  
Nguyen L.D.N., Viscogliosi E., Delhaes L., The lung mycobiome: an emerging field of the human respiratory microbiome, Front Microbiol, 6, 99, pp. 1-9, (2015)
[8]  
Mukherjee P.K., Sendid B., Hoareau G., Colombel J., Poulain D., Ghannoum M.A., Mycobiota in gastrointestinal diseases, Gastroenterol Hepatol, 12, pp. 77-87, (2015)
[9]  
Ghannoum M.A., Jurevic R.J., Mukherjee P.K., Cui F., Sikaroodi M., Et al., Characterization of the oral fungal microbiome (mycobiome) in healthy individuals, PLoS Pathog, 6, 1, (2010)
[10]  
Lu Q., van den Ende A.H., de Hoog G.S., Li R., Accoceberry J., Durand-Joly I., Et al., Reverse line blot hybridisation screening of Pseudallescheria/Scedosporium species in patients with cystic fibrosis: RLBof Scedosporium spp.in cystic fibrosis, Mycoses, 54, pp. 5-11, (2011)