The diverse applications of RNA-seq for functional genomic studies in Aspergillus fumigatus. - Institut Pasteur Access content directly
Journal Articles Annals of the New York Academy of Sciences Year : 2012

The diverse applications of RNA-seq for functional genomic studies in Aspergillus fumigatus.

Abstract

The deep sequencing of an mRNA population, RNA-seq, is a very successful application of next-generation sequencing technologies (NGSTs). RNA-seq takes advantage of two key NGST features: (1) samples can be mixtures of different DNA pieces, and (2) sequencing provides both qualitative and quantitative information about each DNA piece analyzed. We recently used RNA-seq to study the transcriptome of Aspergillus fumigatus, a deadly human fungal pathogen. Analysis of the RNA-seq data indicates that there are likely tens of unannotated and hundreds of novel genes in the A. fumigatus transcriptome, mostly encoding for small proteins. Inspection of transcriptome-wide variation between two isolates reveals thousands of single nucleotide polymorphisms. Finally, comparison of the transcriptome profiles of one isolate in two different growth conditions identified thousands of differentially expressed genes. These results demonstrate the utility and potential of RNA-seq for functional genomics studies in A. fumigatus and other fungal human pathogens.

Dates and versions

pasteur-01725855 , version 1 (07-03-2018)

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Antonis Rokas, John G. Gibbons, Xiaofang Zhou, Anne Beauvais, Jean-Paul Latge. The diverse applications of RNA-seq for functional genomic studies in Aspergillus fumigatus.. Annals of the New York Academy of Sciences, 2012, 1273 (1), pp.25 - 34. ⟨10.1111/j.1749-6632.2012.06755.x⟩. ⟨pasteur-01725855⟩

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