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© Research
Publication : Annals of the New York Academy of Sciences

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

Scientific Fields
Diseases
Organisms
Applications
Technique

Published in Annals of the New York Academy of Sciences - 01 Dec 2012

Rokas A, Gibbons JG, Zhou X, Beauvais A, Latgé JP

Link to Pubmed [PMID] – 23230834

Ann. N. Y. Acad. Sci. 2012 Dec;1273:25-34

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.

http://www.ncbi.nlm.nih.gov/pubmed/23230834