Transcriptome content and dynamics at single-nucleotide resolution 英文参考文献.docVIP

Minireview Transcriptome content and dynamics at single-nucleotide resolution Nicole Cloonan and Sean M Grimmond Address: Institute for Molecular Bioscience, University of Queensland, 306 Carmody Road, St Lucia, 4072, Australia. Correspondence: Sean M Grimmond. Email: s.grimmond@.au Published: 18 September 2008 Genome Biology 2008, 9:234 (doi:10.1186/gb-2008-9-9-234) The electronic version of this article is the complete one and can be found online at /2008/9/9/234 ? 2008 BioMed Central Ltd Abstract Massively parallel short-tag sequencing of cDNA libraries - RNAseq - is being used to study the dynamics and complexity of eukaryotic transcriptomes, giving new biological insights into the ‘active genome’. Advantages of RNAseq for investigating the transcriptome With the advent of third-generation sequencing technologies - the so-called massively parallel sequencing technologies - it is now possible to generate tens of millions of short sequences (each typically 25-50 nucleotides long) in a single assay. This technology has enabled the recent ‘RNA sequen- cing’ (RNAseq), via random cDNA libraries, of the trans- criptomes of yeasts, Arabidopsis, mouse embryonic stem (ES) cells and other mouse tissues, and human cell lines. These experiments are helping to redefine the understanding of transcriptome content, complexity, and dynamics in these species. A recent study by B?hler and colleagues [1] in the fission yeast Schizosaccharomyces pombe in particular shows how the new RNAseq technology is ideally suited to revealing the changes that occur in transcriptional activity at different stages in the yeast life cycle and in response to changes in external conditions. RNAseq has several advantages over microarrays, the traditional workhorse for transcriptomics. First, gene- expression profiling by RNAseq has been shown to be very robust and highly q