Advances in bacterial transcriptome and transposon insertion-site profiling using second-generation sequencing

The arrival of second-generation sequencing has revolutionized the study of bacteria within a short period. The sequence information generated from these platforms has helped in our understanding of bacterial development, adaptation and diversity and how bacteria cause disease. Furthermore, these te...

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Bibliographic Details
Published in:Trends in biotechnology (Regular ed.) 2011-11, Vol.29 (11), p.586-594
Main Authors: Febrer, Melanie, McLay, Kirsten, Caccamo, Mario, Twomey, Kate B, Ryan, Robert P
Format: Article
Language:English
Subjects:
Bacteria
Bacteria - genetics
Bacteriology
Biological and medical sciences
Biotechnology
Cloning
Computer Simulation
Costs
Councils
Deoxyribonucleic acid
Diverse techniques
DNA
DNA cloning
DNA Transposable Elements - genetics
Environmental conditions
Experiments
Fundamental and applied biological sciences. Psychology
Gene expression
genes
Genomes
High-Throughput Nucleotide Sequencing - methods
Integrated software
Internal Medicine
microarray technology
Molecular and cellular biology
molecular cloning
monitoring
RNA
Sequence Analysis, RNA - methods
Staphylococcus infections
Studies
Technological change
transcriptome
Transcriptome - genetics
transposons
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Summary:The arrival of second-generation sequencing has revolutionized the study of bacteria within a short period. The sequence information generated from these platforms has helped in our understanding of bacterial development, adaptation and diversity and how bacteria cause disease. Furthermore, these technologies have quickly been adapted for high-throughput studies that were previously performed using DNA cloning or microarray-based applications. This has facilitated a more comprehensive study of bacterial transcriptomes through RNA sequencing (RNA-Seq) and the systematic determination of gene function by ‘transposon monitoring’. In this review, we provide an outline of these powerful tools and the in silico analyses used in their application, and also highlight the biological questions being addressed in these approaches.
ISSN:0167-7799
1879-3096
DOI:10.1016/j.tibtech.2011.06.004