RNA-Seq for Plant Pathogenic Bacteria

Genes

Jeffrey A. Kimbrel¹  Yanming Di²  Jason S. Cumbie¹ 

[1] Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USA; E-Mails:;Department of Statistics, Oregon State University, Corvallis, OR 97331, USA; E-Mail:

关键词: next generation sequencing;    transcriptomics;    differential gene expression;    overdispersion;    negative binomial;   

DOI  :  10.3390/genes2040689

来源: mdpi

【 摘 要 】

The throughput and single-base resolution of RNA-Sequencing (RNA-Seq) have contributed to a dramatic change in transcriptomic-based inquiries and resulted in many new insights into the complexities of bacterial transcriptomes. RNA-Seq could contribute to similar advances in our understanding of plant pathogenic bacteria but it is still a technology under development with limitations and unknowns that need to be considered. Here, we review some new developments for RNA-Seq and highlight recent findings for host-associated bacteria. We also discuss the technical and statistical challenges in the practical application of RNA-Seq for studying bacterial transcriptomes and describe some of the currently available solutions.

【 授权许可】

CC BY   
© 2011 by the authors; licensee MDPI, Basel, Switzerland.