Journal article
Guidelines for RNA-seq projects: applications and opportunities in non-model decapod crustacean species
Hydrobiologia, Vol.825(1), pp.5-27
2018
Abstract
Next-generation sequencing (NGS) has dramatically changed the way biological research is being conducted in the post-genomic era, and they have only been utilized widely over the recent decade for studies of non-model decapod crustacean species, predominantly by sequencing the transcriptome of various tissues across different life stages. Next-generation sequencing can now provide a rapid, cost-effective solution for discovery of genetic markers crucial in many applications that would previously have otherwise taken years to develop. Sequencing of the entire transcriptome (referred to as RNA sequencing; RNA-seq) is one of the most popular NGS tools. RNA-seq studies of non-model species in crustacean taxa, however, have faced some problems, including a lack of "good" experimental study design, a relative paucity of gene annotations, combined with limited knowledge of genomic technologies and analyses. The aim of the current review is to assist crustacean biologists to develop a better appreciation for the applications and scope of RNA-seq analysis, understand the basic requirements for optimal RNA-seq studies and provide an overview of each step, from RNA-seq experimental design to bioinformatics approaches to data analysis. Insights that have resulted from RNA-seq studies across a wide range of non-model decapod species are also summarized.
Details
- Title
- Guidelines for RNA-seq projects: applications and opportunities in non-model decapod crustacean species
- Authors
- Tuan Viet Nguyen (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and EngineeringHyungtaek Jung (Author) - Queensland University of TechnologyGuiomar Rotllant (Author) - Institut de Ciències del Mar (CSIC), SpainDavid Hurwood (Author) - Queensland University of TechnologyPeter Mather (Author) - Queensland University of TechnologyTomer Ventura (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
- Publication details
- Hydrobiologia, Vol.825(1), pp.5-27
- Publisher
- Springer Netherlands
- Date published
- 2018
- DOI
- 10.1007/s10750-018-3682-0
- ISSN
- 1573-5117
- Copyright note
- Copyright © 2018 Springer Netherlands. The author's accepted version is reproduced here in accordance with the publisher's copyright policy. The final publication is available at Springer via http://dx.doi.org/10.1007/s10750-018-3682-0
- Organisation Unit
- School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; GeneCology Research Centre - Legacy; USC International - Legacy; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99451341802621
- Output Type
- Journal article
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