Next generation sequence analysis of the transcriptome of Sydney rock oysters (Saccostrea glomerata) exposed to a range of environmental stressors.

Sydney rock oysters (Saccostrea glomerata) were exposed to environmental stressors at contaminated field sites or in a controlled laboratory setting. RNA seq transcriptome data were generated for the gill and digestive gland using Roche's 454 pyrosequencing technology. 28,685 contigs were de novo assembled which encoded 11,671 different protein products. The data will act as a reference for future studies in ecology, immunology and environmental toxicology.

[1]  Daniel J. Blankenberg,et al.  Galaxy: a platform for interactive large-scale genome analysis. , 2005, Genome research.

[2]  S. Simpson,et al.  A biomarker of contaminant exposure is effective in large scale assessment of ten estuaries. , 2014, Chemosphere.

[3]  Thomas Wetter,et al.  Genome Sequence Assembly Using Trace Signals and Additional Sequence Information , 1999, German Conference on Bioinformatics.

[4]  Rui Hou,et al.  Network Analysis of Oyster Transcriptome Revealed a Cascade of Cellular Responses during Recovery after Heat Shock , 2012, PloS one.

[5]  C. Wong,et al.  The challenge of choosing environmental indicators of anthropogenic impacts in estuaries. , 2012, Environmental pollution.

[6]  W. O'Connor,et al.  Are native Saccostrea glomerata and invasive Crassostrea gigas oysters' habitat equivalents for epibenthic communities in south-eastern Australia? , 2012 .

[7]  Yan Wang,et al.  Characterization of the Pearl Oyster (Pinctada martensii) Mantle Transcriptome Unravels Biomineralization Genes , 2012, Marine Biotechnology.

[8]  D. Raftos,et al.  Infectious microbial diseases and host defense responses in Sydney rock oysters , 2014, Front. Microbiol..

[9]  Marc R Wilkins,et al.  454 pyrosequencing-based analysis of gene expression profiles in the amphipod Melita plumulosa: transcriptome assembly and toxicant induced changes. , 2014, Aquatic toxicology.

[10]  H. Pörtner,et al.  Adult exposure influences offspring response to ocean acidification in oysters , 2012 .

[11]  Juan Miguel García-Gómez,et al.  BIOINFORMATICS APPLICATIONS NOTE Sequence analysis Manipulation of FASTQ data with Galaxy , 2005 .

[12]  Hideo Aoki,et al.  Draft Genome of the Pearl Oyster Pinctada fucata: A Platform for Understanding Bivalve Biology , 2012, DNA research : an international journal for rapid publication of reports on genes and genomes.

[13]  N. A. Knott,et al.  Dredging related metal bioaccumulation in oysters. , 2009, Marine pollution bulletin.

[14]  Anton Nekrutenko,et al.  Manipulation of FASTQ data with Galaxy , 2010, Bioinform..

[15]  Qiang Wang,et al.  The oyster genome reveals stress adaptation and complexity of shell formation , 2012, Nature.

[16]  A. Nekrutenko,et al.  Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences , 2010, Genome Biology.