Dual-compartmental transcriptomic + proteomic analysis of a marine endosymbiosis exposed to environmental change

As significant anthropogenic pressures are putting undue stress on the world's oceans, there has been a concerted effort to understand how marine organisms respond to environmental change. Transcriptomic approaches, in particular, have been readily employed to document the mRNA‐level response o...

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Published inMolecular ecology Vol. 25; no. 23; pp. 5944 - 5958
Main Authors Mayfield, Anderson B., Wang, Yu-Bin, Chen, Chii-Shiarng, Chen, Shu-Hwa, Lin, Chung-Yen
Format Journal Article
LanguageEnglish
Published England Blackwell Publishing Ltd 01.12.2016
Subjects
acclimation
Animals
Anthozoa - genetics
coral reef
endosymbiosis
environmental change
gene expression
Gene Expression Regulation
Marine ecology
Molecular biology
Oceans and Seas
proteome
Proteome - genetics
Proteomics
Seriatopora hystrix
Symbiosis
Temperature
Transcriptome
acclimation
endosymbiosis
transcriptome
environmental change
coral reef
gene expression
proteome
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Summary:As significant anthropogenic pressures are putting undue stress on the world's oceans, there has been a concerted effort to understand how marine organisms respond to environmental change. Transcriptomic approaches, in particular, have been readily employed to document the mRNA‐level response of a plethora of marine invertebrates exposed to an array of simulated stress scenarios, with the tacit and untested assumption being that the respective proteins show a corresponding trend. To better understand the degree of congruency between mRNA and protein expression in an endosymbiotic marine invertebrate, mRNAs and proteins were sequenced from the same samples of the common, Indo‐Pacific coral Seriatopora hystrix exposed to stable or upwelling‐simulating conditions for 1 week. Of the 167 proteins downregulated at variable temperature, only two were associated with mRNAs that were also differentially expressed between treatments. Of the 378 differentially expressed genes, none were associated with a differentially expressed protein. Collectively, these results highlight the inherent risk of inferring cellular behaviour based on mRNA expression data alone and challenge the current, mRNA‐focused approach taken by most marine and many molecular biologists.
Bibliography:Khaled bin Sultan Living Oceans Foundation
ark:/67375/WNG-7XZ8D8N5-D
Fig. S1 Differentially expressed host coral genes identified by RNA-Seq.Fig. S2 Differentially expressed Symbiodinium genes identified by RNA-Seq.Fig. S3 mRNA expression of differentially expressed host coral proteins identified by 2D + MS.Fig. S4 a priori-selected host coral genes.Fig. S5 a priori-selected Symbiodinium genes.Table S1 Real-time PCR assays. Table S2 2D gel electrophoresis protein spot information and MS-SCAN analysis. Table S3 Querying of two transcriptomes with 117 differentially expressed coral proteins. Table S4 A comparison of the five longest mass spectrometry (MS)-derived peptides from each of 10 protein spots against the 'Seriatopora hystrix variable temperature study' (SHVTS) transcriptome via MS-SCAN.Appendix S1 Supplemental methods.
National Science Foundation (NSF) of the United States of America
Taiwan's Academia Sinica
istex:4E0F42F7C30C9A9EF5DA1F457876BEDD12E773F5
Taiwan's Ministry of Science and Technology - No. 103-2311-B-001-033-MY3; No. 101-2321-B-001-043-MY2; No. 102-2811-B-001-046
ArticleID:MEC13896
University of Hawaii NSF EPSCoR programme in support of the Core Functional Genomics Facility at the Hawaii Institute of Marine Biology - No. EPS-0903833
ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
ISSN:0962-1083
1365-294X
DOI:10.1111/mec.13896