Marine 'Omics

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Portion of a trace derived from traditional Sanger sequencing. Next-generation technologies enable scientists to increase sequencing capacity by orders of magnitude for an equivalent cost. These large data sets (typically comprised of relatively short sequences) are challenging to analyze, but hold enormous potential. (Tarrant lab image)

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Nematostella vectensis we are using a variety of approaches, including Illumina-based transcriptional profiling, to characterize responses of Nematostella to environmental signals and stressors. (photo: A. Reitzel)

Related Links

» Eco-Genomic Project at UA
Transcriptomic data from Nematostella exposed to oil, benzo[a]pyrene and UV light will be hosted on this site, developed and curated by our collaborator, Dr. Matthew Jenny.

Work in our lab

Our lab has several transcriptomic projects in progress:

Nematostella transcriptomics

In collaboration with Dr. Matthew Jenny (University of Alabama) we studying responses of Nematostella in response to oil, benzo[a]pyrene, and ultraviolet light.  Some of these results were presented at the 2012 SICB meeting (abstract 118.6).


We are using Illumina-based transcriptional profiling (RNA-Seq) to characterize changes in gene expression associated with preparation for diapause and progression through the C5 molt stage in the copepod Calanus finmarchicus (see also Copepod (Calanus) Diapause Regulation page).

"We" (mostly Ph.D. candidate Amalia Aruda) are also using "next generation" sequencing methods to characterize the microbial community associated with active and diapausing C. finmarchicus. Amalia aslo plans to examine how bacteria may affect copepod gene expression through modulation of the innate immune system or other pathways.

Pteropod transcriptome

"We" (led by postdoctoral scholar, Amy Maas) are also using Illumina-based sequencing to assemble a transcriptome for the pteropod Clio pyrimidata. We will then characterize transcriptomic responses to short-term CO2-mediated acidification.


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Last updated November 8, 2013
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