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  • Tuesday, April 13, 2021

SC4ES: National Center for Genome Analysis Support Genomics Research webinar series

Featuring Jingwei Song, Virginia Institute of Marine Science, this monthly scientific series highlights the research of scientists who use computational resources provided by NCGAS.

Event details

  • Date & time
    Tuesday, April 13, 2021
  • Location
    Online - Zoom

Register here

About this event

The National Center for Genome Analysis Support (Links to an external site.) (NCGAS) helps researchers nationwide with the demanding—and often confusing— computations that genomics research requires. In this monthly series, scientists present their genomics research in pursuit of answers to some of the most confounding biological questions.

"NCGAS serves hundreds of researchers who apply genomics to their research, and we wanted to find out what their individual research projects entail. We hope to learn how they are using genomics in their studies, as an inspiration to other researchers." - Tom Doak, Chief Scientist, National Center for Genome Analysis Support

Talks will take place the second Tuesday of each month, 2-3pm EST.


Title of presentation: 
Comparative transcriptomics of spotted seatrout (Cynoscion nebulosus) populations to cold and heat stress.

Jingwei Song (Links to an external site.) is a research scientist at University of Florida, currently working on hard clam transcriptomics. He recently received his PhD in Marine Science from Virginia Institute of Marine Science (VIMS), College of William & Mary. In 2019, he participated in the second Transcriptomic workshop at NCGAS and used the HPC resources to finish one chapter of his dissertation published in 2020.

Resilience to climate change depends on a species' adaptive potential and phenotypic plasticity. The latter can enhance survival of individual organisms during short periods of extreme environmental perturbations, allowing genetic adaptation to take place over generations. Along the U.S. East Coast, estuarine-dependent spotted seatrout
(Cynoscion nebulosus) populations span a steep temperature gradient that provides an ideal opportunity to explore the molecular basis of phenotypic plasticity. Genetically distinct spotted seatrout sampled from a northern and a southern population were exposed to acute cold and heat stress, and their transcriptomic responses were compared using RNA-sequencing (RNA-seq). The southern population showed a larger transcriptomic response to acute cold stress, whereas the northern population showed a larger transcriptomic response to acute heat stress compared with their respective population controls. Shared transcripts showing significant differences in expression levels were predominantly enriched in pathways that included metabolism, transcriptional regulation, and immune response. In response to heat stress, only the northern population significantly upregulated genes in the apoptosis pathway, which could suggest greater vulnerability to future heat waves in this population as compared to the southern population.

Genes showing population-specific patterns of expression, including hpt, acot, hspa5, and hsc71, are candidates for future studies aiming to monitor intraspecific differences in temperature stress responses in spotted seatrout. Our findings contribute to the current understanding of phenotypic plasticity and provide a basis for predicting the
response of a eurythermal fish species to future extreme temperatures.

The series (and archive):

View all the talks in this series as well as links to archive video of each talk (Links to external site.).

The Supercomputing for Everyone Series (S4ES) of workshops and seminars are led by personnel from Research Technologies (Links to external site.), a division of University Information Technology Services (Links to external site.). This series is led by the National Center for Genome Analysis Support (Links to external site.). Both are centers in the Pervasive Technology Institute (Links to external site.) at Indiana University.

The Supercomputing for Everyone Series (Links to external site.) aims to bring more users into the realm of advanced computing, whether it be visualization, computation, analytics, storage, or any related discipline. Let the Research Technologies staff take you to the next level of computing.