Submission Type
Poster
Abstract
The issue of climate change has been gaining increased awareness and attention globally in recent years. It is having various impacts to ecosystems all over the world, causing many species to become environmentally stressed. Epigenetics is a concept that is being studied more prevalently regarding climate changes. Due to the changing environment, stress-induced heritable traits may appear without changes to the genomic code, known as epigenetic alterations. One such epigenetic alteration is DNA methylation, which occurs in cellular responses to environmental stress. One major source of affordable protein in the Philippines comes from the wild Round Scad fish, which has recently been facing rapid decline in both its population and body size. The purpose of our study is to explore the patterns of DNA methylation in wild Round Scad to determine whether these changes are associated with an epigenetic response to global climate stress. Samples of Round Scad DNA were collected and isolated from the Philippines. Using nanopore MinION, a portable third generation DNA sequencing technology, we are able to obtain high quality DNA sequences required for detection of methylation sites. However the DNA sequences are short, needing improvement. To facilitate our analysis we are sequencing the genome of the Zebrafish for comparison. Here, we shall report on the initial data collected. We anticipate that long term findings from this project will provide critical information to manage wild Round Scad and other marine fish facing similar environmental stressors.
Recommended Citation
O'Brien, Molly, "256-Assessing the Use of Next Generation MinION Nanopore DNA Sequencing in Obtaining High Quality Data from Zebra Fish to Inform Round Scad Fish Epigenetics under Global Climate Stress" (2024). GREAT Day Posters. 74.
https://knightscholar.geneseo.edu/great-day-symposium/great-day-2024/posters-2024/74
256-Assessing the Use of Next Generation MinION Nanopore DNA Sequencing in Obtaining High Quality Data from Zebra Fish to Inform Round Scad Fish Epigenetics under Global Climate Stress
The issue of climate change has been gaining increased awareness and attention globally in recent years. It is having various impacts to ecosystems all over the world, causing many species to become environmentally stressed. Epigenetics is a concept that is being studied more prevalently regarding climate changes. Due to the changing environment, stress-induced heritable traits may appear without changes to the genomic code, known as epigenetic alterations. One such epigenetic alteration is DNA methylation, which occurs in cellular responses to environmental stress. One major source of affordable protein in the Philippines comes from the wild Round Scad fish, which has recently been facing rapid decline in both its population and body size. The purpose of our study is to explore the patterns of DNA methylation in wild Round Scad to determine whether these changes are associated with an epigenetic response to global climate stress. Samples of Round Scad DNA were collected and isolated from the Philippines. Using nanopore MinION, a portable third generation DNA sequencing technology, we are able to obtain high quality DNA sequences required for detection of methylation sites. However the DNA sequences are short, needing improvement. To facilitate our analysis we are sequencing the genome of the Zebrafish for comparison. Here, we shall report on the initial data collected. We anticipate that long term findings from this project will provide critical information to manage wild Round Scad and other marine fish facing similar environmental stressors.