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January 3 - Febuary 28, 2021
Meeting Abstract
S2-10 Mon Jan 4 17:00 - 17:30 A perspective on DNA methylation in bivalves Roberts, SR; University of Washington, School of Aquatic and Fishery Sciences, Seattle, WA

The function of DNA methylation in shellfish where the limited amount of DNA methylation is predominantly found in gene bodies is not completely understood. One explanation is that the role of gene body DNA methylation is dependent on gene function, a potential phenomenon that has arisen from selective pressure on lineage-specific life history traits. We know that in other taxa epigenetic marks are associated with phenotypes independent of genetic variation, the environment can influence DNA methylation, and epigenetic marks can be inherited. While we have examined DNA methylation in bivalves for almost a decade, there is still not convincing evidence that the function(s) align with some of the early hypotheses. It has also been suggested that DNA methylation might not have a biological function. DNA methylation landscapes will be described in bivalves and specific data sets will be presented including looking at the role of DNA methylation in genomic regulatory function and heredity in oysters. In addition, perspectives will be provided on how to address the function of epigenetic mechanisms in mollusks

Related Papers

Yong-Kian Lim, Khan Cheung, Xin Dang, Steven B. Roberts, Xiaotong Wang, Vengatesen Thiyagarajan (2020) DNA methylation changes in response to ocean acidification at the time of larval metamorphosis in the edible oyster, Crassostrea hongkongensis Marine Environmental Research, Volume 163 doi:10.1016/j.marenvres.2020.105214

Downey-Wall Alan M., Cameron Louise P., Ford Brett M., McNally Elise M., Venkataraman Yaamini R., Roberts Steven B., Ries Justin B., Lotterhos Katie E (2020) Ocean Acidification Induces Subtle Shifts in Gene Expression and DNA Methylation in Mantle Tissue of the Eastern Oyster (Crassostrea virginica) Frontiers in Marine Science v7 p828 doi:10.3389/fmars.2020.56641

Venkataraman Yaamini R., Downey-Wall Alan M., Ries Justin, Westfield Isaac, White Samuel J., Roberts Steven B., Lotterhos Kathleen E (2020) General DNA Methylation Patterns and Environmentally-Induced Differential Methylation in the Eastern Oyster (Crassostrea virginica) Frontiers in Marine Science, Volume 7, Page 225. doi:10.3389/fmars.2020.00225

Gurr SJ, Vadopalas B, Roberts SB, Putnam HM (2020) Metabolic recovery and compensatory shell growth of juvenile Pacific geoduck Panopea generosa following short-term exposure to acidified seawater Conservation Physiology, Volume 8, Issue 1, coaa024. doi:10.1093/conphys/coaa024

Spencer, LH, Venkataraman, YR, Crim R, Ryan S, Horwith MJ, and Roberts SB (2020) Carryover effects of temperature and pCO2 across multiple Olympia oyster populations. Ecological Applications 00( 00):e02060. doi:10.1002/eap.2060

Dimond JL and Roberts SB. (2020) Convergence of DNA Methylation Profiles of the Reef Coral Porites astreoides in a Novel Environment Frontiers in Marine Science. vol 6. doi:10.3389/fmars.2019.00792

Venkataraman YR, Spencer LH, Roberts SB. (2019) Larval Response to Parental Low pH Exposure in the Pacific Oyster Crassostrea gigas Journal of Shellfish Research, 38(3), 743-750. doi:10.2983/035.038.0325

Timmins‐Schiffman E, Guzmán JM, Elliott Thompson R, Vadopalas B, Eudeline B, Roberts SB. (2019) Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO2. Ecol Evol.00: 1– 13. doi:10.1002/ece3.5885

Javier A. Rodriguez‐Casariego, Mark C. Ladd, Andrew A. Shantz, Christian Lopes, Manjinder S. Cheema, Bohyun Kim, Steven B. Roberts, James W. Fourqurean, Juan Ausio, Deron E. Burkepile, and Jose M. Eirin‐Lopez. (2018) Coral epigenetic responses to nutrient stress: Histone H2A.X phosphorylation dynamics and DNA methylation in the staghorn coral Acropora cervicornis Ecol Evol. 2018;00:1–15. doi:10.1002/ece3.4678 pdf

Silliman KE, Bowyer TK, Roberts SB. (2018) Consistent differences in fitness traits across multiple generations of Olympia oysters Scientific Reports volume 8, Article number:6080. doi:10.1038/s41598-018-24455-3

Gavery MR, Roberts SB. (2017) Epigenetic considerations in aquaculture PeerJ 5:e4147 doi: 10.7717/peerj.4147

Dimond JL, Gamblewood SK, Roberts SB. (2017) Genetic and epigenetic insight into morphospecies in a reef coral Molecular Ecology. 00:1–12. doi: 10.1111/mec.14252

Dimond JL and Roberts SB (2016), Germline DNA methylation in reef corals: patterns and potential roles in response to environmental change Molecular Ecology doi:10.1111/mec.13414 preprint

Olson CE and Roberts SB. (2014). Genome-wide profiling of DNA methylation and gene expression in Crassostrea gigas male gametes Frontiers in Physiology. 5:224. doi: 10.3389/fphys.2014.0022

Gavery MR and Roberts SB. (2014) A context specific role for DNA methylation in bivalves Briefings in Functional Genomics. doi:10.1093/bfgp/elt054 (pdf)

Gavery MR and Roberts SB. (2013) Predominant intragenic methylation is associated with gene expression characteristics in a bivalve mollusc PeerJ 1:e215. doi:10.7717/peerj.215

Roberts SB and Gavery MR (2012) Is there a relationship between DNA methylation and phenotypic plasticity in invertebrates? Frontiers in Physiology 2:116. doi:10.3389/fphys.2011.00116

Gavery MR and Roberts SB (2012) Characterizing short read sequencing for gene discovery and RNA-Seq analysis in Crassostrea gigas Comparative Biochemistry and Physiology Part D: Genomics and Proteomics 7:2 94-99. doi:10.1016/j.cbd.2011.12.003

Gavery MR and Roberts SB. (2010) DNA methylation patterns provide insight into epigenetic regulation in the Pacific oyster (Crassostrea gigas) BMC Genomics 11:483. doi:10.1186/1471-2164-11-483


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