Species and population specific gene expression in blood transcriptomes of marine turtles

Published

May 13, 2021

Author(s)

Shreya M. Banerjee, Jamie A. Stoll, Camryn D. Allen, Jennifer Lynch, Heather Harris, Lauren Kenyon, Eleanor Sterling, Eugenia Naro-Maciel, Kate McFadden, Margaret Lamont, James Benge, Jeffrey A. Seminoff, Scott Benson, Rebecca L. Lewison, Tomoharu Eguchi, T. T. Jones, Peter Dutton, George H. Balazs, Lisa M. Komoroske

Abstract

Background Transcriptomic data has demonstrated utility to advance the study of physiological diversity and organisms' responses to environmental stressors. However, a lack of genomic resources and challenges associated with collecting high-quality RNA can limit its application for many wild populations. Minimally invasive blood sampling combined with de novo transcriptomic approaches has great potential to alleviate these barriers. Here, we advance these goals for marine turtles by generating high quality de novo blood transcriptome assemblies to characterize functional diversity and compare global transcriptional profiles between tissues, species, and foraging aggregations. Results We generated high quality blood transcriptome assemblies for hawksbill (Eretmochelys imbricata), loggerhead (Caretta caretta), green (Chelonia mydas), and leatherback (Dermochelys coriacea) turtles. The functional diversity in assembled blood transcriptomes was comparable to those from more traditionally sampled tissues. A total of 31.3% of orthogroups identified were present in all four species, representing a core set of conserved genes expressed in blood and shared across marine turtle species. We observed strong species-specific expression of these genes, as well as distinct transcriptomic profiles between green turtle foraging aggregations that inhabit areas of greater or lesser anthropogenic disturbance. Conclusions Obtaining global gene expression data through non-lethal, minimally invasive sampling can greatly expand the applications of RNA-sequencing in protected long-lived species such as marine turtles. The distinct differences in gene expression signatures between species and foraging aggregations provide insight into the functional genomics underlying the diversity in this ancient vertebrate lineage. The transcriptomic resources generated here can be used in further studies examining the evolutionary ecology and anthropogenic impacts on marine turtles.

Citation

BMC Genomics

Volume

22

Pub Type

Journals

Download Paper

https://doi.org/10.1186/s12864-021-07656-5

Local Download

Keywords

Comparative transcriptomics, blood transcriptomes, sea turtle, minimally invasive sampling, conservation physiology, RNA-sequencing, orthologs

Citation

Banerjee, S. , Stoll, J. , Allen, C. , Lynch, J. , Harris, H. , Kenyon, L. , Sterling, E. , Naro-Maciel, E. , McFadden, K. , Lamont, M. , Benge, J. , Seminoff, J. , Benson, S. , Lewison, R. , Eguchi, T. , Jones, T. , Dutton, P. , Balazs, G. and Komoroske, L. (2021), Species and population specific gene expression in blood transcriptomes of marine turtles, BMC Genomics, [online], https://doi.org/10.1186/s12864-021-07656-5, https://tsapps.nist.gov/publication/get_pdf.cfm?pub_id=931405 (Accessed December 13, 2024)