Differential gene expression in chronic wasting disease-positive white-tailed deer (Odocoileus virginianus)

Emma K. Trone-Launer, Jun Wang, Guoqing Lu, Nohra E. Mateus-Pinilla, Paige R. Zick, James T. Lamer, Paul A. Shelton, Christopher N. Jacques

Research output: Contribution to journalArticle

Abstract

Chronic wasting disease (CWD) is a transmissible spongiform encephalopathy (TSE) that affects cervid species throughout North America. We evaluated gene expression in white-tailed deer collected by Illinois Department of Natural Resource wildlife managers during annual population reduction (e.g., sharpshooting) and disease monitoring efforts throughout the CWD-endemic area of northcentral Illinois. We conducted comparative transcriptomic analysis of liver and retropharyngeal lymph node tissue samples between CWD-positive (n = 5) and CWD-not detected (n = 5) deer. A total of 74,479 transcripts were assembled, and 51,661 (69.36%) transcripts were found to have matched proteins in NCBI-NR and UniProt. Our analysis of functional categories showed 40,308 transcripts were assigned to at least one Gene Ontology term and 37,853 transcripts were involved in at least one pathway. We identified a total of 59 differentially expressed genes (DEGs) in CWD-positive deer, of which 36 and 23 were associated with liver and retropharyngeal lymph node tissues, respectively. Functions of DEGs lend support to previous relationships between misfolded PrP and cellular membranes (e.g., STXBP5), and internal cellular components. We identified several genes that suggest a link between CWD and retroviruses and identified the gene ADIPOQ that acts as a tumor necrosis factor (TNF) antagonist. This gene may lead to reduced production of TNF and impact disease progression and clinical symptoms associated with CWD (i.e., wasting syndrome). Use of candidate genes identified in this study suggests the activation of endogenous processes in CWD-positive deer, which in turn may enable earlier detection of the disease.

Original languageEnglish (US)
Pages (from-to)12600-12612
Number of pages13
JournalEcology and Evolution
Volume9
Issue number22
DOIs
StatePublished - Nov 1 2019

Fingerprint

chronic wasting disease
Odocoileus virginianus
deer
gene expression
gene
genes
tumor necrosis factors
tumor
lymph nodes
Retroviridae
wasting syndrome
disease detection
liver
prion diseases
disease surveillance
transcriptomics
disease course
natural resources
signs and symptoms (animals and humans)
antagonists

Keywords

  • Illinois
  • Odocoileus virginianus
  • RNA-Seq
  • chronic wasting disease
  • differential gene expression
  • white-tailed deer

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Ecology
  • Nature and Landscape Conservation

Cite this

Trone-Launer, E. K., Wang, J., Lu, G., Mateus-Pinilla, N. E., Zick, P. R., Lamer, J. T., ... Jacques, C. N. (2019). Differential gene expression in chronic wasting disease-positive white-tailed deer (Odocoileus virginianus). Ecology and Evolution, 9(22), 12600-12612. https://doi.org/10.1002/ece3.5724

Differential gene expression in chronic wasting disease-positive white-tailed deer (Odocoileus virginianus). / Trone-Launer, Emma K.; Wang, Jun; Lu, Guoqing; Mateus-Pinilla, Nohra E.; Zick, Paige R.; Lamer, James T.; Shelton, Paul A.; Jacques, Christopher N.

In: Ecology and Evolution, Vol. 9, No. 22, 01.11.2019, p. 12600-12612.

Research output: Contribution to journalArticle

Trone-Launer, EK, Wang, J, Lu, G, Mateus-Pinilla, NE, Zick, PR, Lamer, JT, Shelton, PA & Jacques, CN 2019, 'Differential gene expression in chronic wasting disease-positive white-tailed deer (Odocoileus virginianus)', Ecology and Evolution, vol. 9, no. 22, pp. 12600-12612. https://doi.org/10.1002/ece3.5724
Trone-Launer, Emma K. ; Wang, Jun ; Lu, Guoqing ; Mateus-Pinilla, Nohra E. ; Zick, Paige R. ; Lamer, James T. ; Shelton, Paul A. ; Jacques, Christopher N. / Differential gene expression in chronic wasting disease-positive white-tailed deer (Odocoileus virginianus). In: Ecology and Evolution. 2019 ; Vol. 9, No. 22. pp. 12600-12612.
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abstract = "Chronic wasting disease (CWD) is a transmissible spongiform encephalopathy (TSE) that affects cervid species throughout North America. We evaluated gene expression in white-tailed deer collected by Illinois Department of Natural Resource wildlife managers during annual population reduction (e.g., sharpshooting) and disease monitoring efforts throughout the CWD-endemic area of northcentral Illinois. We conducted comparative transcriptomic analysis of liver and retropharyngeal lymph node tissue samples between CWD-positive (n = 5) and CWD-not detected (n = 5) deer. A total of 74,479 transcripts were assembled, and 51,661 (69.36{\%}) transcripts were found to have matched proteins in NCBI-NR and UniProt. Our analysis of functional categories showed 40,308 transcripts were assigned to at least one Gene Ontology term and 37,853 transcripts were involved in at least one pathway. We identified a total of 59 differentially expressed genes (DEGs) in CWD-positive deer, of which 36 and 23 were associated with liver and retropharyngeal lymph node tissues, respectively. Functions of DEGs lend support to previous relationships between misfolded PrP and cellular membranes (e.g., STXBP5), and internal cellular components. We identified several genes that suggest a link between CWD and retroviruses and identified the gene ADIPOQ that acts as a tumor necrosis factor (TNF) antagonist. This gene may lead to reduced production of TNF and impact disease progression and clinical symptoms associated with CWD (i.e., wasting syndrome). Use of candidate genes identified in this study suggests the activation of endogenous processes in CWD-positive deer, which in turn may enable earlier detection of the disease.",
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