J Genomics 2014; 2:141-149. doi:10.7150/jgen.9760

Research Paper

De novo Assembly and Analysis of the Northern Leopard Frog Rana pipiens Transcriptome

Matthew K. Christenson1†, Andrew J. Trease1,†, Lakshmi-Prasad Potluri1, Andrew J. Jezewski1,†, Vincent M. Davis2, Lindsey A. Knight1, Alan S. Kolok1,3, Paul H. Davis1,4✉

1. Department of Biology, University of Nebraska at Omaha, Omaha, Nebraska 68182, USA;
2. Heteroskedastic, Inc., Arvada, Colorado 80403, USA;
3. Center for Environmental Health and Toxicology, University of Nebraska Medical Center, Omaha, Nebraska 68198, USA;
4. Department of Genetics, Cell Biology and Anatomy, University of Nebraska Medical Center, Omaha, Nebraska 68198, USA.
† Current addresses: MKC - Stowers Institute for Medical Research, Kansas City, Missouri 64110, USA. AJT - Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska 68198, USA. AJJ -Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, Missouri 63110, USA

Abstract

The northern leopard frog Rana (Lithobates) pipiens is an important animal model, being used extensively in cancer, neurology, physiology, and biomechanical studies. R. pipiens is a native North American frog whose range extends from northern Canada to southwest United States, but over the past few decades its populations have declined significantly and is now considered uncommon in large portions of the United States and Canada. To aid in the study and conservation of R. pipiens, this paper describes the first R. pipiens transcriptome. The R. pipiens transcriptome was annotated using Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Eukaryotic Orthologous Groups (KOG). Differential expression analysis revealed universal and tissue specific genes, and endocrine-related genes were identified. Transcriptome assemblies and other sequence data are available for download.

Keywords: Northern Leopard Frog, Rana pipiens, Transcriptome.

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How to cite this article:
Christenson MK, Trease AJ, Potluri LP, Jezewski AJ, Davis VM, Knight LA, Kolok AS, Davis PH. De novo Assembly and Analysis of the Northern Leopard Frog Rana pipiens Transcriptome. J Genomics 2014; 2:141-149. doi:10.7150/jgen.9760. Available from http://www.jgenomics.com/v02p0141.htm