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dc.contributor.author Sanders, Sheri
dc.contributor.author Pfrender, Michael
dc.date.accessioned 2017-07-21T21:19:52Z
dc.date.available 2017-07-21T21:19:52Z
dc.date.issued 2017-06-25
dc.identifier.citation S. Sanders and M. Pfrender. (2017). deNovo assembly and annotation of Ambystoma laterale and Ambystoma jeffersonianum transcriptomes: the first steps toward investigating polyploid salamander expression. Evolution Conference 2017, Portland, OR. Retrieved from http://hdl.handle.net/2022/21599 en
dc.identifier.uri https://hdl.handle.net/2022/21599
dc.description.abstract Polyploidy Ambystoma salamanders are interesting as stable polyploid vertebrate system. Polyploidy in vertebrates is not well understood, and the unique salamander complex features non-recombining genomes with varying levels of ploidy and contribution of parental species. We assembled and annotated the two major contributors to this complex, Ambystoma jeffersonianum and Ambystoma laterale in preparation for investigating how the genomes respond to diverse polyploidy. We assembled each transcriptome using four assemblers (Velvet, SOAPdeNOVO, Trinity, and TransAbyss). We then curated and annotated both transcriptomes using tr2aacds and Trinotate. Orthologs and differentially expressed genes between the two parental species were identified to establish a baseline by which to compare the polyploids. Additionally, we developed an immune inventory for the two transcriptomes. The annotation will be useful in the next steps as we investigate the polyploid salamander libraries to determine the effect of polyploidy on expression. en
dc.description.sponsorship This research is based upon work supported by the National Science Foundation under grant No. ABI-1458641 to Indiana University. en
dc.language.iso en en
dc.rights Except where otherwise noted, the contents of this presentation are copyright of the Trustees of Indiana University. This license includes the following terms: You are free to share -to copy, distribute and transmit the work and to remix -to adapt the work under the following conditions: attribution -you must attribute the work in the manner specified by the author or licensor (but not in any way that suggests that they endorse you or your use of the work). For any reuse or distribution, you must make clear to others the license terms of this work. en
dc.rights.uri https://creativecommons.org/licenses/by/4.0/ en
dc.subject de novo transcriptome, salamander, polyploid en
dc.title deNovo assembly and annotation of Ambystoma laterale and Ambystoma jeffersonianum transcriptomes: the first steps toward investigating polyploid salamander expression en
dc.type Presentation en


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