Peer-reviewed Publications

 

  • Crane SN. Statistical Phylogeography ofthe Plum Curculio Across Eastern North America. In preparation. Pre-print available.
  • Crane SN. Molecular Phylogenetics of Eastern North American Conotrachelus. In preparation. Pre-print available.
  • Crane SN. Understanding a Pest—Genetic Diversity, Invasion Potential, and Diagnostics of the Plum Curculio (Conotrachelus nenuphar). In preparation. Pre-print available.
  • Wiens GD, Rockey DD, Wu Z, Chang J, Levy R, Crane S, Chen DS, Capri GR, Burnett JR, Sudheesh PS, Schipma MJ, Burd H, Bhattacharyya A, Rhodes LD, Kaul R, Strom MS. 2008. Genome Sequence of the Fish Pathogen Renibacterium salmoninarum Suggests Reductive Evolution away from an Environmental Arthrobacter Ancestor. Journal of Bacteriology. 190(21): 6970-6982. DOI: 10.1128/JB.00721-08
  • Ponnerassery S, Crane S, Cain KD, and Strom M. 2007. Sortase inhibitor phenyl vinyl sulfone inhibits Renibacterium salmoninarum adherence and invasion of host cells. Diseases of Aquatic Organisms. 78:115-127. DOI: 10.3354/dao01859

Presentations

  • Crane SN. June 2012. Biogeography and mitochondrial divergence of the plum curculio beetle across Eastern North America. Presented at the annual Evolution conference in Ottawa, ON, Canada.
  • Crane SN. November 2011. Pest Genetic Resources: Leveraging diversity patterns across agricultural landscapes. 2011 Annual Meeting, Entomological Society of America. Reno, NV, USA. Presentation awarded First Place in Student Competition for the President’s Prize, Systematics, Evolution and Biodiversty-2
  • Crane SN. June 2010. Stopping the Invasion Before It Starts: Using Predictive Niche Modeling in Quarantine Cases. 2010 Evolution conference in Portland, OR, USA.
  • Crane SN. December 2008. Resident Weevil: Population Genetic Structure of the Plum Curculio, a Native Fruit Pest. 2008 Annual Meeting, Entomological Society of America. Reno, NV, USA.
  • Crane SN. June 2008. Niche Model of a Native Agricultural Pest, the Plum Curculio Beetle (Coleoptera: Curculionidae): Implications for Pest Management. Presented at the annual Evolution conference in Minneapolis, MN, USA.
  • Strozak V, Esposito L, and Crane SN. May 2008. What’s in Your Backyard: Using the Local Environment to Integrate Research into High School Classes. Communicating Science and Mathematics: An NSF GK–12 NY/NJ/PA Regional Meeting and Teacher Professional Development Workshop. Newark, NJ, USA.
  • Crane SN. December 2007. Population Subdivision of a Fruit Pest. 2007 Annual Meeting, Entomological Society of America. San Diego, CA, USA.
  • Frazier M, Dillon M, and Crane SN. January 2007. Altitudinal clines in insect body size: Physiological interpretations of mixed patterns. Poster presented by M Frazier at the Society for Integrative and Comparative Biology 2007 Annual Meeting in Phoenix, AZ, USA.
  • Crane SN, and Strom MS. November 2005. Identification of a sortase enzyme and its substrates in Renibacterium salmoninarum: Solving problems with bioinformatics. BKD—Challenge for the 21st Century Conference. Seattle, WA, USA.
  • Crane SN, Chen D, and Strom MS. November 2005. Renibacterium salmoninarum Genome Sequencing Project Summary. Presented at the Bacterial Kidney Disease—Challenge for the 21st Century conference in Seattle, WA, USA.

Code

 

        I share code on GitHub: github.com/samuelcrane. Here's a few scripts I've developed for my molecular systematic and population genetics research:

        • drawNodeSupportSymbol.r This R script draws filled circles on the nodes of a phylogeny according to the support value on that node. 
        • drawSupportSummary.r This R script finds the shared clades in up to three phylogenies (i.e. trees inferred from the same dataset using different tree building methods), summarizes the node support on these shared clades across the inference methodologies, and draws this summarized node support as filled circles. You must chose one tree as the reference tree on which to draw the support summaries. Useful as an overview of support given a molecular data set.  
        • filter-sort-specimenID.py A very simple Python script I use to count the number of times I have (successfully) sequenced a particular individual for a particular primer pair. Useful when generating concatenated gene sequence data from short, overlapping primer pairs. Not easy to do in Geneious because of duplicate sequences, so this little trick does it for me. 

        Data & Protocols

        Data from my dissertation research is still under embargo but I'm very happy to discuss it and share it with interested parties. I'll link to the repositories here when they are made public. Here are some other data products I've worked on.