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Physical Sciences and Mathematics

University of Kentucky

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Salamander

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Discovery Of Sex-Specific Regions In A Salamander Genome, Nataliya Y. Timoshevskaya, Melissa C. Keinath, Jeramiah J. Smith Oct 2017

Discovery Of Sex-Specific Regions In A Salamander Genome, Nataliya Y. Timoshevskaya, Melissa C. Keinath, Jeramiah J. Smith

Commonwealth Computational Summit

Biological Aspects:

Salamander (Ambystoma mexicanum) has a gigantic genome: ~32,000,000,000 bases (10X of size of human genome)

Sex is determined by a pair of morphologically identical chromosomes:

  • ZZ in male
  • ZW in female

Object:

  • Find (if there are any) genomic differences between chromosomes W and Z

Workflow:

  1. Sequencing and de novo assembly of the reference salamander genome
  2. Alignment of short sequences from male and female genomes to the reference
  3. Coverage analysis

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