May 11, 2017; 1:30 pm; Room 260 Loftsgard Hall
As we have seen in class, the genome sequence that we often work with is referred to as the reference genome. This sequence is for one individual of the species. Yet, during the evolution of a species, multiple lineages arise. These species lineages (or subpopulations) are often adapted to unique environmental niches. One question of biological importance is what is unique about these lineages that allow them to be adapted to a specific niche. To address this question, researchers are now collected deep sequencing data from multiple members of the species. That sequence is then be analyzed to develop a pan genome for the species. The topic for this semester of Current Topics in Genomics is pan genomes.
All of you will read a common paper that considers the phytoplankton pan genome. This will involve a joint discussion among all members of the class. I will ask each of you questions, so understand his paper in depth. In addition, each of you will be responsible for one additional paper that discusses a plant pan genome. One of you will lead the discussion for that plant pan genome, and a second individual will be responsible for asking questions about the paper. That discussion should include: 1) why it is important to construct a pan genome for this species; 2) the methodology used to construct the pan genome; 3) the features of the pan genome; and 4) what biological questions were addressed from the pan genome analysis.
Below are the papers and their supplement. The supplements will help you better understand the paper.
Paper for the whole class:Lucy (lead); Shuangfeng (questions)
Shuangfeng ( lead); Sapna (questions)
Sapna (Lead); Lucy (questions)