1. BIO/BCH/MI/PLS/PPA 601 Special Topics in Molecular and Cellular Genetics Brian Rymond, Biology, 335 T.H. Morgan (THM) Biology Bldg., 257-5530 rymond@uky.edurymond@uky.edu Seth DeBolt, Dept. of Horticulture, N324 Ag. Sci. Center North, 257-8654, sdebo2@email.ukysdebo2@email.uky

3. Description: For over 25 years, distinguished scientists have visited the UK campus each Spring semester to deliver lectures and participate in informal discussions with graduate students enrolled in the Special Topics in Molecular and Cellular Genetics course. Emphasis is placed on the selection of established investigators of international stature who present exciting new research in the areas of molecular and cellular genetics. Class meeting times: This seminar program for graduate students and advanced undergraduate students meets at irregular times & episodically over the semester. The course will host 4 guest speakers in 2016. Each speaker will provide an 8:00 AM introductory lecture to the enrolled students plus deliver a scientific seminar at 4:00 PM to the entire UK Scientific Community on the Monday during his/her visit. The 601 students will meet with each speaker for an informal lunch on that Monday (typically 12:30-1:30 PM) and participate in a 30 minute question and answer period immediately following the seminar. In order for us to derive the greatest value from each visit, the 601 class will assemble at 4:00 PM on the Friday before a scheduled visit for a pre-meeting of student-lead presentations and discussion based on scientific publications suggested by the visitor. These research papers will be posted on the class web site at least two weeks before each pre-meeting. The course coordinators will advise the student teams in preparing materials prior to these presentations. To promote student participation, every enrolled student will provide the student presenter with one question concerning his/her paper by noon on the Wednesday preceding the pre-meeting session.

4. Requirements and Grading: A student-run pre-meeting will be held approximately one week in advance of each scientist’s visit to familiarize the class with the system, techniques, and topics to be discussed by the invited speaker. Selected research papers will be assigned as required reading for all students before each pre-meeting and these will posted on the class webpage. Pre-meetings will typically entail three or four student presentations based on the assigned readings. The enrolled students are expected to attend the scheduled pre- meetings, lectures, and seminars (including the post-seminar question and answer period). In addition, it is anticipated that each student will attend for at least 30 minutes two of the student/speaker lunchtime meetings – you are welcome to attend all four. Attendance will be taken at each event. Students are expected to be prepare and participate (that is, ask questions) in each event. Information about the speakers visits will be posted on the class website during the semester, consequently, each student should check the class site at least once each week. Grades will be assigned based on the level of student participation. Unexcused absence from two scheduled events will decrease your final grade by one letter, three absences by two letter grades. More than three unexcused absences will result in a grade of E.

5. Before each pre-meeting, every enrolled student will provide each presenter with one question concerning his/her paper by noon on the Wednesday preceding the pre- meeting. Submission of these questions will be used as one measure of class participation. The speakers will use these questions as a guide in developing the pre-meeting presentation. The speakers will also come prepared to ask the audience questions about the content or implications of the research presented in the paper.

6. Student Presenter: Two examples of what was done very well in this presentation: 1. 2. The area where improvement will be most beneficial: Class Feedback for Pre-meeting Presentations

7. Marisa Bartolomei, Ph.D., Professor, Cell and Developmental Biology, Co-director of the Epigenetics Program, University of Pennsylvania, https://hosting.med.upenn.edu/epigenetics/people/marisa-bartolomei/ Topic: Epigenetics and genetic imprinting in mammals Pre-meeting: April 1, 2016 (Friday), 4:00-5:30 PM 109 TH Morgan Building Student Lecture: April 4, 2016 (Monday8:00-8:50 AM, 109 TH Morgan Building Student Lunch: April 4, 2016 (Monday), 12:30-1:30 PM, 305 TH Morgan Building Seminar: April 4, 2016 (Monday) 4:00 PM, 116 TH Morgan Building Title: Why Parents Matter (Epigenetically): Genomic Imprinting in Health and Disease Host: Brian Rymond, rymond@uky.edurymond@uky.edu Reading list for Dr. Bartolomei: Antagonism between DNA hypermethylation and enhancer-blocking activity at the H19 DMD is uncovered by CpG mutations.Antagonism between DNA hypermethylation and enhancer-blocking activity at the H19 DMD is uncovered by CpG mutations. Engel N, West AG, Felsenfeld G, Bartolomei MS. Nat Genet. 2004 Aug;36(8):883-888. The cumulative effect of assisted reproduction procedures on placental development and epigenetic perturbations in a mouse model.The cumulative effect of assisted reproduction procedures on placental development and epigenetic perturbations in a mouse model. de Waal E, Vrooman LA, Fischer E, Ord T, Mainigi MA, Coutifaris C, Schultz RM, Bartolomei MS. Hum Mol Genet. 2015 Dec 15;24(24):6975-6985. Genomic imprinting in development, growth, behavior and stem cells.Genomic imprinting in development, growth, behavior and stem cells. Plasschaert RN, Bartolomei MS. Development. 2014 May;141(9):1805-1813. Review

8. Ronald Breaker, Ph.D., Henry Ford II Professor of Molecular, Cellular, and Developmental Biology and Professor of Molecular Biophysics and Biochemistry, HHMI Investigator, Member of the National Academy of Sciences, Yale University http://www.hhmi.org/scientists/ronald-r- breakerhttp://www.hhmi.org/scientists/ronald-r- breaker Topic: Expanding biological roles for non-coding RNA Pre-meeting: April 22, 2016 (Friday), 4:00-5:30 PM 109 TH Morgan Building Student Lecture: April 25, 2016 (Monday8:00-8:50 AM, Building Student Lunch: April 25, 2016 (Monday), 12:30-1:30 PM, 305 TH Morgan Building Seminar: April 25, 2016 (Monday) 4:00 PM, 116 TH Morgan Building Title: Prospects for Bacterial Noncoding RNA Discovery Host: Brian Rymond, rymond@uky.edurymond@uky.edu Reading list for Dr. Breaker Widespread genetic switches and toxicity resistance proteins for fluoride.Widespread genetic switches and toxicity resistance proteins for fluoride. Baker JL, Sudarsan N, Weinberg Z, Roth A, Stockbridge RB, Breaker RR. Science. 2012 Jan 13;335(6065):233-235. New classes of self-cleaving ribozymes revealed by comparative genomics analysis. Weinberg Z, Kim PB, Chen TH, Li S, Harris KA, Lünse CE, Breaker RR. Nat Chem Biol. 2015 Aug;11(8):606- 610 An ancient riboswitch class in bacteria regulates purine biosynthesis and one-carbon metabolism.An ancient riboswitch class in bacteria regulates purine biosynthesis and one-carbon metabolism. Kim PB, Nelson JW, Breaker RR. Mol Cell. 2015 Jan 22;57(2):317-328. Prospects for riboswitch discovery and analysis.Prospects for riboswitch discovery and analysis. Breaker RR. Mol Cell. 2011 Sep 16;43(6):867-879. Review.

9. Topic: Genome scale studies related to the complex physiology and ecology of novel anaerobic microorganisms Pre-meeting: February 19, 2016 (Friday – first of 601 event), 4:00-5:30 PM, Cameron Williams Lecture Hall (Plant Sciences Building) Student Lecture: February 22, 2016 (Monday), 8:00-8:50 AM, Cameron Williams Lecture Hall (Plant Sciences Building) Student Lunch: February 22, 2016 (Monday), 12:30-1:30 PM, Room 460 Plant Sciences Building Seminar: February 22 (Monday) 4:00 PM, Cameron Williams Lecture Hall (Plant Sciences Building) Title: TBA Host: Seth DeBolt, sdebo2@email.ukysdebo2@email.uky Reading list for Dr. Lovely: Derik Lovely, Ph.D., Distinguished University Professor, Microbiology Department, University of Massachusetts, Amherst https://www.micro.umass.edu/faculty-and-research/derek-lovley

10. Raymond Trievel, Ph.D., Associate Professor, Biological Chemistry, University of Michigan http://medicine.umich.edu/dept/biochem/raymond-trievel-phd Topic: Structures, mechanisms, and substrate specificities of chromatin modifying enzymes Pre-meeting: March 11, 2016 (Friday), 4:00-5:30 PM, Cameron Williams Lecture Hall (Plant Sciences Building) Student Lecture: March 21, 2016 (Monday), 8:00-8:50 AM, Cameron Williams Lecture Hall (Plant Sciences Building) Student Lunch: March 21, 2016 (Monday), 12:30-1:30 PM, Room 460 Plant Sciences Building Seminar: March 21 (Monday) 4:00 PM, Cameron Williams Lecture Hall (Plant Sciences Building) Title: TBA Host: Seth DeBolt, sdebo2@email.ukysdebo2@email.uky Reading list for Dr. Trievel: TBA