Iowa State University College of Veterinary Medicine CVM Graduate Student Syllabus Contents ISUCVM Graduate Curriculum Committee

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1 BMS 575 Fall 2016 (also listed as TOX 575) Iowa State University College of Veterinary Medicine CVM Graduate Student Syllabus Contents ISUCVM Graduate Curriculum Committee 1. Basic Information a. Course name and number: Cell Biology, BMS 575, TOX 575 b. Number of credit hours: 3 c. Time and location: Vet Med Room 2025 (1:10-2:00 PM; Mondays, Wednesdays and Fridays) 2. Instructors a. Name of the instructor- in-charge other instructors, course coordinators, teaching assistants, and other facilitators Ravindra Singh (Instructor-In-Charge) Vellareddy Anantharam (Instructor) Matthew Howell (Instructor) Walter Hsu (Instructor) Brian Lee (Instructor) Natalia Singh (Instructor) Souvarish Sarkar (Teaching Assistant) b. Contact information for instructors and other teaching personnel Ravindra Singh Instructor-in-charge Office: 2034 Vet Med Phone: singhr@iastate.edu Vellareddy Anantharam Office: 2024 Vet Med Phone: anantram@iastate.edu Brian Lee Office: 1098 VetMed Phone: brianlee@iastate.edu Matthew Howell Office: 2069 VetMed Phone: mhowell@iastate.edu Walter Hsu Office: 2030 Vet Med Phone: whsu@iastate.edu Natalia Singh Office: 2060 Vet Med Phone:

2 Souvarish Sarkar Teaching Assistant c. Office hours, locations, address, phone number of those instructors 3. Prerequisites Help students to realistically assess their readiness for the course by listing knowledge, skills, and experience expected of the incoming student. 10 credits in biological sciences or permission of the instructor 4. Goals and Objectives a. Overview of the course's purpose This course provides a thorough overview of molecular biology of cell. Major topics include regulation of DNA replication, transcription, translation, RNA metabolism, energy metabolism, macro-molecular trafficking, cell communication and extracellular matrix. Additional focus would be on molecular basis of human and animal diseases. Course will also cover potential therapeutic approaches. b. Subject matter and how the course fits into the curriculum This course will help students achieve a better knowledge of Cellular and Molecular Biology, which is an integral part of both the graduate and professional curricula c. General Learning Goals/Competencies. (These statements should describe, in a broad sense, what the students will be able to do as a result of participating in the course.) Graduate students will be able to better design their experiments and interpret results. For those students seeking admission to medical schools, course will help achieve a better score in Medical College Admission Test (MCAT). d. Conceptual structure used to organize the course. Why topics are arranged in a given order and the logic of the themes and concepts as they relate to the course structure. The course is organized from building concepts to understanding complex mechanisms. e. Specific Objectives (2 to 10 statements per goal describing in detail what students will be able to do when the course concludes.) The objectives of the course are given below: (i) Understanding the molecular basis of cellular structures. Students will be able to know what are the major components of cell and how these components interact among each other. (ii) Understanding the molecular basis of cellular functions. Students will know how interactions of macromolecules drive cellular processes. Students will be taught mechanisms of transcription, posttranscriptional regulation and translation? (iii) Understanding the RNA world. Students will be exposed to RNA world concept. They will learn how information is stored in RNA sequence as well as in structure. They will be taught the role of RNA in catalysis during splicing and protein synthesis. (iv) Understanding the methods of protein purification and DNA cloning. 2

3 (v) (vi) (vii) (viii) (ix) Students will learn how to purify proteins. They will also learn the type of information could be obtained by DNA cloning. Understanding the cell communication. Students will be able to know how does the signal is transmitted within a cell and what are the molecules involved in that process? Visualizing cells. Students will learn techniques used for visualizing cells and cellular components. They will also learn the type of information gleaned from visualizing cells. Understanding the cytoskeleton. Students will be taught the major components of cytoskeleton and how muscle contraction is governed. Understanding the cell cycle. Students will be taught the mechanism of cell cycle. They will know how transcriptome and proteome are reprogrammed during cell cycle. Understanding the cell death. Students will know the causes of cell death. They will also know what is apoptosis and how cells use this mechanism to protect the organism. 5. Course teaching philosophy/ learning activities Describe the format or activities of the course including general course teaching philosophy and how the course will be taught specifically (e.g. lecture, case discussion, blended, clinic experience, field work, research projects, etc.) This course is meant to challenge students to ask innovative questions in a rapidly evolving field of cellular and molecular biology. Given the varied background and style of instructors, students will have an opportunity to assimilate multiple perspectives. Course format will be units of ~45 lectures (50 min each). Instructors will give a thorough overview of general topics in the individual units with some in depth analysis and discussion of selected topics. To gauge the level understating of a particular topic in the real time, instructor may use in-class quizzes during the lecture. Therefore, daily presence in the classroom is factored in the evaluation of a student. In addition, each instructor through written test comprised of short as well as multiple-choice questions will evaluate students. Instructors will provide study guides with specific questions that will closely approximate questions most likely to appear in the test. However, additional material covered in the class and which may not necessarily be included on the study guide may also appear in the test. There will be 3 or more tests during the semester. Each test will cover the materials from the preceding lectures. Instructors will announce timings and venues of tests as and when necessary. Scores from all tests will be compiled to get the final score. There will not be a comprehensive final exam. 6. Textbooks a. Required Texts/Readings: Alberts et al., Molecular Biology of the Cell, 6 th ed., 2015 b. Additional equipment or materials needed and sources (e.g., glossary of terms and jargon, etc.) The Problem Book, Molecular Biology of the Cell, 6 th ed., Available Resources a. Instructor recommendations on how to study or take notes; Student are suggested to read the respective chapters before the lectures and take in-class notes. b. Information about resources such as tutoring, study skills help, or relevant labs; Students will have access to recordings of lectures. c. More in-depth readings, advanced topics, or remedial refreshers Students are encouraged to use other resources including online resources on the topic. 3

4 d. Use or non-use of prior examinations or sample questions Students will receive a study guide comprised of a set of questions that are likely to be asked in the test 8. Tests and Grading a. Grading and nature of tests and/or other assignments: Tests will be comprised of short answer questions, multiple-choice questions and true and false questions. b. Examination Dates: There will be four tests c. Quizzes: Some instructors may give quizzes d. Makeup policy: Makeup exams are arranged if a student is missing for genuine emergency e. Policy on late work: Not applicable f. Policy on Attendance: Attendance is required for classes g. Grading system: i. Components of the final grade: Final grade is calculated based on scores of all exams ii. Weights assigned to each component: Each component (exam) is weighed based on lectures covered iii. Grading scale and criteria: Grading is relative and scores are adjusted based on the highest score iv. Individual(s) responsible for grading: Instructors will grade their respective sections of exams and provide a relative score to instructor-in-charge. v. Special policies such as extra credit, optional activities, dropping grades, etc. There is no provision for extra credit h. Any other requirements such as group assignments, individual consultation with instructor, etc. None Grading: There will be relative grading. Every instructor grades for his/her portion of the lectures. Person with the highest score will receive 100% by the instructor. Scores of the remaining students will be adjusted according to the highest score. Each instructor will send his/her final scores to Instructor In Charge who will multiply these scores by the number of lectures given by the instructor. All the scores from all instructors are added and then divided by total number of lectures. Once again, the highest score will be adjusted to 100%. Scores of the remaining students will be adjusted according to the highest score. Grade will depend upon score as follows: A =95-100%; A- = %; B+ = ; B = ; B- = ; C+ = %; C = %; C- = %. 9. Course Calendar Lectures Ravindra N. Singh (RNS) Lectures Brian M. Lee (BML) Lectures Matthew D. Howell (MDH) Lectures Ravindra N. Singh (RNS) Lectures Natalia N. Singh (NNS) Lectures Ravindra N. Singh (RNS) Lectures Vellareddy Anantharam (VA) Lectures Walter Hsu (WH) Exam 1 covers Lectures (September 23, 2016) Exam 2 covers Lectures (October 21, 2016) Exam 3 covers Lectures (November 11, 2016) Exam 4 covers Lectures (December 16, 2016) 4

5 Date: Topic: Learning Activity/ Reading/Test or Quiz Due: 22 Aug 2016 (MON) Cells and Genomes In class lecture-1 (Chapter 1) RNS 24 Aug 2016 (WED) Cells and Genomes In class lecture-2 (Chapter 1) RNS 26 Aug 2016 (FRI) Cell Chemistry and In class lecture-3 (Chapter 2) MBL Bioenergetics 29 Aug 2016 (MON) Cell Chemistry and In class lecture-4 (Chapter 2) BML Bioenergetics 31 Sep 2016 (WED) Cell Chemistry and In class lecture-5 (Chapter 2) BML Bioenergetics 02 Sep 2016 (FRI) Proteins In class lecture-6 (Chapter 3) BML 05 Sep 2016 (MON) Labor Day Break No Class 07 Sep 2016 (WED) Proteins In class lecture-7 (Chapter 3) BML 09 Sep 2016 (FRI) Protein purification In class lecture-8 (Chapter 8) BML 12 Sep 2016 (MON) Visualizing cells In class lecture-9 (Chapter 9) MDH 14 Sep 2016 (WED) The Cytoskeleton In class lecture-10 (Chapter 16) MDH 16 Sep 2016 (FRI) The Cytoskeleton In class lecture-11 (Chapter 16) MDH 19 Oct 2016 (MON) The Cytoskeleton In class lecture-12 (Chapter 16) MDH 21 Sep 2016 (WED) DNA and Chromosomes In class lecture-13 (Chapter 4) RNS 23 Sep 2016 (FRI) EXAM-1 Exam covers lectures 1 through 9 26 Sep 2016 (MON) DNA and Chromosomes In class lecture-14 (Chapter 4) RNS 28 Sep 2016 (WED) Genome In class lecture-15 (Chapter 5) RNS 30 Sep 2016 (FRI) DNA Replication and Repair In class lecture-16 (Chapter 5) RNS 03 Oct 2016 (MON) DNA Recombination In class lecture-17 (Chapter 5) RNS 05 Oct 2016 (WED) DNA to Protein In class lecture-18 (Chapter 6) NNS 07 Oct 2016 (FRI) DNA to Protein In class lecture-19 (Chapter 6) NNS 10 Oct 2016 (MON) DNA to Protein In class lecture-20 (Chapter 6) NNS 12 Oct 2016 (WED) Control of Gene Expression In class lecture-21 (Chapter 7) NNS 14 Oct 2016 (FRI) Control of Gene Expression In class lecture-22 (Chapter 7) NNS 17 Oct 2016 (MON) Control of Gene Expression In class lecture-23 (Chapter 7) NNS 19 Oct 2016 (FRI) Gene Expression & In class lecture-24 (Chapter 8) NNS Function 21 Oct 2016 (FRI) EXAM-2 Exam covers lectures 10 through Oct 2016 (MON) The Cell Cycle In class lecture-25 (Chapter 17) RNS 26 Oct 2016 (WED) The Cell Cycle In class lecture-26 (Chapter 17) RNS 28 Oct 2016 (FRI) The Cell Cycle In class lecture-27 (Chapter 17) RNS 31 Oct 2016 (MON) Cell Death In class lecture-28 (Chapter 18) RNS 02 Nov 2016 (WED) Membrane Structure In class lecture-29 (Chapter 10) VA 04 Nov 2016 (FRI) Membrane Structure In class lecture-30 (Chapter 10) VA 07 Nov 2016 (MON) Intracellular trafficking In class lecture-31 (Chapter 12) VA 09 Nov 2016 (WED) Intracellular trafficking In class lecture-32 (Chapter 12) VA 11 Nov 2016 (FRI) EXAM-3 Exam covers lectures 21 through Nov 2016 (MON) Membrane transport In class lecture-33 (Chapter 10) WH 16 Nov 2016 (WED) Membrane transport In class lecture-34 (Chapter 10) WH 18 Nov 2016 (FRI) Membrane transport In class lecture-35 (Chapter 10) WH Nov 2016 Thanksgiving Break No classes 28 Nov 2016 (MON) Cell Signaling In class lecture-36 (Chapter 15) WH 30 Nov 2016 (WED) Cell Signaling In class lecture-37 (Chapter 15) WH 02 Dec 2016 (FRI) Cell Signaling In class lecture-38 (Chapter 15) WH 05 Dec 2016 (MON) Cell Signaling In class lecture-39 (Chapter 15) WH 07 Dec 2016 (WED) Cell Signaling In class lecture-40 (Chapter 15) WH 09 Dec 2016 (FRI) Makeup class In class lecture Dec 2016 (FRI) EXAM-4 Exam covers lectures 31 through 41 5

6 10. Classroom Behavior, Including Computer and IT Classroom use Professional behavior conduct is in the Graduate Student Handbook and the ISU Policy on student classroom disruption applies Students are not permitted to have on their person or bring unauthorized written materials or electronic devices of any type into the examination room during written or practical examinations without permission of the instructor. Laptop computers are allowed only in examinations that are given electronically using the appropriate assigned student electronic device. If a student is observed to have an unauthorized electronic device during an examination or any unauthorized materials, the student will be quietly asked or given a written statement to stop their examination and be escorted from the room. At that point, the examination will be retained by the instructor or proctor. The event will trigger a thorough investigation of a possible academic dishonesty violation. 11. Academic Dishonesty Student conduct follows Iowa State University s policy on academic dishonesty found in the Graduate Student Handbook Academic dishonesty is considered a violation of the behavior expected of a student in an academic setting as well as a student conduct violation. A student found guilty of academic dishonesty is therefore subject to appropriate academic penalty, to be determined by the instructor of the course, as well as to penalty under the university student conduct regulations. The instructor/instructor-in-charge observing academic dishonesty reports the student suspected of academic dishonesty to the CVM Associate Dean for Research and Graduate Studies. The CVM Associate Dean for Research and Graduate Studies reports the alleged violation: If academic misconduct to the Associate Provost for Academic Programs and Dean of the Graduate College and to the Office of Judicial Affairs in the Dean of Students Office. Applicable rules and procedures may be found in the ISU Catalog under the Academic Life section. If research misconduct to the Vice President for Research. For Research misconduct, applicable rules and procedures are found in the in the section of the Faculty Conduct Policy entitled Faculty Misconduct (Section 7.2). In issues regarding conduct of research, graduate students are held to the same standards as faculty. Instances of graduate students suspected of academic misconduct that do not involve research are reported as above should be reported 12. Disability Accommodation Individuals with physical or mental impairments who are otherwise qualified to pursue their studies may request reasonable accommodations to enable them to continue their studies. For more information, see: Harassment and Discrimination 6

7 Iowa State University strives to maintain our campus as a place of work and study for faculty, staff, and students that is free of all forms of prohibited discrimination and harassment. For more information, or if you believe you are a victim of discrimination or harassment, please visit the following URL for additional guidance: Religious Accommodation There may be times when an academic requirement conflicts with religious observances and practices. If that happens, students may request reasonable accommodation of their religious practices Unforeseen Circumstances and Adaptation of the Syllabus Information in the syllabus is subject to change. Changes will be announced in class and posted on the course site on Blackboard Learn or the appropriate Learning Management System if this format is applicable. 7

Prerequisite: General Biology 107 (UE) and 107L (UE) with a grade of C- or better. Chemistry 118 (UE) and 118L (UE) or permission of instructor.

Prerequisite: General Biology 107 (UE) and 107L (UE) with a grade of C- or better. Chemistry 118 (UE) and 118L (UE) or permission of instructor. Introduction to Molecular and Cell Biology BIOL 499-02 Fall 2017 Class time: Lectures: Tuesday, Thursday 8:30 am 9:45 am Location: Name of Faculty: Contact details: Laboratory: 2:00 pm-4:00 pm; Monday