Microbiology and Immunology

An incoming IMB student is advised by a Graduate Education Committee (GEC) member in the programmatic requirements and in the selection of courses for the first semester (and for the second if a committee has not yet been formed and coursework approved). All IMB students have IMB Common Requirements. In addition to these, each emphasis has its own prerequisites and programmatic requirements (coursework, comprehensives, etc.).

• MS/PhD: Upper level Biochemistry (equivalent of BCH 480 and 482)
• MS/PhD: General Microbiology (equivalent of BIOM 360)
• MS/PhD: Immunology (equivalent of BIOB 410)
• MS/PhD: Medical Bacteriology & Mycology (equivalent of BIOM 402)
• MS/PhD: Microbial Genetics (equivalent of BIOM 410)
• MS/PhD: Virology (equivalent of BIOM 435)
• MS/PhD: Microbial Physiology (equivalent of BIOM 450)

• BIOM 502 Advanced Immunology, 3 cr.
• BIOM 509 Advanced Virology, 3 cr.
• BIOM 520 Medical Parasitology, 2 cr.
• BIOM 540 Molecular Pathogenesis, 3 cr.
• BCH 584 Nucleic Acids, 3 cr.
• BCH 582 Proteins and Enzymes, 3 cr.
• BCH 600 Cell Organization and Mechanisms, 3 cr.
• BIOB 541 Electron Microscopy Laboratory, variable cr.

M.S. Student Timeline - Defense must take place at least one week before the end of the semester

End of semester 1

• Select Research Advisor and assemble Advisory Committee
• In addition to the Research Advisor, the Advisory Committee must include at least one IMB faculty and one outside member.
• If the Research Advisor is not primarily affiliated with IMB, then the Advisory Committee must include an IMB committee member to serve as the Academic Advisor and the “Research Advisor” is referred to as the “Research Director.”
• Advisory committee meets and approves curriculum.
• Any course waivers are documented and forwarded to the GEC

End of semester 2

• Complete any missing prerequisite coursework
• Submit research proposal to Advisory Committee for approval
• The research proposal is a description of the work completed, in progress, and to be completed for the fulfillment of the research component of the MS degree.

End of semester 4

• Complete coursework

1 semester prior to graduation

• Apply for graduation

2 weeks before defense

• Send thesis to Advisory Committee
  Public notice of defense

1 week before defense

• Advisory Committee-approved draft sent to dean of the graduate school

After passing defense

• Signed Graduation Application to Graduate school

PhD Student Timeline - Defense must take place at least one week before the end of the semester

Select Research Advisor and assemble Advisory Committee. In addition to the Research Advisor, the Advisory Committee must include at least three IMB faculty and one outside

End of semester 2

• If the “Research Advisor” is not primarily affiliated with IMB, then the Advisory Committee must include an IMB committee member to serve as the academic advisor and the “Research Advisor” is referred to as the “Research Director.”
• Complete any missing prerequisite coursework

End of semester 3

• Advisory Committee meets and approves curriculum.
• Any course waivers are documented and forwarded to the GEC.
• Submit a preliminary dissertation research proposal to Advisory Committee.

End of semester 4

• The dissertation research proposal is a description of the work completed, in progress, and to be completed for fulfilling the research component of the PhD degree.
• This preliminary research proposal should emphasize key questions and the experimental approach, and briefly state the specific aims (two pages).

End of semester 5

• Pass the comprehensive examination (which consists of two parts: the written portion and the oral portion).
• Complete coursework
• Submit final dissertation research proposal and schedule to Advisory Committee for approval and defend it in a public forum, such as Data Club.

End of semester 6

• The dissertation research proposal is a description of the work completed, in progress, and to be completed for fulfilling the research component of the PhD degree.
• This research proposal serves as an informal contract that defines what must be completed before the student can apply for graduation (10 to 25 pages).

2 weeks before defense

• Send thesis to Advisory Committee
  Public notice of defense

1 semester prior to graduation

• Apply for graduation

2 weeks before defense

• Send thesis to Advisory Committee

1 week before defense

• Public notice of defense
• Advisory Committee-approved draft sent to dean of the graduate school

After passing defense

• Signed Graduation Application to Graduate school

Comprehensive Exam

The comprehensive exam includes a written portion and an oral portion. The written exam is either an out-of-field research proposal or two days of written questions; the Advisory Committee, with input from the student, will choose the format. The Examination Chair will be a member of the Advisory Committee and IMB faculty other than the student's Research Advisor or Academic Advisor. The student will pass the written and oral portions with no more than one negative vote. The oral exam is scheduled after the written exam is passed. If the oral exam is not satisfactory, the student should meet individually with each Committee member to discuss possible improvements. A second oral exam may be scheduled no sooner than one month and no later than three months after the first oral exam. An extension of the three-month limit may be made only by request of the Advisory Committee and by majority vote of approval from the IMB faculty. Upon successful completion of the comprehensive exam, and with the recommendation of the student's Advisory Committee, the Examination Chair signs that the student has passed the Comprehensive Examination on the Graduation Application on file in the DBS office. The student becomes a PhD candidate upon successful completion of the comprehensive exam. Failure to pass either the written or oral portions of the comprehensive examination after a second attempt will necessitate removal of the student from the doctoral degree program.

For this format, the student must write an outside, original research proposal, with the intent of focusing on a research problem and the approach required to address the problem. The topic will be outside of the student's dissertation research. The following criteria will be applied by the Advisory Committee to determine if the proposal topic is acceptable:

1. The system must be different than what the student is employing in the dissertation research.
2. The approach must be different from that which the student uses to pursue the dissertation problem.
3. The student will have to read literature not normally read for the dissertation research.

After consulting with the academic advisor, the student must present a brief (up to 500 words) description of two possible topics to the Committee for approval prior to initiating the written exam. The student will have five weeks from the time the topic is approved by the Committee to submit the out-of-field research proposal. The student will follow the guidelines for preparing the research portion of either an NSF or NIH (R01) grant application and include a biosketch. The scope of the proposal should be limited to experiments that can be performed within three years and should be no more than 12 single-spaced pages plus references. Preliminary data can be utilized from published sources with proper citation. (Students following the NSF guidelines should neglect the Broader Impacts section.) The ideas and approach must belong to the student, but the student can consult with other people, but not Committee members, about techniques.

The written examination will be submitted to the Committee for their approval. The Committee will have ten days to decide if the student has passed the written exam and if the proposal is defensible. Each Advisory Committee member will provide the student with a concise written critique. The student will pass with no more than one negative vote and will then schedule the oral examination within ten days. If the written exam is not satisfactory, the student should meet individually with each Committee member to discuss possible improvements and resubmit the written exam a final time within three months.

The oral exam will consist of two parts, for a total of no more than three hours:

1. Presentation of an overview of the research proposal for written comprehensive exam and a brief response to the Committee members' written critiques (no longer than 20 minutes).
2. Defense of the student's research proposal as well as examination of the depth and breadth of knowledge in the student's field of study and cognate areas, especially as it applies to the research proposal and the student's coursework. The student can be questioned on any topic that relates to the research proposal or completed coursework.

For this format, the student must answer written questions over a two-day period. Each member of the Advisory Committee will submit questions designed to probe both the depth and breadth of knowledge in the student's field of study and cognate areas depending on the student's goals. The written exam will take place over a two consecutive days. Each day, the student will be given seven questions and must choose five to answer. Before giving the student the written exam, the Examination Chair will consult with the other members of the Committee to insure the exam is relevant and fair to the student. A total score of 80% is required to pass the written exam. If the student fails, they can take the exam one more time within three months.

After passing the written exam, an oral exam, which will last no more than three hours, will be conducted to examine the student's depth and breadth of knowledge in his or her field of study and cognate areas.

Other requirements

The student must meet with his or her Advisory Committee once every year.

The student must complete and submit each January an annual evaluation that monitors progress in the graduate program and quality of teaching performance. Evidence of unsatisfactory progress for two years in succession or failure to address concerns of the Advisory Committee is grounds for academic probation or termination of the graduate assistantship.

The student must submit a preliminary dissertation research proposal (about two pages) to the Advisory Committee that briefly states the specific aims and focuses on the key questions and experimental approach before the end of the second year. The student must submit the final dissertation research proposal (10 to 25 pages including references) to the Advisory Committee before the end of the third year. The student must defend the research proposal in Data Club or a suitable public forum and the Advisory Committee will vote if it is acceptable.

The student must maintain a GPA of 3.0 or higher for the curriculum approved by the Advisory Committee, or the student will be placed on academic probation. The student has one semester to raise the GPA to 3.0 or higher; failure to raise the GPA to a satisfactory level will result in removal from the graduate program.

The PhD student must write and defend a doctoral dissertation, which describes original scientific research performed by the student and developed by the student with input from the Research Advisor or Research Director. The Research Advisor or Academic Advisor along with the Advisory Committee determine the length and content of the dissertation. The PhD requires demonstrating proficiency in the scientific method, mastery of the current state of knowledge in the field of study, and a substantive new contribution to the body of either knowledge or methodology in the field of study. The student must demonstrate a rigorous comprehension of the principles and current techniques in the field of study, a thorough understanding of scientific data and error analyses, an appreciation of academic and scientific ethics, and a competence in scientific writing and presentation.