GRADUATE PROGRAM IN EVOLUTION . - Department Of
Ph.D. and M.S. in Evolution, Ecology and Behavior and PhD Minor in EEBDepartment of Biology, Indiana University, Bloomington2019-2020 (29 July 2019 Version)CONTENTSPAGEI. PhD Program in Evolution, Ecology, and Behavior . 2(1) Coursework (typically first and second years of study) .3(A) Formal course credits . 3(B) Grade requirements for courses . 4(C) Research credits . 4(i) L800 credits, (ii) G901 credits, (iii) Grading of research credits . 4(D) Transfer of graduate credit . 4(2) First year expectations, beyond coursework . 4(A) Mentoring of first-year students .4(B) Research area, research advisor, committee meeting .5(C) Your research advisor . 5(D) Advisory committee . 5(D) First committee meeting: goals . 5(3 and 4) Years 2 and 3: Qualifying examinations . 6(A) Overview . 6(B) Retake option . 7(3) Year 2: Qualifying examination part 1, 'Breadth of Knowledge' . 7(A) Format . 7(B) Breadth . 7(C) Role of major advisor . 8(D) Report of decision . 9(4) Year 3: Qualifying examination part 2, 'Research Skills' . 9(A) Format . 9(5) Post Qualifying Exams: What is Next? Years 3 and beyond .9(A) Admissions to candidacy . 9(B) Official nomination of the research committee . 9(C) Citizenship in EEB .10(D) Requirement for continuous enrollment. 10(E) Requirement for service as an Associate Instructor (at least one semester) . 10(6) Dissertation defense . 11(A) 'Penultimate' committee meeting . 11(B) Submitting and defending the dissertation . 11(C) Time limits, extensions, and revalidation . 12(7) A minor in EEB (for students outside EEB) . 13Table 1: Summary of key deadlines and key tasks for the EEB PhD Program . 14II. MS In Evolution, Ecology and Behavior . 15(1) Description of the MS program in EEB . 15(A) Advisor and Advisory Committee . 15(B) Course requirements .15(C) Grade average and time limits .15(D) Thesis or alternative project . 16(E) Certification . 16(2) Departmental transfer policy: MS to PhD or PhD to MS . 16(A) Master's to PhD . 16(B) PhD to Master's: Overview and specific procedures .17III. Miscellany .17(1) Flexibility in degree requirements . 17(2) Alternative career objectives .17BOXES Box 1: Concentration area courses. 3Box 2: Description of the minor . 3Box 3: More about advisory and research committees . 6Box 4: Procedure for transfer from Ph.D. to Master’s degree in the Department of Biology . 18
I. PhD PROGRAM IN EVOLUTION, ECOLOGY, AND BEHAVIORIntroduction:The Doctoral (Ph.D.) degree in the graduate program in Evolution, Ecology, and Behavior (EEB) may beobtained in a variety of concentration areas or in an individually tailored program. In addition to the specificrequirements of the EEB Program described below, students must meet the general requirements of theDepartment of Biology and those of the University Graduate School (UGS), as described in the Bulletin. Allnew students and students approaching critical milestones (First Committee Meeting, QualifyingExamination, Finishing Thesis or Dissertation) should consult the Bulletin to be sure they are in compliancewith relevant rules. It is the student's responsibility to make certain that her/his program meets her/hispersonal objectives and conforms to the regulations and requirements of the Graduate School, of theDepartment of Biology, and of the EEB Program.Program Overview:Students in the PhD program follow a typical timeline (Figure 1). This timeline governs the structure of thematerial in this handbook. See also the summary Table 1 and the EEB Checklist form.Figure 1. General time course of a PhD in EEB at Indiana.(1) Coursework (major andminor), preliminaryexperiments, rotations01(5) Dissertation research, publishing along the waygoing to conferences, Brown bag talk(s)234(4) “Research Skills”(2) Committee(3) Breadth ofexam (Qualifyingmeeting, chooseknowledge examminor(Qualifying Exam, Part 1) Exam, Part 2)5Year(6) ‘Penultimate committeemeeting, dissertation defense,post-doc applicationsKey forms:1. EEB: Checklist2. EEB: Committeemeetings3. EEB: L500/L501credits4. College: AdvisoryCommittee5. UGS: NOR form6. UGS: Change incommittee7. UGS: PhDannouncementEEB Faculty:EEB Graduate Faculty are composed of 20 scientists. We are listed here.EEB Grad Program Contact:Advisor for Graduate Affairs: Myers 150, biogrdav@indiana.edu, 5-1861EEB Graduate Program Director (GPD): Spencer Hall (before 1 Oct), JH 239, eebgpd@indiana.edu,5-6009; After 1 Oct: Leonie Moyle, lmlmoyle@indiana.edu, 6-7027, JH 325Director of Grad.Studies (DGS), Biology: Tuli Mukhopadhyay, SI 220C, biodgs@indiana.edu, 6-3686Key Abbreviations: GPD: Grad Program Director; DGS: Director of Graduate Studies of Biology; UGS:University Graduate School; CGO: College Graduate Office; NORC: Nomination of Research Committee2
(1) Coursework (typically first and second years of study)(A) Formal Course Credits:A total of 90 credit hours comprised of 29 formal class course credits is required by the EEB Grad Program.Course credits include:(1) a 20 credit ‘major’ (composed mostly of EEB courses, withBox 1: Concentration area coursesexceptions approved by the EEB Graduate Program DirectorEcology/Population Biology[GPD]), including two courses from one concentration area listed inE455/556 (SPEA) LimnologyBox 1 and one course from a second area;L575 Biodiversity and Eco. Functioning(2) a six credit ‘minor’ (taken within Biology or through anotherdepartment: credits vary from 6 to 12; see Box 2); and(3) a three credit statistics class (S681 Biometry or equivalentagreed upon by Advisor Committee).Up to six credits in the ‘major’ may come from three sources:(A) Z620 journal clubs (offered during some semesters)(B) L500 Independent Study/Readings (graded), and/or(C) L501 Rotations (graded).L500/L501 credits require written summaries approved by the students’graduate advisor(s) and Advisory committee using the form at theEEBGrads Box site. Not more than four credits may come from any ofsources (A) - (C).Box 2: Description of the minor1:Each EEB student must complete coursework for a minor. Theminor may be obtained from:- within Biology (Genetics or Microbiology, which also hasBacteriology and Virology)2,- a separate department (e.g., Informatics, Statistics,Environmental Science from SPEA, Geology, Geography,Education, typically best described in the UGS Bulletin),- an interdepartmental program (e.g., Animal Behavior), or- an ‘Individualized minor’.EEB will waive the three credit requirement in statistics forstudents minoring in Statistics (12 credit).Please note: Requirements are set by the unit administering theminor but consist of a minimum of 6 credits up to a maximum of12 credits. Each student must have a minor advisor, who ensuresrequirements for the minor are completed successfully.1Advisors for the Genetics minor include Core (top) and Affiliated(bottom) members of GCDB Grad program but also these EEB Faculty:Delph, Hahn, Knox, Lively, Moczek, Moyle, Palmer, Ragsdale, Wade(per 5/12/2016 policy). Advisors for the Micro minor include Core (top)and Affiliated (bottom) members from the Micro Grad program.23L577 Theoretical EcologyL578 Advanced Population BiologyL579 Community EcologyL591 Plant Population Biology—AnExperimental ApproachZ620 Ecological NichesZ620 Ecological StoichiometryZ620 Ecosystems and Global ChangeZ620 Quantitative BiodiversityEvolutionary BiologyL505 Molecular Biology of EvolutionL567 EvolutionL568 Evolutionary GeneticsL533 Evolution of Genes and GenomesL534 Evolution of Cells and ProteinsZ540 Genetics of Structured PopulationsZ620 Evolution of DevelopmentZ620 PhylogeneticsZ620 SystematicsI590 (INFO) SNP Discovery andPopulation GeneticsG562 (Geo Sci) GeometricMorphometricsBehavior/PhysiologyA501 Techniques in Repr. DiversityL553 Sensory EcologyL560 Physiological EcologyL581 Behavioral EcologyZ460 Animal BehaviorZ466 EndocrinologyZ563 Comparative Neurobiology ofAnimal BehaviorZ566 Laboratory in EndocrinologyP548 NeuroethologyNote 1: Other courses may be approvedby Advisory Committee, and then GPDNote 2: Only a subset of these classes areoffered every yearNote 3: Courses likely dead forever:L533, L534
Brown Bag requirement: Additionally, two credits in the major should come from L570 'Brown Bag'(formally: 'Seminar in Ecology and Environmental Biology'; 1 credit per semester, so enroll 2 times,typically done in the first year, but perhaps taken one semester each in the first two years).(B) Grade Requirements for Courses:Only grades of 'B-' or higher fulfill EEB major or minors (but all courses count in the overall GPA). Studentsmust maintain a 3.2 GPA or higher to receive support from Biology (as Associate Instructors or from InternalFellowships). The University Graduate School requires a cumulative GPA of 3.0 or higher. Students notmeeting this UGS requirement are placed on Academic Probation. (If placed on probation, students mustraise the cumulative GPA above 3.0 during the next semester or face dismissal from the Graduate School).(C) Research Credits:(i) L800 Credits: Remaining credit hours come from dissertation research (L800). Most 1st-3rd yearstudents should have a total of 12 credits per semester - so L800 credits typically are added to formalcourse credits to reach 12. Fourth year students must have at least 6 credits (L800).(ii) G901 Credits: After 90 credits have been taken and students become PhD Candidates (i.e., formalcoursework is completed, Qualifying Exams Part 1 and 2 are passed), students may enroll in G901Advanced Research to maintain 'active status'. This 6 credit course has very low fees (c. 100/semester),providing an inexpensive way for some students, typically funded on fellowships or researchassistantships, to maintain a full load. (Students typically want to take G901 credits whenever possible toreduce fees that they must pay).(iii) Grading of Research Credits: Passing grades in research courses for work done toward Ph.D.dissertation will be graded R ( evaluation deferred) until the research project is complete (i.e., thedissertation is defended and all requirements are met). A total of 90 graduate credit hours or theequivalent is required. Because the Ph.D. is a research degree, a substantial number of these credit hourswill be in L800 Research.(D) Transfer of Graduate Credit:Graduate work taken elsewhere may qualify for transfer credit toward the Ph.D. and may be substituted forrequired or elective courses. The appropriateness of proposed substitutions will be determined by thestudent's Advisory Committee. No more than 30 credits by transfer can be accepted for the Ph.D. Anycourses which become 7 years or older by date of candidacy must be revalidated by UGS.Any changes described here to course requirements can (but do not have to) apply retroactively.(2) First year expectations, beyond coursework(A) Mentoring of First-Year Students:During the first semester of the PhD, each new student must meet at least once with his/her faculty mentor(typically the advisor). This meeting should happen at six to eight weeks into the semester, then again at theend of the semester. At this meeting, student and mentor to discuss progress in courses and rotations and,where relevant, the Associate Instructor experience. In addition to these required meetings, the student isencouraged to meet with his/her mentor as useful.(B) Research Area, Research Advisor, Committee Meeting:4
In their first year, Ph.D. students make a preliminary choice of a thesis research area, select a faculty researchsponsor (advisor), and form an Advisory Committee. Before the end of their second semester (early May),students should meet with their Advisory Committee at least once to determine course work requirements,review plans for summer research, and discuss plans for Qualifying Examination Part 1: Breadth ofKnowledge. Students must have joined a lab before the end of May in order to remain in good standing inthe program.(C) Your Research Advisor:Each student must obtain the agreement of a faculty member in the Department of Biology to serve as thePh.D. Research Advisor. (Students do not 'choose' an advisor; they form an agreement for a student-advisorrelationship). Until the student forms that agreement with an Advisor, the EEB Graduate Program Directorwill serve in that role. The Advisor will help the student plan a coherent program of courses and researchcommensurate with the student's interests and the requirements of the program, and will oversee theformation of an Advisory Committee. A Research Scientist can serve as an advisor, but the UniversityGraduate School requires a tenured co-advisor unless the RS is "endorsed to direct dissertation committees"(as explained here, list here).(D) Advisory CommitteeThe Advisory Committee must consist of four or more members, at least two of which must be full membersof the Graduate Faculty. The Advisory Committee must also include at least two faculty from EEB and onefrom the minor area. In practice the Advisory Committee is usually chosen by mutual agreement between theAdvisor and the student. The student then contacts the potential Committee members to obtain theiragreement to serve on the Advisory Committee. Box 3 describes both the Advisory Committee (preCandidacy) and Research Committee (post-Candidacy) in more detail.(E) First Committee Meeting: GoalsThe first meeting of the student's Advisory Committee must be convened before the end of the secondsemester of study in the Ph.D. Program. At this meeting, students:* discuss goals and intended area of concentration,* review her/his past graduate course work and plan additional course work, and* review research plans for the summer and beyond in preparation for Qualifying Exam Part 2 "ResearchSkills".At this time the Advisory Committee will identify any deficiencies in course work. At the AdvisoryCommittee's judgement, deficiencies may include any basic requirements not already satisfied, as well asadditional courses in biology, chemistry, or other academic areas, or the learning of ancillary skills such asstatistics or computer science. The Advisory Committee will also decide the time for, and schedule of, thestudent's Qualifying Examination part 1 'Breadth of Knowledge'.Form for Advisory Committee: The College's Appointment of Advisory Committee eDoc is typicallysubmitted to the College Grad Office after this meeting.Committee meeting report: After the committee meeting (and each one subsequent), advisors should fill outthe committee meeting form, save it to the student's IU Box folder, and email it to the Graduate Advisor andEEB GPD. It is the advisor's and student's joint responsibility to ensure that this form is completed.5
Box 3: More about Advisory and Research Committees1. Eventually, each student must formally set four members of the 'Research Committee' with UGS – and each mustbe on IU’s Graduate Faculty list. Two or more must be from EEB. Research Scientists can serve if they are GraduateFaculty. At least two members must be "endorsed to direct dissertations' (defined here, list here). This ResearchCommittee is formally established with UGS post-Candidacy. The pre-Candidacy 'Advisory Committee' (set with theCollege) requires four members, but one can be from outside IU. (Thus, the Advisory Committee is more flexible thanthe Research Committee set later).2. For the Research Committee, students can still have a 5th outside member. Typically, this member providesparticular expertise to the committee not available at IUB.3. Committee meetings, held annually (once per academic year) require a quorum (three for a committee of four orfive), present either in person or electronically. A quorum is required for preliminary exams parts 1 and 2. Allmembers must be present for dissertation defenses (as required by UGS – exception noted in the Appendix).4. Before coming a candidate (1st and 2nd year), students must recruit a ‘Minor Advisor'. The Minor Advisor musthave authorization to approve the minor coursework through the minor’s home department or graduate program. ThisMinor Advisor must remain on your committee at least through written prelims (Qualifying Exam, part 1). This MinorAdvisor provides one of the four written questions in that exam (since the minor is represented on the exam).5. After your Qualifying Exam part 1, committee membership can be changed, if desired. For instance, it may bepreferable to replace the Minor Advisor with an EEB faculty for Qualifying Exam part 2 proposal defense or beyond.The key point: committee membership is flexible. If you make changes, please update the Advisor for Graduate Affairsand resubmit your Advisory Committee form to the College Grad Office.6. Usually after Candidacy but no later than Spring of the fourth year of study, students solidify membership of theResearch Committee online with UGS from one.iu.edu, using the ‘Nomination of Research Committee’ form, aka, theNOR form. Changes to committee makeup afterwards require submission, again via one.iu.edu, of the 'Change ofResearch Committee' form to UGS.7. IMPORTANT: Requirement for Annual Meeting and 'Good Standing': Each student must hold a committeemeeting at least once per academic year to remain in 'good standing' with the EEB Graduate Program. The results ofthis meeting must be reported on the committee report form, saved to the student's IU Box folder, and sent to theGraduate Office. Students should report the meeting to the Advisor for Graduate Affairs to ensure paperwork iscompleted. At this annual meeting, students must maintain 'satisfactory' academic progress toward the degree, astandard set by the Research Committee and the EEB Graduate Program. Students not meeting this standard are not in'good standing' and placed on academic probation for one semester by UGS. If the student does not demonstrateprogress during that probation, UGS will dismiss the graduate student.(3 and 4) Years 2 and 3: Qualifying Examinations(A) Overview:The Ph.D. qualifying examination aims to determine preparation for independent research. It is difficult toassess the ability to do creative, rigorous research. The Committee will thus look for:* a solid background in relevant basic biology and the physical sciences;* familiarity with and ability to manipulate important concepts in EEB, especially the ability to derivefrom them a significant question for research;* the ability to structure experiments or observations in such a way as to answer questionsunambiguously;* the ability to analyze correctly and to interpret creatively the results of experiments or observations;* the ability to derive the next step in the process of investigation; and* the ability to communicate effectively with other scientists orally and in writing.6
The exam is structured in two parts, typically taken in years 2 and 3 separately.Structure of the Qualifying Examination, Parts 1 and 2Part 1. Breadth of Knowledge: A written examination with an oral defense.– Students demonstrate mastery of the major ideas and research strategies appropriate to theconcentration area, as well as mastery of effective written and oral communication.– Questions are formulated by the Committee members and given to the student on the first day ofa six week written examination period.– This part must be passed prior to the 13th week of the student's fourth semester in the EEBprogram.Part 2. Research Skills: A preliminary research project report, a proposal for dissertationresearch, and an oral defense of both.– Student demonstrates ability to engage in active research and to appropriately analyze andinterpret the data that student derives. In addition, it is the point at which the committee mustapprove the dissertation proposal.– This part must be passed prior to end of the student's sixth semester in the EEB program.See below for details on each exam.(B) Retake OptionIn the event of failure of the exam prior to the deadline, a student may retake each component only once.This retake must be completed before the deadline specified for that component. Failure to pass either partsatisfactorily within the allotted time during the retake will result in dismissal from graduate study. Studentswho fail the examination must be reexamined by the same committee unless the student has changedadvisors. In that event, a majority of the new committee must have been members of the original committee.(3) Year 2: Qualifying Examination Part 1, 'Breadth of Knowledge'(A) Format1. Number of questions: Students will research and prepare written answers on 4 questions chosen by theiradvisory committee during a 6-week period of study.2. Length of answers: The written answers to each of the 4 questions are to contain full text citations and tobe 4-6 double-spaced pages in length (not to exceed 2000 words).3. References cited: A References Cited section must accompany each written answer and shall not counttoward the page/word limit.4. Nature of the answers: Answers should exhibit the student’s proficiency at synthesizing the literature andat staking out their own intellectual positions, rather than being a simple summary of all literature and ideasrelevant to the question.5. Timing:A. Submission of answers: The 4 written answers will be turned in to the major advisor on the day7
following the 6-week period.B. Timing of oral exam: An oral exam will be scheduled within 1 week of the end of the 6-week studyperiod. After a question and discussion period during the oral exam, the major advisor will facilitatediscussion among the faculty examiners about the student's performance and the committee will decidethe exam outcome.(B) Breadth:The 4 exam questions shall encompass at least three different areas relevant to the student’s researchscholarship, including the student’s core area (e.g. Evolution, Ecology or Behavior) and the minor.Appropriate areas include but are not limited to ecology, evolution, behavior, physiology, neuroscience, anddevelopment. Any given question may bridge more than one area.Although the questions are designed to assess breadth of knowledge, they can be related to the student'sspecific research project(s). As one example, an evolution question for a plant ecology graduate studentworking on plant-microbe interactions might focus on coevolution between plants and microbes. Likewise, abehavior question for the same student might address some aspect of plant 'behavior', such as mechanisms ofinformation exchange between or within plants or between plants and other organisms. Such questions canbe tailored so that the student also needs to explore and articulate general concepts in the area (e.g. Wright'sadaptive landscapes, levels of selection, Tinbergen’s ‘Four Questions’). This approach will foster wellrounded graduate students who are able to think outside the box of their own specialty, understand therelevance of other major disciplines to their own research interests, and synthesize knowledge across fields.(C) Role of major advisor:The major advisor will be responsible for writing no more than 1 question and soliciting 2 exam questionsfrom each of the 3 other committee members, for a total of 7 questions. Questions should be solicitedsufficiently in advance of the exam period. The major advisor will lead the decision-making about whichareas each committee member provides questions on and should review the questions and suggest or requestmodifications as necessary, including the possibility of merging questions to create more synthetic ones. Themajor advisor will have the responsibility of arriving at 4 exam questions from the original 7 questions thatencompass at least 3 different areas and the committee as a whole will have final approval of the 4 questions.The major advisor shall provide a written copy of the questions to the graduate examinee on the first day ofthe 6-week exam period.(D) Report of Decision:Following the oral exam, the major advisor will provide a detailed summary of the committee'sdecision, including an assessment of strengths as well as any areas for continuing progress. A writtencommunication of this summary (using the committee meeting form) should be recorded on the sent to theGrad Advisor (biograd), the EEB GPD (eebgpd), and directly to the student. The major advisor is alsoexpected to have a more in depth one-on-one with the graduate examinee to discuss the student'sperformance on the written and/or oral portion of the exam when needed or if requested by the student.8
(4) Year 3: Qualifying Examination Part 2, 'Research Skills'(A) Format:(i). Written format: The student submits to the Advisor and Committee a written report on preliminaryresearch and a w
(formally: 'Seminar in Ecology and Environmental Biology'; 1 credit per semester, so enroll 2 times, typically done in the first year, but perhaps taken one semester each in the first two years). (B) Grade Requirements for Courses: Only grades of 'B-' or higher fulfill EEB major or mi
Evolution 2250e and Evolution 3250e are equipped with a 2500 VApower supply. The Evolution 402e and Evolution 600e are equipped with a 4400 VA power supply, and the Evolution 403e and Evolution 900e house 6000 VA power supplies. Internal high-current line conditioning circuitry filters RF noise on the AC mains, as well as
Chapter 4-Evolution Biodiversity Part I Origins of life Evolution Chemical evolution biological evolution Evidence for evolution Fossils DNA Evolution by Natural Selection genetic variability and mutation natural selection heritability differential reproduct
UCF Graduate Program Handbooks 2016 2017 Last Updated 2011 06 21 Optics and Photonics MS Together, the Graduate Student Handbook and your graduate program handbook should serve as your main guide throughout your graduate career. The Graduate Student Handbook includes university information, policies, requirements and guidance for all .
UCF Graduate Program Handbooks 2016 2017 Last Updated 2011 05 31 Aerospace Engineering MSAE Together, the Graduate Student Handbook and your graduate program handbook should serve as your main guide throughout your graduate career. The Graduate Student Handbook includes university information, policies, requirements and guidance for all .
COLLEGE OF ARCHITECTURE AND DESIGN GRADUATE HANDBOOK Draft Updated: August 2014 Page 3 OVERVIEW OF GRADUATE HANDBOOK In accord with established Graduate School Policies (See UTK Graduate Catalog), The College of Architecture and Design (CoAD) Graduate Handbook describes specific how these policies are carried out in the CoAD Graduate Programs of Architecture and Landscape Architecture.
Graduate College 2012-13 Graduate Catalog First Edition published July 2012 Missouri State Graduate College Graduate Catalog Graduate Faculty Graduate Faculty
2014-2015 Graduate Catalog UConn 7 To study for a graduate degree, a student must be matriculat-ed by the Dean of The Graduate School before the first (1st) day of classes in their admitted term. No coursework taken before the date of admission to The Graduate School may be includ-ed on a plan of study for a graduate degree unless specific ap-
Virginia Tech Graduate School supports Interdisciplinary Graduate Education Programs (IGEPs) to promote and sustain graduate education and research across fields, programs, colleges, and campuses. More than 300 graduate students currently participate in the 14 Graduate School-supported IGEPs. Each IGEP addresses a major fundamental problem or
