Soran UniversityMicrobial Physiology Module Specification 1-Module TitleMicrobial Physiology2-Module Code-3-Module Level34-Module LeaderDr. Asma Karomi5-Teaching SemesterFirst6-Credit Rating for the module100%7-Prerequisites and co-requisitesBiochmistry; General microbiology8-co-requisitesNone9-Module Summary Gain a fundamental understanding of cellular composition, membrane transport, energy generation, diversity of metabolic processes, growth and cell death, and techniques used to elucidate physiological processes. Integrate primary scientific literature of microbiology to further your understanding of microbial physiology. Develop scientific writing skills and critical thinking about scientific research..10-Module Aims: - Introduce Microbial Physiology as a subject- Desribe the importance of microorganisms and their diversity in nature- Describe the differences between gram-positive and gram-negative cells11-Learning Outcomes Subject knowledge and skills: Understanding of the roles of C and N, and other major and minor nutrients, in the growth of archaea, bacteria and fungi, and how they are supplied, sequestered and stored. Understanding of the sources and methods of utilisation of energy by archaea and bacteria, distinguishing between the major modes of phototrophic and chemotrophic life-styles, and to be able to write appropriate summary equations. To be able to distinguish between electron transport and substrate-level phosphorylation as mechanisms of energy conservation, and to present examples of each. To be able to describe and interpret the bacterial cell cycle and its responses to temperature and nutrient availability. Core academic skills: To discuss in essays the modes of growth of microorganisms. To define by equation, and give descriptive examples of specific N and S transformations by named microorganisms. To be able to demonstrate basic practical skills in characterising microbially-mediated reactions. Personal and key skills: To understand and practice the principles of safety in laboratories handling microorganisms. To gain confidence in the manipulation of microorganisms, and the use of equipment for monitoring microbial metabolism. To design and create laboratory microcosms. 12-Syllabus WeekTopicWho1Introduction to microbial physiologyDefinition the microbial physiology and bacterial anatomy Dr.2Cell Walls of ProkaryotesDr.3Cell Walls of ProkaryotesDr.4Other Cell Surface Structures and Inclusions Dr.5Microbial LocomotionDr.6Metabolism; Fuelling cell growthDr.7Environmental factors that influence microbial growthDr.8Uptake of Nutrients by the Cell Methods of transfer the nutritional factorsDr.9Methods to Detect and Measure bacterial growthDr.10EnergyDr.11 Enzymes and fead back12Metabolic pathway13Glycolysis path way to Archeobacteria,(*protein and lipid metabolism).14Pathway and process that fuel aerobic growth of15path way and process that fuel Anaerobic growth of chemoorganotrophs.16Fermentation and types of microbial fermentation17Quorum sensing (Biofilm chemotaxis).18Antimicrobial medications and chemical material effects to growth of microorganisms ,produce the bacteriocen and the mechanism of the effects.13-Assessment StrategyGRADING SCALE: A >90% of total points possible B >80% C >70% D >60% F <59% HINTS for SUCCESS: 1) Attend class. 2) Study often, not just the night before an exam. 3) Review lecture material the evening after a lecture. This will help you learn the material and will make studying for exams much easier. 4) Read the chapters cited next to each lecture prior to class. It will help you better comprehend the lecture material. 5) Ask questions! 6) Seek out academic help before it is too late – it is very difficult to recover from two failed exams. 14-GRADING: First Exam 1 hour 25% of grade (100 pt) Second Exam 1 hour 25% of grade (100 pt) 3 Quizzes 15% of grade (60 pt) FINAL EXAM 2 hours 35% of grade (140 pt) Total = 400 Extra credit (paper reviews): 10 pt maximum per review, two reviews maximum (sums to 5% of the final grade). The last day to turn in extra credit reviews is Friday, November 25. For reviews, you will select a primary source paper related to bacterial physiology/biochemistry (must be approved by me). You will then write a summary of the paper that must include: 1) a brief introduction of the topic covered, 2) the “problem” or question that the authors were trying to address, 3) a summary of the results, and 4) whether the results supported the authors’ conclusion(s). Formatting: one page maximum, 0.5 inch margins, 11 pt Arial font, single spaced.15- Summary description of assessment items 1) Take 2 written examinations spaced evenly during the semester. Examinations will be made up of a combination of subjective questions (e.g. short answer, essay, data analysis) and direct content. Make-up exams will ONLY be given for documented excuses (e.g. death in the family, medical excuses, job/graduate school interview). It is the student’s responsibility to schedule a make-up exam with the professor, within 3 days of the missed exam. Exam grade will be given back and grades posted within a week of ALL students taking the exam. (100 points each * 2= 200 points) 2) Class Participation is based on attendance and participation to in-class questions given in either class or take home assignments that address topics from lecture. Participation will be scored on level of preparedness and contribution for these data analysis exercises and responses to questions. (100 points) 3) Undergraduate student lead discussion: These discussions will be moderated by two students together. The group has the choice to pick a paper dealing with a topic of microbial physiology or be given a paper for discussion by the professor. If you group chooses the paper, the group meet with professor 2 weeks before the class presentation/discussion of the article (This meeting could be done during lab time) (if this is late you will lose 5 points from the discussion grade). Each student should come up with a list of 5 reading questions pertaining to the article, which will be used to foster discussion among the class. These questions will be provided. The reading questions it should be sent out a minimum of 1 week before the discussion (if this is late you will lose 5 points from the discussion grade). The group is responsible to presenting the “big picture” leading up to this research area and summing up how this research advances microbiology. Each student will be graded separately. (Grading rubric: 10 pts for question quality, 5 pt: presentation of big picture-summary & 10 pts for facilitating discussion). 4) Every student is required to read the paper and answer the discussion questions for each paper. To obtain full credit for the discussions you need to CONTRIBUTE to the discussion (75 points)! 5) Genomics Assignment: we will utilize bacteria that have fully sequenced and annotated genomes to reconstruct essential pathways for carbon utilization. This assignment will be started in class and then to be 2 Microbial Physiology Lecture Syllabus Fall 2013 finished outside the classroom. The objective here is get you familiar with utilizing the freely available data to begin to address questions about microbial function based on genomic data. (25 points) 16-Learning Session Structure 2 hour lecture followed by 30 minute tutorial, and 3 hour practical workshop in a micobiological lab]17- Learning Session Structure The course module includes 2 hours theory followed by one hour tutorial, and 3 hours practical.17-Learning and Teaching Methodslectures, tutorials, workshops, set readings. Two hour lecture per week (total 28 hours). The tutorial will consist of a set questions put to the students to informally assess their understanding of the content of the lecture, to allow them to think about and solve example problems related to the lecture content, to express their understanding in English, and to correct any misunderstanding or gaps in their knowledge of the lecture’s content.]18-BibliographyPrescribed Text: *The Physiology & Biochemistry of Prokaryotes - David White, James Drummond, and Clay Fuqua. Oxford Univ. Press, 4th Ed. 2012*Talaro,A., Taloaro.A.(1996)foundations in Microbiology,basic principles.2nded.,WM.C.Brown publishers;London.. *Talaro,A., Taloaro.A.(1996)foundations in Microbiology,basic principles.2nded.,WM.C.Brown publishers;London.Nester,E.W.,Anderson,D.G., et al(2001) Microbiology a human perspective,3rd*ed.theMcGrawMadigan,M.T.,Martinko,J.M(2006).Biology of Microorganisms 11th**.*Sharma,K(2008).Manual of Microbiology(Tools and Techniques).2nded.,Ane booksIndia.Delhi;India(For Practical Microbiology)Prescot, L.M, Harley, J.P and Klein, D.A. (2005) Microbiology 6th ed., the McGraw** Hill componies,inc;New York, USA.*Tortora, G.J., Funke,B.R. and Case, C.L. (2010) Microbiology an introduction.10th ed., Pearson Education, Inc., Sanfrancisco, USA Other Texts:Priciples of GeneticsD. Peter Snustad 18. Authored by Dr. ASMA19. 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