BACTERIAL PHYSIOLOGY & PATHOGENESIS, 7.5 ECTS

Transcription

1 BACTERIAL PHYSIOLOGY & PATHOGENESIS, 7.5 ECTS COURSE TIME: 1 st October, th October, 2014 LOCATION: Lectures: Minor Groove, Building 6L, Försörjningsvägen Practicals: Red & Green Laboratories, Building 6L, Försörjningsvägen LITERATURE: For example: 1. Online resource: Todar s Online textbook of Bacteriology at 2. Online resource: Microbiology and Immunology Online at 3. Other material provided by the Department. EXAMINATION: Thursday, October 30 th, , C3 Dragonskolan RE-EXAMINATION: Monday, December 15 th, , Room 7, ÖP COURSE LEADER: Sun Nyunt Wai Phone: ; sun.nyunt.wai@molbiol.umu.se ADMINISTRATOR: Eva-Christine LUNDSTRÖM Phone: ; eva-christine.lundstrom@molbiol.umu.se) LABORATORY ASSISTANTS: Ummehan SAVAS (USa) ummehan.savas@molbiol.umu.se [ummehan.savas.umu@analys.urkund.se (report submissions only)] Lisa WIREBRAND (LWi) lisa.wirebrand@molbiol.umu.se [lisa.wirebrand.umu@analys.urkund.se (report submissions only)] 1

2 LABORATORY SESSIONS: (Strictly Mandatory) Genetic and physiological characterization of enriched bacterial isolates (USa, LWi) LABORATORY EXAMINATION: (Strictly Mandatory) White-board presentation of the laboratory project divided into introduction, goals, methods, results and discussion; a group-based exercise! (Lab examination I) Laboratory Quiz (short answer and multiple choice questions); a group-based exercise! (Lab examination II) Answers are to be submitted electronically to the Laboratory assistants (USa or LWi) Urkund addresses. In addition, your own personal laboratory notebook MUST be utilized on every single laboratory session. It is also your responsibility to have this CERTIFIED (signed and dated) by a lab assistant (USa, LWi) at the conclusion of EVERY laboratory session. Note: You must obtain a grade G to gain credit for this course module. LECTURERS Victoria SHINGLER (VSh) Jörgen JOHANSSON (JJo) Matthew FRANCIS (MFr) Bernt Eric Uhlin (BEU) Sun Nyunt Wai (SNW) Annika Sjöström (AS) victoria.shingler@molbiol.umu.se jorgen.johansson@mims.umu.se matthew.francis@molbiol.umu.se bernt.eric.uhlin@molbiol.umu.se sun.nyunt.wai@molbiol.umu.se annika.sjostrom@molbiol.umu.se LECTURER THEMES Principles and Applications of Bacterial Diversity Bacterial Diversity (Lecture 1; SNW) Extreme Environments (Lecture 2; SNW) Bioenergetics (Lecture 3; MFr) General Principles of Bacterial Regulatory Networks Transcriptional Regulation (Lecture 4; VSh) Post-transcriptional Regulation (Lecture 5; JJo) Translational Regulation (Lecture 6; JJo) Post-translational Regulation (Lecture 7; SNW) Physiological Processes Bacterial Stress Responses Global Regulation (Lecture 8; VSh) Solute Transport (Lecture 9; SNW) Prokaryotic Differentiation and Development (Lecture 10; BEU) Bacterial Motion (Lecture 11; VSh) Protein Secretion Systems (Lecture 12; SNW) Bacterial Virulence Strategies Bacterial Pathogenesis I and II pathogen evolution and the study of bacterial pathogens (Lecture 13; SNW) Bacterial Pathogenesis III the infection process and virulence mechanisms (Lecture 14 ; BEU) Bacterial Responses to the Host Cell virulence gene regulation (Lecture 15; BEU) 2

3 TUTORIALS Two tutorial sessions have been planned. This time is allocated for YOU to address YOUR questions to the course leader and/or other participating lecturers. Make full use of this available time by ensuring your advanced preparation (i.e.: go through the lecture material before the tutorial). Remember that: a) all group members must attend all laboratory orientation/introductory sessions and the full duration of every experimental session b) any absence, even for a short period, must be first reported to, and/or agreed upon by the Course assistant in charge (i.e. you CAN NOT come and go when you please) c) both group members are expected to participate equally in all laboratory examinations and to maintain their own individual laboratory notebook that is to be certified by a lab assistant at the conclusion of each session Please use any free time wisely! Important Information: i. Lab equipment is very expensive use with extreme care and concentration. If you are unsure as to how to properly use a particular piece of lab equipment, before use ask one of the lab assistants. ii. In the labs, you will be potentially working with pathogenic bacteria deserving of your respect. Follow all advice given to you about safety precautions. iii. Treat your lab assistants with respect; it is not an easy job and they do have more laboratory experience than you. iv. To be allowed to sit the exam, all laboratory examinations must be completed and/or submitted. During a fire alarm, evacuate promptly to the clearing, a safe distance from the outside entrance to building 6L. 3

4 Week 40 (working week 1) Wednesday ( ) Course orientation & Roll-call (SNW) Minor Groove Lecture 1: Bacterial Diversity (SNW) Minor Groove Laboratory Safety (SNW) Minor Groove Introduction to the laboratory course Minor Groove (SNW; USa; LWi) Thursday ( ) 09:00 12:00 Laboration: Day 1 dry lab Minor Groove sequence data analysis (bacterial identity/clustal W analysis) (USa; LWi) 13:00 14:00 Lecture 2: Extreme Environments (SNW) Minor Groove Literature study of sequenced bacteria for experimental plan discussions. Friday ( ) Lecture 3: Bioenergetics (MFr) Minor Groove 12:00 14:00 Lecture 4: Transcriptional Regulation (VSh) Minor Groove Literature study of sequenced bacteria for experimental plan discussions. 4

5 Week 41 (working week 2) Monday ( ) 9:00 11:00 Lecture 5: Post-transcriptional Regulation (JJo) Minor Groove Laboration: Day 2 dry lab (USa; LWi) Red & Green Laboratory Bacterial strain selection Wet-lab experimental plan discussions/work flow Minor Groove (USa; LWi) Tuesday ( ) Lecture 6: Translational Regulation (JJo) Minor Groove Lecture 7: Post-Translational Regulation (SNW) Minor Groove Laboration: Day 3 (USa; LWi) Red & Green Laboratory Wednesday ( ) Laboration: Day 4 morning (USa; LWi) Red & Green Laboratory Lecture 8: Bacterial Stress Global Regulation (VSh) Minor Groove Laboration: Day 4 afternoon (USa; LWi) Red & Green Laboratory Thursday ( ) Laboration: Day 5 morning (USa; LWi) Red & Green Laboratory Lecture 9: Solute Transport (SNW) Minor Groove Laboration: Day 5 afternoon (USa; LWi) Red & Green Laboratory Friday ( ) Q&A session: Tutorial I (SNW) Minor Groove Laboration: Day 6 (USa; LWi) Red & Green Laboratory 5

6 Week 42 (working week 3) Monday ( ) Lecture 10: Prokaryotic Differentiation and Minor Groove Development (BEU) Lecture 11: Bacterial Motion (VSh) Minor Groove Tuesday ( ) Lecture 12: Protein secretion systems (SNW) Minor Groove Laboration: Day 7 (USa; LWi) Red & Green Laboratory Wednesday ( ) 9:00-11:00 Lecture 13: Bacterial Pathogenesis I and II" (SNW) Minor Groove Laboration: Day 8 (USa; LWi) Red & Green Laboratory Thursday ( ) 9:00-12:00 Lecture 14: Bacterial Pathogenesis III (BEU) Minor Groove 13:00-15:00 Lecture 15: Bacterial Responses to the Host Cell (BEU) Minor Groove (virulence gene regulation) Friday ( ) Laboration: Day 9 (USa; LWi) Red & Green Laboratory (Laboratory Roundup!) Preparation for Lab examinations I and II 6

7 Week 43 (working week 4) Monday ( ) Session 1 Session II (Break) (Break) Lab examination I Group presentations - Oral (Examinators: USa; LWi; AS; SNW) Minor Groove Bring your laboratory notebooks Mandatory Individual group examination one at a time (Not open to any audience) Note: Schedule will follow Tuesday ( ) Preparation for Lab examination II Wednesday ( ) Lab examination II deadline for Written Quiz Responses (Examinators: USa; LWi) Submit electronically to: ummehan.savas.umu@analys.urkund.se lisa.wirebrand.umu@analys.urkund.se Thursday ( ) Private study Friday ( ) Private study 7

8 Week 44 (working week 5) Monday ( ) Q&A session: Tutorial II (SNW) Minor Groove Tuesday ( ) Private study Wednesday ( ) Private study Thursday ( ) Theory Examination Location: C3 Dragonskolan 8

9 Week 51 (working week 6) Monday ( ) Re-Examination Location: Room 7, ÖP 9

10 Summary of course composition Week 40 Week 41 Week 42 Week 43 Week 44 Week 51 Lectures Tutorial I Tutorial II Laboratory sessions (in working groups of two) mandatory Laboratory Round-up Laboratory Examination I mandatory Laboratory Examination II mandatory Theory exam (4h) Literature study of sequenced bacteria; preparation for experimental plan discussions Theory Reexam (4h) 10