Lectures and labs will be held daily from 9.00 a.m. to 5.15 p.m. The main meeting point is lecture theatre A 103.
Monday September 18th
Systems Biology of Infection
Lecturer: Prof. Dr. Thomas Dandekar (Homepage)
Pseudomonas Syringae attacks the host -- how do you understand the host response?
(A) Phenotype: Pst (104 CFU/ml) infection; red arrows indicate pathogen inoculation; black arrow indicates mock (10mM MgCl2) inoculation. Symptoms weare photographed three days post pathogen inoculation (DPPI). (B) Network: Topology of Pst- mediated hormone disease networks in Arabidopsis. Connectivity among nodes is based either on activation (->) or inhibition (-|). Node designation: blue, enzymes of hormone biosynthesis and degradation; yellow, active hormone molecules; green, host regulatory factors; red, Pst- originated pathogenicity factors responsible for triggering immunity in Arabidopsis; pink, “PR-1”, marker node for immunity against the infection of Pst in Arabidopsis. All nodes are denoted by abbreviations.
More information on these questions is found in our plant cell paper: Naseem M, Philippi N, Hussain A, Wangorsch G, Ahmed N, Dandekar T. Integrated systems view on networking by hormones in Arabidopsis immunity reveals multiple crosstalk for cytokinin. Plant Cell. 2012 May;24(5):1793-814.
However, the same techniques can also be applied (and are shown in the course) to study human infection defense against pathogens.
Location: lecture theatre A103 and CIP pool, You find that easily, if you are in the main hall or Foyer of the Biocentre of the University of Würzburg
Equipment: computers – these are provided (CIP pool)
09:00-10:00 Introduction: Prof. Thomas Dandekar, Systems biology of infection – bioinformatical approaches (lecture theatre A103)
10:00-11:30 Part I Databanks and Resources (CIP pool in the basement, we will lead you to it if not yet known)
- Dr. Chunguang Liang (Database, HTS to Network: PlasmoDB, Top targets in Malaria, Protecs database EcoliHub / MetaCyc, Trypanosome DB)
Here is, in addition, the link to PlasmoDB: plasmodb.org/plasmo/
The GO fight project: http://gofightagainstmalaria.scripps.edu/index.php/project-details
Small, unsuccessful database:
The TDR Targets database v5 (a nice one): tdtargets.org
11:30-14:15 Part II Getting into -omics: transcriptomics and proteomics (lecture theatre A103)
- 11:30-12:30 Dr. Konrad Förstner (Dual RNA sequencing in infection biology)
12:30-13:30 Lunch break
- 13:30-14:00 Dr. Elena Bencúrová (Proteomics in infection biology)
- 14:00-14:15 Discussion
14:30-16:00 Part III Current trends in systems biology (lecture theatre A103)
- Prof. Thomas Dandekar (we will show and discuss current trends in systems biology with a focus on computer-based approaches, what they can and what they can not elucidate)
- Prof. Alicia Ponte-Sucre (TICS, surveillance and prevention in neglected diseases and their relation with the sustainable and millennium goals)
16:00-16:30 Coffee break
16:30-18:00 Part IV Drug design and signalling in infection biology (CIP pool)
- Dr. Muhammad Naseem (Using Squad, gene expression data, semi-quantitative models, in essence the cell paper)
- Dr. Sergey Shityakov (Drug design in infection biology)
Rational drug design and discovery of novel antibacterial compounds using linear interaction energy (LIE) method
Checks and balances of the host against the pathogen better eludicated:
PLOS pathogen paper
Optimize Antibiotic therapy looking at timing and combinations
--> Janina Zirkel Paper
Optimizing Ebola containment and therapy in Africa
Tuesday September 19th
Intracellular S. aureus
Lecturer: Dr. M. Fraunholz (Homepage)
Microbiology (Lectures: A 103; Practicals: CIP pool)
Figure: Staphylococcus aureus (cyan) in phagolysosomes of human cells (yellow)
Topic area: Microscopic analysis of intracellular bacterial host-pathogen interactions: Practical image analysis with Fiji/ImageJ (basics & motion tracking, feature counting)
Upon infection Staphylococcus aureus is readily phagocytosed by macrophages and neutrophils but is also to invade epithelial and endothelial cells, fibroblast, osteoblasts, and keratinocytes. The uptake by latter so-called non-professional phagocytes has been proposed to play a role in evasion of the innate immune system. Further survival of phagolysosomal killing by S. aureus may also lead to disseminating infections within migrating phagocytes. We and others have shown that S. aureus is capable of escaping from host cell phagosomes. One of our methods is microscopy based and relies on the recruitment of a cytoplasmically expressed host cell marker that is recruited to the bacterial cell wall upon phagosomal membrane rupture.
On the second day of the summer school we will address theoretical and practical aspects of confocal laser scanning microscopy as well as the underlying fluorophores. We will analyze images of uninfected and infected human cells using Fiji/ImageJ, a tool which is handy for other image analysis aspects, too.
Participants should bring a USB Thumb drive, if they want to keep their own personalized ImageJ version.
Location: CIP Pool in the basement
Wednesday September 20th
Location: Lecture Theatre A103
8:30 Introduction Prof. Dandekar
8:35 Lecture Prof. Thilo Figge (Jena) and Prof. Oliver Kurzai (Jena/Würzburg)
on Fungal infections and modelling by agent based simulations
10:00 Lecture Prof. Florian Erhard (Virology, Würzburg)
11:00 Uhr meet international students of the university of Wuerzburg
11:30 Uhr Guided Tour on 3D tissue models in infection
(guide: Sebastian Häusner) to visit the laboratory of
Prof. Heike Walles on 3D tissue models at Röntgen-Ring 11
Lunch and free time
16:00 tour of residence
Thursday September 21st
Trypanosomes (Lectures, practical: A 103)
Lecturer: Dr. S. Kramer (Homepage)
The African Trypanosome: A killer and a survival genius
African trypanosomes cause African Sleeping Sickness as well as the related cattle disease Nagana, affecting people’s health both directly and indirectly in sub-saharan Africa. During the ‘Trypanosome-day’ of the summerschool we will look at the parasites from the point of view of a parasitologist, but also from the point of view of a cell biologist: you will see that trypanosomes are model organisms for many biological questions. A non-conventional teaching method will be used to explore the non-conventional biology of trypanosomes: Pantomine. We will also have a look at the ‘real beast’ by high resolution microscopy and we will gain an insight view into the actual research that is currently taking place in the trypanosome labs that are settled in Würzburg.
Location: Lecture Theatre A103
9:00-10:30 Introduction lecture (Trypanosomes) and safety instructions (Susanne Kramer)
10:30-10:45 Coffee break
10:45-11:15 Movie (African Sleeping sickness) + discussion (Susanne Kramer)
11:15-11:45 Current research projects in Würzburg, PhD student reports
- Nicole Eisenhuth
- Erick Aroko
11:45-12:15 How to do work with Tsetse flies (discussion with Dr. Ines Subota)
12:15-13:15 Lunch break
13:15-14:00 Invited Guest speaker Prof. Christian Janzen: life cycle regulation in trypanosomes
14:15-15:00 Invited Guest speaker Prof. Alicia Ponte Sucro: Leishmaniasis and drug resistance
15:00-17:00 Preparation Pantomime (Susanne Kramer and Brooke Morriswood)
Life cell imaging of trypanosomes (Sarah Schuster) in small groups
17:00-17:30 Pantomime presentations
Friday September 22nd
Lecturer: Prof. Dr. K. Brehm (Homepage)
Institute of Hygiene and Microbiology
On the first day of the workshop the labs and lectures will not be at the Biocentre but at the University Clinics Department Hygiene and Microbiology (Haus E1).
Please find the written directions and maps below:
(please click the pictures to enlarge them)
You can reach the main area of the University Hospital with the streetcar routes 1 and 5. You get on the streetcar at the Hautpbahnhof Ost (Main Station East) in the direction of Grombühl and get off at stop “Uniklinikum Bereich D (University Hospital area D; Petrinistrasse)". You can reach the Institute of Hygiene and Microbiology by walk (5 min) as indicated on the map. (The walk from the Main Station takes about 20-25 minutes.)
Parasitic Flatworms: A tale of mortality and immortality.
Parasitic helminths are a major cause of so-called ‘Neglected Diseases’. And Neglected Diseases are called ‘neglected’ because nobody (or only very few) has/have an interest to study them. So, why are we doing it? This is something we’re going to figure out in the ‘Parasitic Helminth’-day of the summer school. We shall learn that the development of novel therapies is not the only motivation to do infectious disease research and that these parasites (like many others) are highly fascinating from the view-point of immunologists as well as cell-, developmental- and evolutionary biologists. Above all, we shall learn how molecular research can be done in a ‘non-mainstream’ setting and which strategies should be followed to establish an infectious disease model system from scratch.
9:00-10:30 Introduction: Parasitic helminths and the spellbinding world of tapeworm infections (including tapeworm movie; demonstration of specimen; narration of the ultimate tapeworm joke)
10:30-10:50 Coffee break
10:50-12:00 Interactive Teaching: how to develop a research model system from scratch.
12:00-13:00 Lunch break
13:00-14:20 Würzburg’s current tapeworm research projects: PhD students report
14:20-15:50 Practical aspects of tapeworm and larval tapeworm research (in small groups)
15:50-16:10 Coffee break
16:10-18:00 Final discussion (including Quiz Show ‚Who wants to be a Parasitonaire?‘)