Pro-/Seminar: Bacterial Resistance

Tutors

Kerstin Reuter, Ruslan Akulenko, Duy Nguyen, Daria Gaidar

Maximum number of participants:

16

Lecture:

block seminar, September 24, 25, 29 and 30, 1:00 pm - 5:00 pm, building E2 1, room 007

Preliminary meeting and placement of the topics:

Monday, July 20, 12:30 pm. E2.1, room 106

Requirements:

Knowledge corresponding to semester 4 (proseminar) or knowledge corresponding to BSc degree (seminar)

Conditions for certification:

Successful presentation, regular participation (at least 60% of talks)

Leistungspunkte/Credits:

5 (proseminar) or 7 (seminar)

Additional Information:

If you want us to print your handouts, please send them to Kerstin Gronow-Pudelek until 10 am on the day of your talk (for those who give their talk on Friday, please send the handouts also until Thursday).

Important hints for your seminar presentation.

Timetable for the talks:

Thursday, Sept. 24 Friday, Sept. 25 Tuesday, Sept. 29
Topic 10 Topic 3 Topic 2
  Topic 11 Topic 6
    Topic 16
    Topic 15
    Topic 14
    Topic 9
    Topic 13
    Topic 12
    Topic 4

 

Topics:

  1. a) Ford, CB, Funt, J, et al. (2015) eLife, 4:e00662, doi: 10.7554/eLife.00662. The evolution of drug resistance in clinical isolates of Candida albicans. b) Bartha, I, and Fellay, J (2015) eLife, 4:e06193, doi: 10.7554/eLife.06193. Adaptation on a genomic scale. (student: Mekountchou, tutor: Ruslan Akulenko)
  2. Laabei, M, Recker, M, Rudkin, K, et al. (2014) Genome Research, doi:10.1101/gr.165415.113. Predicting the virulence of MRSA from its genome sequence. (student: Luessem; tutor: Duy Nguyen)
  3. Kelsic, ED, Zhao, J, Vetsigian, K, and Kishony, R (2015) Nature, doi:10.1038/nature14485. Counteraction of antibiotic production and degradation stabilizes microbial communities. (student: Ramasamy; tutor: Daria Gaidar)
  4. Lázár, V, Nagy, I, Spohn, R, et al., (2014) Nature Communications, DOI: 10.1038/ncomms5352. Genome-wide analysis captures the determinants of the antibiotic cross-resistance interaction network. (student: Fehlmann; tutor: Ruslan Akulenko)
  5. Eldholm, V, Monteserin, J, Rieux, A, et al. (2015) Nature Communications, doi: 10.1038/ncomms8119. Four decades of transmission of a multidrug-resistant Mycobacterium tuberculosis outbreak strain. (student: Pasupuleti; tutor: Duy Nguyen)
  6. Reeve, SM, Gainza, P, Frey, KM, et al. (2015) PNAS, 112, 749-754, doi: 10.1073/pnas.1411548112. Protein design algorithms predict viable resistance to an experimental antifolate. (student: Thiel; tutor: Ruslan Akulenko)
  7. Tan, SY, Chua, SL, Chen, Y, et al.5(2012) Antimicrobial Agents and Chemotherapy, 57, 5629-5641. Identification of five structurally unrelated quorum-sensing inhibitors of pseudomonas aeruginosa from a natural-derivative database.  (student: Dillmann; tutor: Kerstin Reuter)
  8. Sousa, A, Magalhaes, S, and Gordo, I (2011) Molecular Biology and Evolution 29, 1417-1428. Cost of Antibiotic Resistance and the Geometry of Adaptation. (student: Aggarwal; tutor: Daria Gaidar)
  9. Flandrois, J-P, Lina, G, and Dumitrescu, O (2014) BMC Bioinformatics 15:107. MUBII-TB-DB: a database of mutations associated with antibiotic resistance in Mycobacterium tuberculosis. (student: Srikakulam; tutor: Duy Nguyen)
  10. Melnyk, AH, Wong, A, and Kassen, R (2010) Evolutionary Applications, doi:10.1111/eva.121966. The fitness costs of antibiotic resistance mutations. (student: Forster; tutor: Daria Gaidar)
  11. Novais, A, Comas, I, Baquero, F, et al. (2010) PLoS Pathogens, 6, e1000735. Evolutionary trajectories of beta-lactamase CTX-M-1 cluster enzymes: Predicting antibiotic resistance. (student: Uysal; tutor: Ruslan Akulenko)
  12. Ghosh, TS, Gupta, SS, Nair, GB, and Mande, SS (2013) PLoS ONE, 8, e83823. In silico analysis of antibiotic resistance genes in the gut microflora of individuals from diverse geographies and age-groups. (student: De; tutor: Kerstin Reuter)
  13. Coll, F, McNemey, R, Preston, MD, et al. (2015) Genome Medicine, 7:51, doi 10.1186/s13073-015-0164-0. Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences. (student: Karunanithi; tutor: Duy Nguyen)
  14. Schenk, MF, Szendro, IG, Salverda, MLM, et al. (2013) Molecular Biology and Evolution, 30, 1779-1787, doi:10.1093/molbev/mst096. Patterns of epistasis between beneficial mutations in an antibiotic resistance gene. (student: Hollander; tutor: Daria Gaidar)
  15. Li, J, Qu, X, He, X, et al (2012) PLoS ONE, 7, e45878, doi:10.1371/journal.pone.0045878. ThioFinder: A web-based tool for the identification of thiopeptide gene clusters in DNA sequences. (student: Ramirez Chavez; tutor: Kerstin Reuter)
  16. Annapoorani, A, Umamageswaran, V, Parameswari, R, et al. (2012) J Comput Aided Mol Des, doi 10.1007/s10822-012-9599-1. Computational discovery of putative quorum sensing inhibitors against LasR and RhlR receptor proteins of Pseudomonas aeruginosa. (student: Firczynski; tutor: Kerstin Reuter)