Streptococcus pneumoniae

Group Deliverables

tATK Final Group Deliverables

Team Journal Club Presentation

GenMAPP Gene Database: Media:Streptococcus_pneumoniae_TIGR4_20131125.gdb --known good
ReadMe file (PDF): ReadMe_Streptococcus_pneumoniae_TIGR4_20131125.pdf
Gene Database Schema: Streptococcus_schema_20131210.pdf
Gene Database Testing Report (print from wiki to .pdf file): PDF Gene Testing Report; Gene Testing Report Wiki Page
Processed and analyzed DNA microarray dataset (.xls): 20131125_teamATK_KM_CompiledRawData.xls
GenMAPP Expression Dataset file (.gex): 20131212_teamATK_KM_compiledrawdata_GMAPP.gex
Filtered MAPPFinder Results (.xls): 20131210_tATK_filteredresults.xls
Sample MAPP file of a relevant biological pathway for your species (.mapp): 20131211_tATK_sugar_transmembrane_transporter_activity.mapp

tATK jpeg MAPP

Group Report (.doc or .pdf):

PowerPoint presentation (.ppt, given on Thursday, December 12): tATK presentation

Papers

Genome Paper

Title: Genome of the Bacterium Streptococcus pneumoniae Strain R6

By Hoskins et al. (2001)

Web link

PDF

Reference: Hoskins, J., Alborn, W.E. Jr., Arnold, J., Blaszczak, L.C., Burgett, S., Bradley, S., DeHoff, S.T., Estrem, L.F., Fu, D.J., Fuller, W., Geringer, C., Gilmour, R., Glass, J.S., Khoja1, H., Kraft, A.R., Lagace, R.E., LeBlanc, D.J., Lee, L.N., Lefkowitz, E.J., Lu, J., Matsushima, P., McAhren, S.M., McHenney, M., McLeaster, K., Mundy, C.W., Nicas, T.I., Norris, F.H., O'Gara1, M.J., Peery, R.B., Robertson, G.T., Rockey, P., Sun, P.M., Winkler, M.E., Yang, Y., Young-Bellido, M., Zhao, G., Zook, C.A., Baltz, R.H., Jaskunas, S.R., Rosteck Jr., P.R., Skatrud, P.L., and Glass, J.I. (2001) Genome of the bacterium Streptococcus pneumoniae strain R6. Journal of Bacteriology 183(19): 5709-5717. doi: 10.1128/JB.183.19.5709-5717.2001

Microarray Paper

Sanchez et. al. 2011

Streptococcus pneumoniae in Biofilms Are Unable to Cause Invasive Disease Due to Altered Virulence Determinant Production

Web Link: Biofilm paper

PDF: Media:Biofilms_paper.pdf

Data at: GEO link and Array Express link

Experiments Performed: Examined genes related to biofilm formation of Streptococcus pneumoniae

Replicates: 3 biological replicates, 3+ technical replicates

Reference: Sanchez, C.J., Kumar, N., Lizcano, A., Shivshankar, P., Dunning Hotopp, J.C., Jorgensen, J.H., Tettelin, H., and Orihuela, C.J. (2011) Streptococcus pneumoniae in Biofilms Are Unable to Cause Invasive Disease Due to Altered Virulence Determinant Production. PLoS ONE 6(12): e28738. doi:10.1371/journal.pone.0028738

Found by Kevin