Ajvree Week 10

10/29/13 Lecture Notes

Library homepage>Libguides>link to BIO 367>databases
Open access: physics(peer sharing) and life sciences (availability of granted research)
PMC Journal: information designated by govt to be available to all
Now authors pay journal to have information published, makes open access controversial
http://libguides.lmu.edu/BIOL367
Google scholar ranks articles, dates will be all over the place, etc.
MeSH terms: medical subheading
information needed: a reference genome for species/main reference strand, usually the earliest date

Article 1:

Searched Web of Science for transcriptional profiling Streptococcus pneumoniae under topic, got 38 results.
Found article titled : Gene expression profile of early in vitro biofilms of Streptococcus pneumoniae (Mukesh Kumar Yadav et al., 2012)
Used Google Scholar to search for full article
Article PDF involves comparing microarray data of S. pneumoniae biofilm to planktonic cells. 21 biological microarray replicates were done, with the control being the planktonic cells.
Searched article for location of microarray data, located here: http://www.ncbi.nlm.nih.gov/geo under

accession number GSE34751

PDF: S. pneumoniae Article 1
Full Citation:

Yadav, M. K., Kwon, S. K., Cho, C. G., Park, S.-W., Chae, S.-W. and Song, J.-J. (2012), Gene expression profile of early in vitro biofilms of Streptococcus pneumoniae. Microbiology and Immunology, 56: 621–629.

Based on this report and other titles listed while searching, a lot of research regarding vaccines against the pathogenic strain is popular, in addition to research on how to prevent the bacteria from growing.

Article 2:

Found second article using references from first article, looked for key words in title about transcription activity/microarray data
link to article: [1]
Full Citation:

Ng, WL, Kazmierczak, KM Robertson, GT, et al., 2003. Transcriptional regulation and signature patterns revealed by microarray analyses of Streptococcus pneumoniae R6 challenged with sublethal concentrations of translation inhibitors. Journal of Bacteriology. Volume 185, Issue 1, Pages 359-370.

In this experiment, cell cultures were exposed to 4 different translation inhibitors to determine the effect on the transcript activity. The control used was a 1% DMSO culture that contained no antibiotics. There were 3 replicates done of the microarray analysis, and Northern blot analysis was also used.