User:Katiemcpherson/Notes and Evaluation Week 2

Bioenergetics Evaluation
The overview has extremely limited citations and needs more for almost every sentence. However, what is cited has active links to reputable, non-biased sources.

Types of reactions has no citations, but needs them.

The cotransport section seems to have bias claiming a discovery was "the most important." Perhaps this is not appropriate. This section does not explain its relevance to the page as a whole nor what cotransport is. The citations are from peer-reviewed journals, however.

Chemiosmotic theory begins with "one of the major triumphs of bioenergetics," but would be more clear if it first described what it was. It has only one citation- if its for the whole paragraphs, perhaps it should be at the end. The citation is from Nature.

Energy balance is un-biased and has good citations.

Pentose Phosphate Pathway Evaluation
Outcome section is helpful but needs citations and includes some non-essential, distracting information.

Phases is organized nicely with good diagrams, but in need of citations.

The citations are from reputable, un-biased sources (peer reviewed journals). The links seems to be working.

This is article is fairly short. Perhaps an additional section could be added about differences/similarities of PPP in various organisms.

Contributions to article: locus of enterocyte effacement-encoded regulator
I plan to create a wikipedia article for ler (locus of enterocyte effacement-encoded regulator) describing what it does and how it does it (to the best of current understanding), as well as the which organisms it functions in. I will highlight the research of someone underrepresented in the field of microbiology in association with Ler. I will also describe what is known of the protein structure.

Katiemcpherson (talk) 02:48, 4 April 2017 (UTC)

Sources for ler page
Mellies, Jay L., et al. "The Per regulon of enteropathogenic Escherichia coli: identification of a regulatory cascade and a novel transcriptional activator, the locus of enterocyte effacement (LEE)‐encoded regulator (Ler)." Molecular microbiology 33.2 (1999): 296-306. '''[this source is a bit old for wikipedia standards -- if there's a study that's more recent I'd use that. Otherwise keep it]'''

Winardhi, Ricksen S., et al. "Locus of enterocyte effacement-encoded regulator (Ler) of pathogenic Escherichia coli competes off histone-like nucleoid-structuring protein (H-NS) through noncooperative DNA binding." Journal of Biological Chemistry 289.20 (2014): 13739-13750.

Lim, C. J., Lee, S. Y., Kenney, L. J., and Yan, J. (2012) Nucleoprotein filament formation is the structural basis for bacterial protein H-NS gene silencing. Sci Rep 2, 509

Mellies, Jay L., et al. "Ler of pathogenic Escherichia coli forms toroidal protein–DNA complexes." Microbiology 157.4 (2011): 1123-1133.

Bustamante, V., Santana, F. J., Calva, E., & Puente, J. L. (2001). Transcriptional regulation of type III secretion genes in enteropathogenic Escherichia coli: Ler antagonizes H‐NS‐dependent repression. Molecular microbiology, 39(3), 664-678.

Sircili, M. P., Walters, M., Trabulsi, L. R., & Sperandio, V. (2004). Modulation of enteropathogenic Escherichia coli virulence by quorum sensing. Infection and immunity, 72(4), 2329-2337.

Barba, J., Bustamante, V. H., Flores-Valdez, M. A., Deng, W., Finlay, B. B., & Puente, J. L. (2005). A positive regulatory loop controls expression of the locus of enterocyte effacement-encoded regulators Ler and GrlA. Journal of bacteriology, 187(23), 7918-7930.

Berdichevsky, T., Friedberg, D., Nadler, C., Rokney, A., Oppenheim, A., & Rosenshine, I. (2005). Ler is a negative autoregulator of the LEE1 operon in enteropathogenic Escherichia coli. Journal of bacteriology, 187(1), 349-357.

Goldberg, M. D., Johnson, M., Hinton, J. C. D. and Williams, P. H. (2001), Role of the nucleoid-associated protein Fis in the regulation of virulence properties of enteropathogenic Escherichia coli. Molecular Microbiology, 41: 549–559. doi:10.1046/j.1365-2958.2001.02526.x

Grant, A. J., Farris, M., Alefounder, P., Williams, P. H., Woodward, M. J. and O'Connor, C. D. (2003), Co-ordination of pathogenicity island expression by the BipA GTPase in enteropathogenic Escherichia coli (EPEC). Molecular Microbiology, 48: 507–521. doi:10.1046/j.1365-2958.2003.t01-1-03447.x

Berdichevsky, T., Friedberg, D., Nadler, C., Rokney, A., Oppenheim, A., & Rosenshine, I. (2005). Ler is a negative autoregulator of the LEE1 operon in enteropathogenic Escherichia coli. Journal of bacteriology, 187(1), 349-357.

Bhat, A., Shin, M., Jeong, J. H., Kim, H. J., Lim, H. J., Rhee, J. H., ... & Lee, G. (2014). DNA looping-dependent autorepression of LEE1 P1 promoters by Ler in enteropathogenic Escherichia coli (EPEC). Proceedings of the National Academy of Sciences, 111(25), E2586-E2595.

Katiemcpherson (talk) 04:20, 4 April 2017 (UTC)