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Recent Comments
Hi Jean-Michel, nice to hear from you as well.
The comparison between states is relative, so these two functions may appear stronger in the stationary phase because the other functions are downregulated. In fact, the expression of these two functions is low, as shown by the green bars in Fig. 5 (they include a red cell because values are normalized within each function). Also, the genes involved (9 within DNA replication and repair and 4 within Nucleic acids metabolism) show contrasted expression patterns (6 are upregulated at the stationary and 2 at the exponential, see Fig. S5). This plot was constructed to get a general overview of the expression patterns among all the functions identified.
What do you want to do ? New mailCopy.. to do: nothing. When we use plots like this we normalize the transcription level for each gene separately (averaging) and color the intensity with respect of the average (or other type of mean). This then as the inconvenience that the quantitative aspect (highly vs lowly expressed) disappears. Nobody's perfect!
Dear Ramon,
Long time no see. Good work, but I have a problem with the figure coloring: how come DNA replication and repair, and DNA metabolism are much redder (active?) during the "stationary phase"? Thanks.
A very nice combination of metagenomic work and bench work. Very convincing. But, once again in evolution, the ancestors appear more complex (in terms of metabolic capacity and gene content) than its progeny. Even if I do believe that genomic reduction is a major (dominant?) force in evolution, one cannot escape the ultimate question: How did these multiple genes appear and how did they integrate into the primordial cell (s) ?. Creationists have an answer. What is ours?
My most frustrating review was in October 2013 when I submitted a paper to Science that rapidly declined to send it out for review … only to publish an enthusiastic one-page comment (Vol. 343, Issue 6175, pp. 1058) on it after its publication in PNAS! (doi: 10.1073/pnas.1320670111).
The best one, is when the same journal (Science) selected us for its cover (Vol. 341; Issue 6143) on a previous occasion (doi: 10.1126/science.1239181)!
Conclusion: publishing is like a box of chocolates: you never know what you gonna get! (Forrest Gump).