Proteomic analysis of differentially expressed proteins in chloromethane- and methanol-grown cultures of <i>M. extorquens</i> CM4.

a<p>MaGe database (<a href="http://www.genoscope.cns.fr/agc/mage" target="_blank">http://www.genoscope.cns.fr/agc/mage</a>).</p>b<p>Probability-based mowse score calculated using MASCOT software (Matrix Science, London, UK); error refers to mass accuracy; coverage refers to the percentage of the protein sequence covered by the matched peptides.</p>c<p>Spots indicated as “CH₃Cl” were only detected in the proteome of <i>M. extorquens</i> CM4 grown with chloromethane. Spots indicated as “+” were more abundant in chloromethane-grown cultures (or less abundant in methanol-grown cultures). Spots indicated as “−” were more abundant in methanol-grown cultures (i.e. less abundant in chloromethane-grown cultures). Factors of differential abundance were defined as follows:++(<b>−−</b>) 2- to 5-fold;+++(<b>−−</b>−) more than 5-fold.</p>d<p>NL, non linear p<i>I</i> range used in 2D-DIGE experiments.</p>e<p>Only found in strain CM4 (among the 8 <i>Methylobacterium</i> strains for which the complete genome sequence is known; <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056598#pone.0056598-Marx1" target="_blank">[5]</a>, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056598#pone.0056598-Vuilleumier2" target="_blank">[11]</a>) and localized on plasmid pCMU01.</p>f<p>Multiple spots detected.</p>g<p>Mass spectrometry used to discriminate from Mchl_1712 displaying 86% sequence identity at the protein level.</p>h<p>n.d., not detected.</p>i<p>Mass spectrometry used to discriminate from Mchl_2317 displaying 96% sequence identity at the protein level.</p>j<p>No assigned gene name.</p>k<p>Mass spectrometry data did not allow us to discriminate between two homologs with 99% sequence identity (Mchl_2669/Mchl_4004).</p>l<p>Tandem mass spectrometry identification.