Bacterial variations on the methionine salvage pathway

BACKGROUND: The thiomethyl group of S-adenosylmethionine is often recycled as methionine from methylthioadenosine. The corresponding pathway has been unravelled in Bacillus subtilis. However methylthioadenosine is subjected to alternative degradative pathways depending on the organism. RESULTS: This work uses genome in silico analysis to propose methionine salvage pathways for Klebsiella pneumoniae, Leptospira interrogans, Thermoanaerobacter tengcongensis and Xylella fastidiosa. Experiments performed with mutants of B. subtilis and Pseudomonas aeruginosa substantiate the hypotheses proposed. The enzymes that catalyze the reactions are recruited from a variety of origins. The first, ubiquitous, enzyme of the pathway, MtnA (methylthioribose-1-phosphate isomerase), belongs to a family of proteins related to eukaryotic intiation factor 2B alpha. mtnB codes for a methylthioribulose-1-phosphate dehydratase. Two reactions follow, that of an enolase and that of a phosphatase. While in B. subtilis this is performed by two distinct polypeptides, in the other organisms analyzed here an enolase-phosphatase yields 1,2-dihydroxy-3-keto-5-methylthiopentene. In the presence of dioxygen an aci-reductone dioxygenase yields the immediate precursor of methionine, ketomethylthiobutyrate. Under some conditions this enzyme produces carbon monoxide in B. subtilis, suggesting a route for a new gaseous mediator in bacteria. Ketomethylthiobutyrate is finally transaminated by an aminotransferase that exists usually as a broad specificity enzyme (often able to transaminate aromatic aminoacid keto-acid precursors or histidinol-phosphate). CONCLUSION: A functional methionine salvage pathway was experimentally demonstrated, for the first time, in P. aeruginosa. Apparently, methionine salvage pathways are frequent in Bacteria (and in Eukarya), with recruitment of different polypeptides to perform the needed reactions (an ancestor of a translation initiation factor and RuBisCO, as an enolase, in some Firmicutes). Many are highly dependent on the presence of oxygen, suggesting that the ecological niche may play an important role for the existence and/or metabolic steps of the pathway, even in phylogenetically related bacteria. Further work is needed to uncover the corresponding steps when dioxygen is scarce or absent (this is important to explore the presence of the pathway in Archaea). The thermophile T. tengcongensis, that thrives in the absence of oxygen, appears to possess the pathway. It will be an interesting link to uncover the missing reactions in anaerobic environments

Integr8 and Genome Reviews: integrated views of complete genomes and proteomes

Integr8 is a new web portal for exploring the biology of organisms with completely deciphered genomes. For over 190 species, Integr8 provides access to general information, recent publications, and a detailed statistical overview of the genome and proteome of the organism. The preparation of this analysis is supported through Genome Reviews, a new database of bacterial and archaeal DNA sequences in which annotation has been upgraded (compared to the original submission) through the integration of data from many sources, including the EMBL Nucleotide Sequence Database, the UniProt Knowledgebase, InterPro, CluSTr, GOA and HOGENOM. Integr8 also allows the users to customize their own interactive analysis, and to download both customized and prepared datasets for their own use. Integr8 is available at http://www.ebi.ac.uk/integr8

Summary of Recent Progress and Recommendations for Future Research Regarding Air Pollution Sources, Processes, and Impacts in the Mediterranean Region

International audienc

The influence of organic and inorganic gases during New Particle Formation (NPF) events at the Mediterranean remote site of ERSA in Cape-Corsica during the summer of 2013.

International audienceAs part of the CHARMEX (Chemistry Aerosol Mediterranean Experiments) project, more than one hundred organic and inorganic gaseous compounds were measured in the summer of 2013 at the Mediterranean remote site of ERSA in Cape-Corsica. During this period, New Particle formation (NPF) events were identified from July 31th to august 2nd when air masses originated from the North-eastern sector (Southern Europe). The results were compared to a non-NPF event from July 21th to July 23rd for which the same wind sectors were identified. They showed that the particles number [10-20 nm] measured by SMPS (Scanning Mobility Particle Sizer) were more correlated with carbon monoxide (CO) during non-NPF events indicating an influence of more polluted and more aged air masses (residence time of CO of 60 days). Sulfuric acid (H2SO4) and sulfur dioxide do not show a significant influence in the formation of nucleation events. On the other hand, biogenic Volatile Organic Compounds (BVOCs) such as isoprene, and mono-terpenes as well as their oxidation products (e.g. MACR+MVK, MTOP) showed good correlation during NPF-events in the range of (r from 0.45 to 0.59) higher than the ones reported during non-NPF events (0.11-0.34) highlighting the importance of these BVOCs on NPF days. The comparison of measured vs calculated reactivity (Zannoni et al, 2016) showed that during NPF-events, the missing part of OH reactivity was higher. It indicates that unmeasured species like sesquiterpenes, organo-nitrates, or oxygenated compounds may play a significant role in such events

The influence of organic and inorganic gases during New Particle Formation (NPF) events at the Mediterranean remote site of ERSA in Cape-Corsica during the summer of 2013.

International audienceAs part of the CHARMEX (Chemistry Aerosol Mediterranean Experiments) project, more than one hundred organic and inorganic gaseous compounds were measured in the summer of 2013 at the Mediterranean remote site of ERSA in Cape-Corsica. During this period, New Particle formation (NPF) events were identified from July 31th to august 2nd when air masses originated from the North-eastern sector (Southern Europe). The results were compared to a non-NPF event from July 21th to July 23rd for which the same wind sectors were identified. They showed that the particles number [10-20 nm] measured by SMPS (Scanning Mobility Particle Sizer) were more correlated with carbon monoxide (CO) during non-NPF events indicating an influence of more polluted and more aged air masses (residence time of CO of 60 days). Sulfuric acid (H2SO4) and sulfur dioxide do not show a significant influence in the formation of nucleation events. On the other hand, biogenic Volatile Organic Compounds (BVOCs) such as isoprene, and mono-terpenes as well as their oxidation products (e.g. MACR+MVK, MTOP) showed good correlation during NPF-events in the range of (r from 0.45 to 0.59) higher than the ones reported during non-NPF events (0.11-0.34) highlighting the importance of these BVOCs on NPF days. The comparison of measured vs calculated reactivity (Zannoni et al, 2016) showed that during NPF-events, the missing part of OH reactivity was higher. It indicates that unmeasured species like sesquiterpenes, organo-nitrates, or oxygenated compounds may play a significant role in such events