417 research outputs found
Optimal ambidexterity and exploration valuableness:balancing short-term and long-term trade-off in pharmaceutical products development
One of the most challenging resource allocation tasks for managers is to balance short-termand long-termproducts development initiatives, since exploitative (i.e., short-termfocused) resource allocation patterns prevent managers from recognizing the existence or significance of exploratory (i.e., long-termfocused) opportunities. Recent research on organizational ambidexterity promises the potential to overcome this trade-off relationship, but they lack clear indications concerning the mix of exploitation and exploration that would result in an optimal degree of ambidexterity. Through the analysis of a unique data set on development resource allocation patterns for 231 new pharmaceutical products, as well as on the economic value of those products, we show that pharmaceutical companies realize a higher exploration degree of valuableness and hence an optimal level of ambidexterity by allocating roughly 1.5 times more development resources to exploitative products than to exploratory ones
Microbial electrocatalysis with Geobacter sulfurreducens biofilm on stainless steel cathodes
Stainless steel and graphite electrodes were individually addressed and polarized at−0.60V vs. Ag/AgCl in reactors filled with a growth medium that contained 25mM fumarate as the electron acceptor and no electron donor, in order to force the microbial cells to use the electrode as electron
source. When the reactor was inoculated with Geobacter sulfurreducens, the current increased and stabilized at average values around 0.75Am−2 for graphite and 20.5Am−2 for stainless steel. Cyclic voltammetry performed at the end of the experiment indicated that the reduction started at around −0.30V vs. Ag/AgCl on stainless steel. Removing the biofilm formed on the electrode surface made the current totally disappear, confirming that the G.sulfurreducens biofilm was fully responsible for the electrocatalysis of fumarate reduction. Similar current densities were recorded when the electrodes were polarized after being kept in open circuit for several days. The reasons for the bacteria presence and survival on non-connected stainless steel coupons were discussed. Chronoamperometry experiments performed at different potential values suggested that the biofilm-driven catalysis was controlled by electrochemical kinetics. The high current density obtained, quite close to the redox potential of the fumarate/succinate couple, presents stainless steel as a remarkable material to support biocathodes
DSA to grow electrochemically active biofilms of Geobacter sulfurreducens
Biofilms of Geobacter sulfurreducens were grown on graphite and on dimensionally stable anodes (DSA) in medium that did not contain any
soluble electron acceptor. Several working electrodes were individually addressed and placed in the same reactor to compare their electrochemical
behaviour in exactly the same biochemical conditions. Under constant polarization at 0.20Vversus Ag/AgCl, the electrodes were able progressively
to oxidize acetate (5 mM), and average current densities around 5Am−2 and 8Am−2 were sustained for days on DSA and graphite, respectively.
Removing the biofilm from the electrodes led the current to zero, while changing the medium by fresh one did not disturb the current when contact
to air was avoided. This confirmed that the biofilm was fully responsible for the electro-catalysis of acetate oxidation and the current was not due
to the accumulation of compounds in the bulk. Cyclic voltammetries performed during chronoamperometry indicated that the oxidation started
above 0.05V versus Ag/AgCl. The difference in maximal current values obtained with DSA and graphite was not linked to the biofilm coverage
ratios, which were of the same order of magnitude in the range of 62–78%. On the contrary, the difference in maximal current values matched the
ratio of the average surface roughness of the materials, 5.6 m and 3.2 m for graphite and DSA, respectively
The Human Microbiome Project: A Community Resource for the Healthy Human Microbiome
The Human Microbiome Project (HMP) [1],[2] is a concept that was long in the making. After the Human Genome Project, interest grew in sequencing the “other genome" of microbes carried in and on the human body [3],[4]. Microbial ecologists, realizing that >99% of environmental microbes could not be easily cultured, developed approaches to study microorganisms in situ [5], primarily by sequencing the 16S ribosomal RNA gene (16S) as a phylogenetic and taxonomic marker to identify members of microbial communities [6]. The need to develop corresponding new methods for culture-independent studies [7],[8] in turn precipitated a sea change in the study of microbes and human health, inspiring the new term “metagenomics" [9] both to describe a technological approach—sequencing and analysis of the genes from whole communities rather than from individual genomes—and to emphasize that microbes function within communities rather than as individual species. This shift from a focus on individual organisms to microbial interactions [10] culminated in a National Academy of Science report [11], which outlined challenges and promises for metagenomics as a way of understanding the foundational role of microbial communities both in the environment and in human health.National Institutes of Health (U.S.) (grant U54HG004969)National Institutes of Health (U.S.) (grant U54HG004973)National Institutes of Health (U.S.) (grant U54AI084844)National Institutes of Health (U.S.) (grant U01HG004866)National Institutes of Health (U.S.) (grant R01HG005969)National Institutes of Health (U.S.) (grant R01HG004872)United States. Army Research Office (grant W911NF-11-1-0473)National Science Foundation (U.S.) (NSF DBI-1053486)Howard Hughes Medical Institute (Early Career Scientist
Genome Sequence of the Deltaproteobacterial Strain NaphS2 and Analysis of Differential Gene Expression during Anaerobic Growth on Naphthalene
Anaerobic polycyclic hydrocarbon (PAH) degradation coupled to sulfate reduction may be an important mechanism for in situ remediation of contaminated sediments. Steps involved in the anaerobic degradation of 2-methylnaphthalene have been described in the sulfate reducing strains NaphS3, NaphS6 and N47. Evidence from N47 suggests that naphthalene degradation involves 2-methylnaphthalene as an intermediate, whereas evidence in NaphS2, NaphS3 and NaphS6 suggests a mechanism for naphthalene degradation that does not involve 2-methylnaphthalene. To further characterize pathways involved in naphthalene degradation in NaphS2, the draft genome was sequenced, and gene and protein expression examined.Draft genome sequencing, gene expression analysis, and proteomic analysis revealed that NaphS2 degrades naphthoyl-CoA in a manner analogous to benzoyl-CoA degradation. Genes including the previously characterized NmsA, thought to encode an enzyme necessary for 2-methylnaphthalene metabolism, were not upregulated during growth of NaphS2 on naphthalene, nor were the corresponding protein products. NaphS2 may possess a non-classical dearomatizing enzyme for benzoate degradation, similar to one previously characterized in Geobacter metallireducens. Identification of genes involved in toluene degradation in NaphS2 led us to determine that NaphS2 degrades toluene, a previously unreported capacity. The genome sequence also suggests that NaphS2 may degrade other monoaromatic compounds.This study demonstrates that steps leading to the degradation of 2-naphthoyl-CoA are conserved between NaphS2 and N47, however while NaphS2 possesses the capacity to degrade 2-methylnaphthalene, naphthalene degradation likely does not proceed via 2-methylnaphthalene. Instead, carboxylation or another form of activation may serve as the first step in naphthalene degradation. Degradation of toluene and 2-methylnaphthalene, and the presence of at least one bss-like and bbs-like gene cluster in this organism, suggests that NaphS2 degrades both compounds via parallel mechanisms. Elucidation of the key genes necessary for anaerobic naphthalene degradation may provide the ability to track naphthalene degradation through in situ transcript monitoring
Child saliva microbiota and caries: a randomized controlled maternal education trial in rural Uganda
Throne Holst Foundation and the Centre for Global Health at the University of Oslo’s Research ExceLlence and Innovation in Global HealTh (RELIGHT) programmepublishedVersio
METAREP: JCVI metagenomics reports—an open source tool for high-performance comparative metagenomics
Summary: JCVI Metagenomics Reports (METAREP) is a Web 2.0 application designed to help scientists analyze and compare annotated metagenomics datasets. It utilizes Solr/Lucene, a high-performance scalable search engine, to quickly query large data collections. Furthermore, users can use its SQL-like query syntax to filter and refine datasets. METAREP provides graphical summaries for top taxonomic and functional classifications as well as a GO, NCBI Taxonomy and KEGG Pathway Browser. Users can compare absolute and relative counts of multiple datasets at various functional and taxonomic levels. Advanced comparative features comprise statistical tests as well as multidimensional scaling, heatmap and hierarchical clustering plots. Summaries can be exported as tab-delimited files, publication quality plots in PDF format. A data management layer allows collaborative data analysis and result sharing
Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens
<p>Abstract</p> <p>Background</p> <p><it>Rhodoferax ferrireducens </it>is a metabolically versatile, Fe(III)-reducing, subsurface microorganism that is likely to play an important role in the carbon and metal cycles in the subsurface. It also has the unique ability to convert sugars to electricity, oxidizing the sugars to carbon dioxide with quantitative electron transfer to graphite electrodes in microbial fuel cells. In order to expand our limited knowledge about <it>R. ferrireducens</it>, the complete genome sequence of this organism was further annotated and then the physiology of <it>R. ferrireducens </it>was investigated with a constraint-based, genome-scale <it>in silico </it>metabolic model and laboratory studies.</p> <p>Results</p> <p>The iterative modeling and experimental approach unveiled exciting, previously unknown physiological features, including an expanded range of substrates that support growth, such as cellobiose and citrate, and provided additional insights into important features such as the stoichiometry of the electron transport chain and the ability to grow via fumarate dismutation. Further analysis explained why <it>R. ferrireducens </it>is unable to grow via photosynthesis or fermentation of sugars like other members of this genus and uncovered novel genes for benzoate metabolism. The genome also revealed that <it>R. ferrireducens </it>is well-adapted for growth in the subsurface because it appears to be capable of dealing with a number of environmental insults, including heavy metals, aromatic compounds, nutrient limitation and oxidative stress.</p> <p>Conclusion</p> <p>This study demonstrates that combining genome-scale modeling with the annotation of a new genome sequence can guide experimental studies and accelerate the understanding of the physiology of under-studied yet environmentally relevant microorganisms.</p
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