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      Novel insights into biosynthesis and uptake of rhamnolipids and their precursors

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          Abstract

          The human pathogenic bacterium Pseudomonas aeruginosa produces rhamnolipids, glycolipids with functions for bacterial motility, biofilm formation, and uptake of hydrophobic substrates. Rhamnolipids represent a chemically heterogeneous group of secondary metabolites composed of one or two rhamnose molecules linked to one or mostly two 3-hydroxyfatty acids of various chain lengths. The biosynthetic pathway involves rhamnosyltransferase I encoded by the rhlAB operon, which synthesizes 3-(3-hydroxyalkanoyloxy)alkanoic acids (HAAs) followed by their coupling to one rhamnose moiety. The resulting mono-rhamnolipids are converted to di-rhamnolipids in a third reaction catalyzed by the rhamnosyltransferase II RhlC. However, the mechanism behind the biosynthesis of rhamnolipids containing only a single fatty acid is still unknown. To understand the role of proteins involved in rhamnolipid biosynthesis the heterologous expression of rhl-genes in non-pathogenic Pseudomonas putida KT2440 strains was used in this study to circumvent the complex quorum sensing regulation in P. aeruginosa. Our results reveal that RhlA and RhlB are independently involved in rhamnolipid biosynthesis and not in the form of a RhlAB heterodimer complex as it has been previously postulated. Furthermore, we demonstrate that mono-rhamnolipids provided extracellularly as well as HAAs as their precursors are generally taken up into the cell and are subsequently converted to di-rhamnolipids by P. putida and the native host P. aeruginosa. Finally, our results throw light on the biosynthesis of rhamnolipids containing one fatty acid, which occurs by hydrolyzation of typical rhamnolipids containing two fatty acids, valuable for the production of designer rhamnolipids with desired physicochemical properties.

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          Molecular Cloning : A Laboratory Manual

          <p>The first two editions of this manual have been mainstays of molecular biology for nearly twenty years, with an unrivalled reputation for reliability, accuracy, and clarity.<br>In this new edition, authors Joseph Sambrook and David Russell have completely updated the book, revising every protocol and adding a mass of new material, to broaden its scope and maintain its unbeatable value for studies in genetics, molecular cell biology, developmental biology, microbiology, neuroscience, and immunology.<br>Handsomely redesigned and presented in new bindings of proven durability, this three–volume work is essential for everyone using today’s biomolecular techniques.<br>The opening chapters describe essential techniques, some well–established, some new, that are used every day in the best laboratories for isolating, analyzing and cloning DNA molecules, both large and small.<br>These are followed by chapters on cDNA cloning and exon trapping, amplification of DNA, generation and use of nucleic acid probes, mutagenesis, and DNA sequencing.<br>The concluding chapters deal with methods to screen expression libraries, express cloned genes in both prokaryotes and eukaryotic cells, analyze transcripts and proteins, and detect protein–protein interactions.<br>The Appendix is a compendium of reagents, vectors, media, technical suppliers, kits, electronic resources and other essential information.<br>As in earlier editions, this is the only manual that explains how to achieve success in cloning and provides a wealth of information about why techniques work, how they were first developed, and how they have evolved. </p>
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            Enhanced annotations and features for comparing thousands of Pseudomonas genomes in the Pseudomonas genome database

            The Pseudomonas Genome Database (http://www.pseudomonas.com) is well known for the application of community-based annotation approaches for producing a high-quality Pseudomonas aeruginosa PAO1 genome annotation, and facilitating whole-genome comparative analyses with other Pseudomonas strains. To aid analysis of potentially thousands of complete and draft genome assemblies, this database and analysis platform was upgraded to integrate curated genome annotations and isolate metadata with enhanced tools for larger scale comparative analysis and visualization. Manually curated gene annotations are supplemented with improved computational analyses that help identify putative drug targets and vaccine candidates or assist with evolutionary studies by identifying orthologs, pathogen-associated genes and genomic islands. The database schema has been updated to integrate isolate metadata that will facilitate more powerful analysis of genomes across datasets in the future. We continue to place an emphasis on providing high-quality updates to gene annotations through regular review of the scientific literature and using community-based approaches including a major new Pseudomonas community initiative for the assignment of high-quality gene ontology terms to genes. As we further expand from thousands of genomes, we plan to provide enhancements that will aid data visualization and analysis arising from whole-genome comparative studies including more pan-genome and population-based approaches.
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              Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440.

              Pseudomonas putida is a metabolically versatile saprophytic soil bacterium that has been certified as a biosafety host for the cloning of foreign genes. The bacterium also has considerable potential for biotechnological applications. Sequence analysis of the 6.18 Mb genome of strain KT2440 reveals diverse transport and metabolic systems. Although there is a high level of genome conservation with the pathogenic Pseudomonad Pseudomonas aeruginosa (85% of the predicted coding regions are shared), key virulence factors including exotoxin A and type III secretion systems are absent. Analysis of the genome gives insight into the non-pathogenic nature of P. putida and points to potential new applications in agriculture, biocatalysis, bioremediation and bioplastic production.
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                Author and article information

                Contributors
                +49 731 50-15186 , andreas.wittgens@uni-ulm.de
                Journal
                Appl Microbiol Biotechnol
                Appl. Microbiol. Biotechnol
                Applied Microbiology and Biotechnology
                Springer Berlin Heidelberg (Berlin/Heidelberg )
                0175-7598
                1432-0614
                17 December 2016
                17 December 2016
                2017
                : 101
                : 7
                : 2865-2878
                Affiliations
                [1 ]ISNI 0000 0004 1936 9748, GRID grid.6582.9, Ulm Center for Peptide Pharmaceuticals (U-PEP), , Ulm University, ; Albert-Einstein-Allee 11, 89081 Ulm, Germany
                [2 ]ISNI 0000 0001 2297 375X, GRID grid.8385.6, Institute for Molecular Enzyme Technology (IMET), , Heinrich-Heine-University Düsseldorf, Forschungszentrum Jülich, ; Wilhelm-Johnen-Straße, 52428 Jülich, Germany
                [3 ]Boehringer Ingelheim Pharma GmbH & Co. KG, Biopharmaceutical and Analytical Development, Birkendorfer Straße 65, 88400 Biberach an der Riß, Germany
                [4 ]ISNI 0000 0001 0075 5874, GRID grid.7892.4, Institute of Process Engineering in Life Sciences, Section II: Technical Biology, , Karlsruhe Institute of Technology (KIT), ; Engler-Bunte-Ring 1, 76131 Karlsruhe, Germany
                [5 ]ISNI 0000 0001 2297 375X, GRID grid.8385.6, Central Institute for Engineering, , Electronics and Analytics, Section Analytics (ZEA-3), Forschungszentrum Jülich, ; Wilhelm-Johnen-Straße, 52428 Jülich, Germany
                [6 ]ISNI 0000 0001 2297 375X, GRID grid.8385.6, Institute for Bio- and Geosciences, , IBG-3: Agrosphere, Forschungszentrum Jülich, ; Wilhelm-Johnen-Straße, 52428 Jülich, Germany
                [7 ]ISNI 0000 0001 0728 696X, GRID grid.1957.a, Institute of Applied Microbiology (iAMB), Aachen Biology and Biotechnology (ABBt), , RWTH Aachen University, ; Worringerweg 1, 52074 Aachen, Germany
                [8 ]ISNI 0000 0001 2290 1502, GRID grid.9464.f, Institute of Food Science and Biotechnology, Department of Bioprocess Engineering (150k), , University of Hohenheim, ; Fruwirthstraße 12, 70599 Stuttgart, Germany
                [9 ]ISNI 0000 0001 2176 9917, GRID grid.411327.2, iQu Collegiate-Didactics, , Heinrich-Heine-University Düsseldorf, ; Universitätsstraße 1, 40225 Düsseldorf, Germany
                Article
                8041
                10.1007/s00253-016-8041-3
                5352749
                27988798
                6fe2daa0-c350-41da-b350-23ec89c33157
                © The Author(s) 2016

                Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.

                History
                : 16 September 2016
                : 25 November 2016
                : 29 November 2016
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/100007636, Deutsche Bundesstiftung Umwelt;
                Funded by: Fachagentur Nachwachsende Rohstoffe e. V.
                Categories
                Biotechnologically Relevant Enzymes and Proteins
                Custom metadata
                © Springer-Verlag Berlin Heidelberg 2017

                Biotechnology
                pseudomonas aeruginosa,rhamnolipids,biosurfactant,pseudomonas putida,biosynthesis pathway

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