Es wurde ein System zur chemischen Modifizierung von Einzelcysteinvarianten des PTS- Transporters EIICBGlc etabliert, mit dem durch unterschiedliche Zugänglichkeit von Markersubstanzen die Zuordnung der jeweiligen Cysteine in Hinblick auf die Cytoplasmamembran gelang. Für die Methode war es notwendig, eine cysteinfreies EIICBGlc zu konstruieren. Dieses trägt des Weiteren eine Mutation, die die Phosphorylierung des Substrats Glukose von dem Transport entkoppelt. Dies ist notwendig, da das Cystein 421, das für die Phosphorylierung des WT verantwortlich ist, in dem cysteinfreien Protein nicht mehr vorhanden ist. Die Transportfähigkeit der Mutanten konnte nachgewiesen werden. Die Ergebnisse des Cystein-Scannings, Daten über dieses Protein aus vorangegangenen Arbeiten, sowie ein Vergleich der Struktur des EIIChb aus B. cereus, ermöglichten die Erstellung eines neuen Modells des Proteins EIICBGlc. In diesem Modell enthält das Protein 10 transmembrane Helices. Die postulierte Substratbindetasche wird aus haarnadelartigen Strukturen gebildet. Die Lage funktioneller Mutanten in dem Modell wurde diskutiert. Die entkoppelte Mutation R203H des Proteins EIICBGlc wurde isoliert. Eine Charakterisierung in Bezug auf ihre Fähigkeit Mlc zu titrieren, zeigte, dass eine Bindung von Mlc in diesem Protein möglich ist. Eine Konformationsänderung, die die Wechselwirkung zu Mlc inhibiert, liegt daher in diesem Protein nicht vor. Es wurde außerdem gezeigt, dass keine Erweiterung der Substratspezifität in diesem Protein vorliegt.

京都大学 / 0048 / 新制・課程博士 / 博士(農学) / 甲第21378号 / 農博第2302号 / 新制||農||1070(附属図書館) / 学位論文||H30||N5151(農学部図書室) / 京都大学大学院農学研究科食品生物科学専攻 / (主査)教授 橋本 渉, 教授 入江 一浩, 教授 保川 清 / 学位規則第4条第1項該当 / Doctor of Agricultural Science / Kyoto University / DFAM

Modification of the lipid A domain of lipopolysaccharide (LPS) is important for the pathogenesis and virulence of various Gram-negative bacteria. The major lipid A species of Helicobacter pylori is significantly different from that of Escherichia coli. H. pylori lipid A contains fewer acyl chains and phosphate groups with only one Kdo sugar attached to the disaccharide backbone. However, H. pylori produces a minor lipid A species that resembles E. coli lipid A, suggesting that the major lipid A species results from the action of specific modifying enzymes. This work describes two enzymes, a lipid A phosphatase and a phosphoethanolamine (pEtN) transferase, involved in modifying the 1-position of H. pylori lipid A. H. pylori lipid A contains a pEtN unit directly linked to the 1-position of the disaccharide backbone. This is in contrast to the pEtN units found in other pathogens, which are attached to the lipid A phosphate group to form a pyrophosphate linkage. Using in-vitro assay systems, we demonstrate that the modification of the 1-position of H. pylori lipid A is a two-step process involving the removal of the 1-phosphate group by LpxEHP followed by the addition of a pEtN residue catalyzed by EptAHP. As compared to wild-type H. pylori, lpxEHP mutants are extremely sensitive to the cationic peptide polymyxin, thus, demonstrating the importance of modifying the 1-position of lipid A. Furthermore, this work describes another enzyme, YeiU (renamed LpxT), which specifically utilizes the carrier lipid undecaprenyl pyrophsphate (C55-PP) to modify the 1-position of E. coli lipid A. Typically, E. coli lipid A is a hexa-acylated disaccharide of glucosamine in which monophosphate groups are attached at positions 1 and 4'; however, a small fraction contains a diphosphate moiety at the 1-position (lipid A 1-diphosphate). 32P-labeled lipid A obtained from lpxT deficient mutants produces only lipid A, and complementation with a plasmid expressing LpxT restores lipid A 1-diphosphate formation. Inhibition of lipid A 1-diphosphate synthesis was demonstrated by sequestering C55-PP with the cyclic polypeptide antibiotic bacitracin. In conclusion, this work describes two novel pathways for lipid A modification at the 1-position in Gram-negative bacteria.

No description available.

Plant promoters are the principle cis-acting regulatory sequences responsible for the temporal and spatial expression of genes. One method for isolating plant promoters is based on the ability of a common soil bacterium, <i> Agrobacterium tumefaciens </i>, to transfer a specific segment of DNA (T-DNA) into plant cells. This specific T-DNA has been shown to integrate stably into the recipient plant genome. If the T-DNA contains a promoterless marker gene, then T-DNA integration events occurring adjacent and downstream to a promoter region can be detected by the activation of the marker gene. These T-DNA-mediated gene fusions, consisting of an unknown plant promoter sequence and the coding sequence of a marker gene, can be isolated using the marker gene as a promoter tag. The key objective of this work was to develop a novel, bifunctional selectable marker gene and assess its use as: a selectable marker gene in bacterial and plant transformation systems, and as a promoter tag for T-DNA promoter-tagging studies in dicots. A bifunctional fusion gene was produced between phosphinothricin acetyltransferase and neomycin phosphotransferase (PAT::NPT II), by fusing an NPT II coding sequence to the 3' terminus of the PAT gene. The PAT gene product confers tolerance to a non-selective herbicide L-phosphinothricin (Ignite, Hoechst AG). The neomycin phosphotransferase ('npt II') gene allows for direct selection of transformed cells with the antibiotic, kanamycin. Using an <i>in vivo Escherichia coli </i> selection system, a translational fusion gene between these two reporter genes was achieved. The resulting protein had activities of both parent enzymes. This was demonstrated both in transformed <i>Escherichia coli</i> and in transformed <i>Nicotiana tabacum</i> and <i>Brassica napus</i> plants. Using this bifunctional selectable marker gene, a T-DNA promoter tagging vector, pBAU2, was constructed and its utility was demonstrated in <i>Nicotiana tabacum</i>. One of the <i>N. tabacum</i> promoter tagged events was selected for subsequent promoter isolation studies. The promoter from this regenerant was isolated by screening a Lambda subgenomic library and also by thermal asymmetric interlaced (TAIL-)PCR. The isolated upstream regulatory sequence was fused to a reporter gene, â-glucuronidase ('gus'), and subjected to a preliminary evaluation in <i> Nicotiana tabacum</i> and in <i>Brassica napus</i>.

Aggregatibacter actinomycetemcomitans is a Gram negative bacterium found exclusively in the mammalian oral cavity where it resides in the gingival crevice, the space between the tooth and gum tissue. Though it has historically been considered a common commensal organism, it is now appreciated that A. actinomycetemcomitans is an opportunistic pathogen associated with the diseases periodontitis and endocarditis. To cause infection, A. actinomycetemcomitans must interact and compete with neighboring bacteria for space and nutrients, though little is known about the physiology it employs within the gingival crevice. Using A. actinomycetemcomitans grown in a chemically defined medium containing carbon sources found in vivo, I use transcriptome analyses and growth studies to show that A. actinomycetemcomitans preferentially utilizes lactate over the phosphotransferase system (PTS) sugars glucose and fructose. Additionally, the presence of lactate or pyruvate inhibits the transport and metabolism of these sugars in a post-transcriptionally controlled process I have termed PTS substrate exclusion. Since lactate is an energetically inferior carbon source, PTS substrate exclusion appears to be a carbon resource partitioning mechanism that allows A. actinomycetemcomitans to avoid competition for energetically favorable sugars with other species, and I propose a model to describe this phenomenon. To begin to understand the mechanism of PTS substrate exclusion, I examine the first step of the proposed model by purifying and characterizing the L-lactate dehydrogenase (LctD) from A. actinomycetemcomitans. I demonstrate that, unlike other studied lactate dehydrogenases, the LctD from A. actinomycetemcomitans does not exhibit feedback inhibition in the presence of physiologically relevant concentrations of pyruvate, which supports my hypothesis that elevated intracellular pyruvate levels inhibit the PTS. The results of my studies provide insight into a new regulatory mechanism governing carbon utilization in this bacterium. / text

Escherichia coli (E. coli) is an attractive host for production of recombinant proteins, since it generally provides a rapid and economical means to achieve high product quantities. In this thesis, the impact of the glucose uptake rate on the production of recombinant proteins was studied, aiming at improving and optimising production of recombinant proteins in E. coli. E. coli can be cultivated to high cell densities in bioreactors by applying the fed-batch technique, which offers a means to control the glucose uptake rate. One objective of this study was to find a method for control of the glucose uptake rate in small-scale cultivation, such as microtitre plates and shake flasks. Strains with mutations in the phosphotransferase system (PTS) where used for this purpose. The mutants had lower uptake rates of glucose, resulting in lower growth rates and lower accumulation of acetic acid in comparison to the wild type. By using the mutants in batch cultivations, the formation of acetic acid to levels detrimental to cell growth could be avoided, and ten times higher cell density was reached. Thus, the use of the mutant strains represent a novel, simple alternative to fed-batch cultures.   The PTS mutants were applied for production of integral membrane proteins in order to investigate if the reduced glucose uptake rate of the mutants was beneficial for their production. The mutants were able to produce three out of five integral membrane proteins that were not possible to produce by the wild-type strain. The expression level of one selected membrane protein was increased when using the mutants and the expression level appeared to be a function of strain, glucose uptake rate and acetic acid accumulation. For production purposes, it is not uncommon that the recombinant proteins are secreted to the E. coli periplasm. However, one drawback with secretion is the undesired leakage of periplasmic products to the medium. The leakage of the product to the medium was studied as a function of the feed rate of glucose in fed-batch cultivations and they were found to correlate. It was also shown that the amount of outer membrane proteins was affected by the feed rate of glucose and by secretion of a recombinant product to the periplasm. The cell surface is another compartment where recombinant proteins can be expressed. Surface display of proteins is a potentially attractive production strategy since it offers a simple purification scheme and possibilities for on-cell protein characterisation, and may in some cases also be the only viable option. The AIDA-autotransporter was applied for surface display of the Z domain of staphylococcal protein A under control of the aidA promoter. Z was expressed in an active form and was accessible to the medium. Expression was favoured by growth in minimal medium and it seemed likely that expression was higher at higher feed rates of glucose during fed-batch cultivation. A repetitive batch process was developed, where relatively high cell densities were achieved whilst maintaining a high expression level of Z. / QC 20110608

In this study, a strategy called gene splicing by overlap extension, &ldquo / Gene SOEing&rdquo / , was used for the construction of the fusion proteins with the purpose of increasing the thermostability of mesophilic enzymes by incorporation of stability domain from a thermostable enzyme. Gene SOEing is a PCR-based approach for recombining DNA molecules at precise junctions irrespective of nucleotide sequences at the recombination site and without the use of restriction endonucleases or ligase. In fusion constructs, as the stability determinant Thermoplasma volcanium citrate synthase (CS) large domain has been used. This gene has recently been cloned in our laboratory. In two different fusions, as fusion partners, dehalogenase II (dehCII) gene of Pseudomonas sp. CBS3 and aminoglycoside-3&#039 / -phosphotransferase-II (APH(3&#039 / )-II) gene of E. coli were employed. Following the Gene SOEing, two fusion products, 1722 bp long CS Large Domain-dehCII and 1750 bp long CS Large Domain-APH(3&#039 / )-II were constructed. Also a 1586 bp long dehCII-APH(3&#039 / )-II fusion was prepared. Three fusion constructs were cloned in E. coli. Cloning was confirmed in each case, by restriction analysis of the isolated plasmids from recombinant colonies. APH(3&#039 / )-II gene associated with CS Large Domain-APH(3&#039 / )-II and dehCII-APH(3&#039 / )-II fusion constructs were successfully expressed in E. coli as revealed by enzyme assay and antibiotic agar plate assay. CS Large Domain-APH(3&#039 / )-II fusion protein retained 9.4% of the original APH(3&#039 / )-II activity after 10 minutes at 60&ordm / C. However, CS Large Domain-dehCII and dehCII-APH(3&#039 / )-II fusions did not display any dehalogenase activity.

Thesis (MSc (Genetics. Plant Biotechnology)) --Stellenbosch University, 2008. / The main aim of the work presented in this thesis was to further our understanding of the role of Pyrrophosphate: fructose 6-phosphate 1-phosphotransferase (PFP) in sugarcane, by specifically investigating its potential contribution to phloem metabolism. PFP activity in sugarcane internodal tissue is inversely correlated to sucrose content across varieties that differ in their sucrose accumulation abilities. This apparent correlation is in contrast to previous studies that suggest PFP plays an insignificant role in metabolism. In the first part of this study an immunological characterisation of the two subunits of sugarcane PFP was conducted to establish whether it differ significantly from other plant species in terms of size and distribution. Both the alpha and beta subunit appears to be approximately sixty kilo Daltons in size and uniform in their relative distribution to each other in the various plant organs of sugarcane. Although the observed alpha subunit size is less than that predicted this could be explained at the hand of post translational modification, in essence the sugarcane PFP subunits appear similar than that described for other plants especially that of tobacco which was employed as a model system later on in this study. The only direct way to investigate PFP’s contribution to phloem metabolism is to alter its activity by recombinant DNA technologies. Therefore, in the second part of the study transformation systems were designed for both the constitutive and phloem specific downand up-regulation of PFP activity. For the down-regulation of activity a post transcriptional gene silencing system, i.e. a complementary strand intron hairpin RNA (ihpRNA) silencing system, was employed. A partial sequence of the PFP-beta subunit was isolated and used in vector construction. For the over-expression the Giardia lamblia PFP gene was used. The model plant tobacco was employed to investigate PFP’s effect on phloem metabolism and transport of assimilate. Transgene insertion was accomplished by means of Agobacterium mediated transformation and tissue specific manipulation of PFP activity was confirmed by in situ activity staining.

Listeria monocytogenes transporte le cellobiose principalement via le PTS (PEP:carbohydrate phosphotransferase system). La croissance sur cellobiose induit l'expression des opérons celBCA1, celBA2 ainsi que du gène lmrg_01989, qui codent respectivement le composant soluble EIIACel1, le transporteur EIICCel1, le composant soluble EIIBCel1, les protéines EIIBCel2 et EIIACel2, et une seconde EIICCel. La croissance sur glucose réprime fortement l'expression de ces gènes. La délétion de celC1 codant l'EIICCel1 ou des deux gènes, celA1 et celA2, ralentit considérablement la consommation cellobiose. L'expression des trois unités de transcription induite par le cellobiose dépend de CelR. CelR, qui code un régulateur transcriptionnel LevR- like, est situé en aval de l'opéron bicistronique celBA2. CelR est activé par phosphorylation par EI et HPr de l'His550. En revanche, la phosphorylation de l'His823, catalysée par P~EIIBCel1 et P~EIIBCel2, inhibe l'activité de CelR. Le remplacement de l'His823 par une Ala empêchant cette phosphorylation ou la délétion des deux gènes codants les EIIAsCel ou EIIBsCel entraîne l'expression constitutive des trois unités de transcription contrôlées par CelR. Comme le glucose, le cellobiose inhibe fortement l'activité de PrfA, l'activateur des gènes de virulence. Nous avons donc cherché à tester si l'un des composants PTSCel pouvait être impliqué dans la répression de gènes de virulence. Les mutants consommant faiblement le cellobiose, présentaient une levée de la répression des gènes de virulence par le cellobiose, alors que le glucose et les autres sucres-PTS les réprimaient toujours. De manière surprenante, la délétion du gène monocistronique lmrg_00557, qui code un autre composant EIIBCel du PTS, induisait la levée de la répression des gènes de virulence médiée par toutes les sources de carbone mais n'avait aucun effet sur la consommation de glucose ou de cellobiose. Ce gène lmrg_00557 a été appelé vgiB (virulence gene inhibitor B) et la protéine correspondante, qui semble jouer un rôle majeur dans la régulation de l'activité de PrfA, EIIBVir. Cette protéine est phosphorylée par le PEP et les composants PTS EI, HPr et EIIACel2 sur le résidu cystéine-8. La complémentation du mutant ΔvgiB avec l'allèle sauvage, mais également avec l'allèle Cys8Ala, restaurait le mécanisme général de répression des gènes de virulence par les sucres, suggérant ainsi que la forme non phosphorylée de EIIBVir inhibe l'activité de PrfA. / Listeria monocytogenes transports cellobiose mainly via a PEP:carbohydrate phosphotranseferase system (PTS). Growth on cellobiose induces the expression of the celBCA1 and celBA2 operons as well as lmrG01989, which encode the soluble EIIA Cel1 and EIIB Cel1 components, the transporter EIIC Cel1 , the EIIA Cel2 and EIIB Cel2 proteins, and a second EIIC Cel , respectively. Growth on lucose strongly repressed the expression of these genes. Deletion of the EIIC Cel1 –encoding celC1 or of both, celA1 and celA2, significantly slowed cellobiose consumption. The bicistronic operon celBA2 is located downstream from celR, which codes for a LevR-like transcription activator. Expression of the three cellobiose-induced transcription units depends on CelR. The gene encoding CelR is located upstream from the bicistronic operon celBA2. CelR itself is activated via phosphorylation by EI and HPr at His550. In contrast, phosphorylation at His823, which is catalyzed by both, P~EIIB Cel1 and P~EIIB Cel2 , inhibits CelR activity. Preventing this phosphorylation by replacing His823 with Ala or deleting the two EIIA Cel – or EIIB Cel -encoding genes caused constitutive expression of all three CelR-controlled transcription units. Similar to glucose, cellobiose strongly inhibits the activity of the virulence gene activator PrfA. We therefore tested whether one of the PTS Cel components might be involved in virulence gene repression. Mutants, that exhibit slow cellobiose consumption, were relieved from cellobiose-mediated virulence gene repression, whereas glucose and other PTS-sugars still repressed them. Strikingly, deletion of the presumed monocistronic lmrg_00557, which codes for another EIIB Cel -like PTS component, caused a general relief from carbon source-mediated virulence gene repression, but had no effect on cellobiose or glucose consumption. The gene lmrg_00557 was named vgiB (virulence gene inhibitor B) and the encoded protein, which seems to play a major role in PrfA regulation, was called EIIB Vir . It becomes phosphorylated by PEP and the PTS components enzyme I, HPr and EIIA Cel2 at cysteine-8. Complementation of the ΔvgiB mutant with wild-type vgiB, but also with the Cys8Ala allele restored general virulence gene repression, thus suggesting that it is the unphosphorylated form of EIIB Vir , which inhibits the activity of PrfA.