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Streptococcus pneumoniae, more commonly known as the pneumococcus, is a Gram-positive bacterium colonizing the human upper respiratory tract as a commensal. However, these apparently harmless bacteria have also a high virulence potential and are known as the etiologic agent of respiratory and life-threatening invasive diseases. Dissemination of pneumococci from the nasopharynx into the lungs or bloodstream leads to community-acquired pneumonia, septicaemia and meningitis. Pneumococcal diseases are treated with antibiotics and prevented with polysaccharide-based vaccines. However, due to the increase of antibiotic resistance and limitations of the current vaccines, the burden of diseases remains high. Interactions of pneumococci with soluble host proteins or cellular receptors are crucial for adherence, colonization, transmigration of host barriers and immune evasion. The pneumococcal surface-exposed proteins are the main players involved in this host-pathogen interaction. Therefore, combating pneumococcal transmission and infections has emphasized the need for a new generation of immunogenic and highly protective pneumococcal vaccines, based on surface-exposed adhesins virtually expressed by all pneumococcal strains and serotypes. The genomic analysis of S. pneumoniae strains helped to identify pneumococcal virulence factors such as pili, PsrP and PavB, which have been demonstrated to interact with human proteins playing an important role during the pathogenic process of pneumococci, and are currently considered as new potential vaccine candidates against S. pneumoniae. A subclass of pneumococcal strains produces pili that are encoded by the pathogenicity islet pilus islet-1 (rlrA islet) and/or the pilus islet-2. Both types of pili are implicated in bacterial adherence to host cells. A further pathogenicity islet encoded protein is PsrP. The presence of the psrP-secY2A2 islet correlated positively with the ability of pneumococci to cause invasive pneumococcal diseases. Recent studies indicated that PsrP is a protective adhesin interacting with keratin 10 on lung epithelial cells. In this study, the genomic loci of the pneumococcal virulence factors pili, PsrP and PavB were molecularly analyzed and used as molecular markers for molecular epidemiology studies of S. pneumoniae. The genotyping results obtained here showed the impact of the PCV7 immunization of children, started in July 2006, on the distribution of these pneumococcal virulence factors among clinical isolates in Germany. These findings gave more insights into the role of pili, PsrP and PavB in pneumococcal pathogenesis and may strongly support the idea of including these pneumococcal constituents in a broad coverage protein-based vaccine against pneumococcal infections produced by invasive serotypes in the future. The mature PavB protein contains a variable number of repetitive sequences referred to as the Streptococcal Surface Repeats (SSURE). PavB has been demonstrated to interact with fibronectin and plasminogen in a dose-dependent manner and it was identified as a surface-exposed adhesin with immunogenic properties, which contributes to pneumococcal colonization and respiratory airways infections. The complete molecular analysis performed here for PavB, allowed to know more accurately its structure and to estimate the real number of SSURE units in different pneumococcal strains. With these findings, a new primary sequence-based structural model was constructed for the PavB protein and its SSURE domain, and, at least for TIGR4, the complete pavB gene and PavB protein sequences with five SSURE units was reported in the GenBank database of the NCBI website. Due to its immediate neighborhood on the pneumococcal genome with the tcs08 genes, PavB is likely linked with this pneumococcal TCS. Here, a significant reduction of the PavB protein expression was observed in delta-tcs08-mutant strains, which may strongly suggest that the TCS08 does play a role in pneumococcal virulence and metabolisme, as further observed in growth behaviour experiments carried out with the TCS08-deficient mutants, cultured in chemically defined medium. Despite several studies suggest that the molecular mechanism underlying the bacterial signal transduction is very sophisticated, the majority of reports in prokaryotic TCS, including those for S. pneumoniae, are still focused in single cognate pairs. The pneumococcal genome encodes 14 TCSs and an orphan response regulator. It is obvious that TCS pathways are often arranged into complex circuits with extensive cross-regulation at a variety of levels, thereby endowing cells with the ability to perform sophisticated information processing tasks. This study established also the experimental and molecular bases for the construction of a comprehensive genome-wide interaction map of the complex TCS pathways for its application in the gene regulation of pneumococcal virulence factors.
Streptococcus pneumoniae (pneumococci) are Gram-positive cocci and commensals of the human upper respiratory tract. Pneumococcal pathogenesis requires adherence to host cells and dissemination through cellular barriers and to evade host defense mechanisms. The Pneumococcal surface protein C (PspC) is an important virulence factor which has a crucial role in pneumococcal adhesion to host cells and immune evasion by manipulating the host complement system. To elucidate the pneumococcal adherence and uptake mechanism via factor H glycosaminoglycans (dermatan sulfate and heparin) were employed as competitive inhibitors in infection experiments with epithelial cells or human polymorphonuclear leukocytes (PMNs). Glycosaminoglycans significantly inhibited the FH mediated pneumococcal adherence and subsequent invasion to host epithelial cells. Furthermore, the short consensus repeats of FH which promotes the adhesion of pneumococci to host cells were identified by blocking experiments with domain mapped antibodies for specific regions of FH. Moreover, this study indicates that FH acts as adhesion molecule via cellular receptors recognized as integrin CR3 on human PMNs. Binding of Factor H loaded pneumococci to integrins CR3 was assessed by flow cytometry. Pneumococci coated with Factor H showed a significantly increased association with PMNs. This interaction was blocked by anti-CR3 antibodies and Pra1. This project further aims to study mechanisms of pneumococcal endocytosis by host cells, their intracellular fate, and the pathogen induced host cell signal transduction cascades including the calcium signaling upon pneumococcal infection of host cells via the PspC-hpIgR interaction. To assess now the role of protein tyrosine kinases (PTKs) during pneumococcal infection via PspC, cell culture infections were performed in presence of pharmacological inhibitors of PTKs and MAPKs or by employing genetic interference techniques. Blocking the function of Src or ER1/2 and JNK and genetic-knock down of Src and FAK reduced significantly internalization of pneumococci. These data indicated the importance of a coordinated signaling between Src PTKs, ERK1/2, and JNK during PspC-pIgR-mediated uptake of pneumococci by host epithelial cells. The impact of host cells intracellular calcium concentrations on pneumococcal PspC-hpIgR mediated internalization was studied. Intracellular calcium measurement of epithelial cells performed in the presence of pneumococci suggested a calcium influx in host epithelial cells and importantly this calcium influx was PspC- hpIgR specific as pspC-deficient pneumococci were unable to mediate calcium mobilization in host cells. The increase in intracellular calcium [Ca2+]i was dependent on phospholipase C as pretreatment of cells with a phospholipase C-specific inhibitor abolished the increase in [Ca2+]i. Furthermore, role of host intracellular calcium concentrations during pneumococcal internalization was demonstrated by employing specific pharmacological inhibitors and calcium chelators in epithelial cell culture infection assays. The results revealed that elevated host cells calcium concentrations diminished pneumococcal internalization while lower calcium concentration in host epithelial cells promoted pneumococcal uptake. This study further demonstrates that dynamin, clathrin and caveolin play a key role during pneumococcal endocytosis into host cells via PspC-hpIgR. The use of specific pharmacological inhibitors or genetic interference approaches against dynamin, clathrin and caveolin in epithelial cell culture infection assays significantly blocked pneumococcal uptake. Furthermore, confocal microscopy revealed that pneumococci co-localize with clathrin. At later stages of the infection the pathogen is sorted to early, late and recycling endosomes as indicated by co-localization of pneumococci with endosomal markers such as Rab5, Rab4, Rab 7, and Lamp1. In order to get further insights into PspC-hpIgR mediated uptake mechanisms, a chimeric PspC was constructed and expressed heterologously on the surface of Lactococcus lactis. Immunofluorescence staining, immunoblot and flow cytometric analysis of L. lactis confirmed the expression of PspC on the bacterial surface. Moreover the ability of recombinant lactococci expressing PspC to adhere to and to invade pIgR-expressing epithelial cells confirmed the functional activity of PspC when exposed on the lactococcal surface. PspC expressing lactococci confirmed the specificity of PspC-hpIgR mediated endocytosis in host epithelial cells as PspC deficient lactococci were not taken up by these host cells. Confocal microscopic analysis demonstrated that only PspC expressing lactococci were sorted to early, late and recycling endosomes, similar to the intracellular fate of S. pneumoniae.
Streptococcus pneumoniae (the pneumococcus) is a harmless resident of the human nasopharyngeal cavity, and, in general, every individual is likely to be colonized asymptomatically at least once during life. However, under certain conditions, the bacterium can spread to other tissues and organs causing local, non-invasive infections but also lifethreatening, invasive diseases. Pneumococcal carriage and infection is a highly regulated interplay between pathogen- and host-specific factors and the intimate contact of S. pneumoniae with the surface of the nasopharynx is the crucial step in pneumococcal pathogenesis. Pneumococcal adherence to the respiratory epithelium is mediated by surface-exposed adhesins. These adhesins engage host cell receptors either directly or indirectly by recognizing glycoproteins of the extracellular matrix (ECM) including structural components, such as collagens, laminins, and fibronectins, as well as plasma-derived ECM modulators, like vitronectin and Factor H. Pneumococcal surface protein C (PspC) is a surface-exposed protein and important virulence factor of S. pneumoniae. The multifunctional PspC protein promotes pneumococcal adherence to host cells by interacting with the secretory component of the human polymeric Immunoglobulin receptor of respiratory cells. In addition, PspC facilitates pneumococcal immune evasion by recruiting the complement inhibitor proteins C4b-binding protein (C4BP) and Factor H. Moreover, Factor H bound to the pneumococcal surface promotes bacterial adhesion to human epithelial and endothelial cells. S. pneumoniae also interacts with the human glycoprotein vitronectin. In plasma, monomeric vitronectin regulates thrombosis, fibrinolysis and the terminal complement cascade, while it additionally mediates cell-matrix interactions, cell adhesion and migration in the ECM. It was shown that multimeric, ECM-associated vitronectin facilitates pneumococcal adherence to respiratory epithelial cells. In addition, the interaction of pneumococci with vitronectin promotes their uptake by mucosal epithelial cells via the engagement of the integrin αvβ3 receptor and activation of intracellular signaling pathways culminating in cytoskeletal rearrangements. This study aims to identify and characterize the surface-exposed protein(s) that mediate binding of pneumococci to vitronectin and to elucidate the impact of vitronectin on pneumococcal pathogenesis beyond its function as molecular bridge between pneumococcus and host. Flow cytometric, immunosorbent and surface plasmon resonance experiments revealed that PspC is a vitronectin-binding protein of S. pneumoniae. The specificity of the interaction with vitronectin was confirmed using recombinant PspC proteins and Lactococcus lactis heterologously expressing PspC on their surface. Factor H did not hinder vitronectinbinding to PspC indicating that vitronectin recognizes the central part of PspC. Secretory IgA inhibited but not completely prevented vitronectin-binding to PspC, strongly suggesting that vitronectin binds near, but not directly to, the SC-binding region within the R domain(s) of PspC. In addition, PspC proteins comprising two R domains bound with higher affinity to vitronectin than PspC containing only one R domain, indicating that two interconnected R domains are required for efficient vitronectin-binding. Despite the sequential and structural differences to classical PspC, the PspC-like protein Hic specifically interacted with vitronectin with similar affinity than PspC containing two linked R domains. Binding studies confirmed that Factor H interacts with the very N-terminal region of Hic showing high sequence homology to classical PspC proteins, while vitronectin recognizes an adjacent region in the N-terminal region of Hic. The studied PspC proteins bound to both soluble and immobilized vitronectin, and the C-terminal heparin-binding domain (HBD3) was identified as PspC-binding motif in soluble vitronectin. However, in its immobilized form, vitronectin likely exposes additional binding sites for PspC since a region N-terminally to the identified HBD3 conferred binding of PspC. Vitronectin inhibits the terminal complement pathway, thereby preventing proinflammatory immune reactions and tissue damage. In general, pneumococci are protected from opsonization and MAC-dependent lysis by their capsule. However, pneumococci in close contact to human cells can become susceptible to complement attack due to reduced amounts of capsule. In addition, they can be severely affected by TCC-induced inflammatory responses. Vitronectin bound to PspC significantly inhibited the formation of terminal complement complexes. Thus, the interaction of PspC with vitronectin might aid in immune evasion of S. pneumoniae by inhibiting complement-mediated lysis and/or suppressing proinflammatory events. In conclusion, the results revealed the multifunctional PspC and Hic as vitronectin-binding proteins and proposed a novel role for the specific interaction of S. pneumoniae with vitronectin in regulating the complement cascade, beside its function as molecular bridge to the respiratory epithelium.
The influence of regulatory proteins on the physiology and virulence of Streptococcus pneumoniae
(2015)
In conclusion, this work identifies the regulator ArgR2 as activator of the S. pneumoniae TIGR4 arginine deiminase system and arginine-ornithine transporter ArcD, which is needed for uptake of the essential amino acid arginine. Although ArgR2 activates ArcD expression and uptake of arginine is required to maintain pneumococcal fitness, the deficiency of ArgR2 increases TIGR4 virulence under in vivo conditions, suggesting that other factors regulated by ArgR2 counterbalance the reduced uptake of arginine by ArcD. Thus this works illustrates that the physiological homeostasis of pneumococci is complex and that ArgR2 plays a key role in maintaining bacterial fitness. Moreover, Rex was identified as a regulator of housekeeping genes including genes encoding glycolytic enzymes. In vitro studies and gene expression analyses suggested that the regulator Rex does not have an influence on the physiology of S. pneumoniae. However, a co-infection experiment demonstrated that Rex is involved in maintaining pneumococcal fitness and robustness under in vivo conditions.
Streptococcus pneumoniae (pneumococci) and Staphylococcus aureus (S. aureus) are human-specific commensals of the upper respiratory tract. Every individual is asymptomatically colonized with both bacteria at least once in their life-time. The opportunistic pathogens can affect further organs and invade into deeper tissue. The occupation of normally sterile niches of the human body with the bacteria can lead to local infections such as sinusitis, otitis media and abscesses, or to life-threatening diseases like pneumonia, meningitis or sepsis. A strong interaction between the bacterium and the respiratory epithelial cells is a prerequisite for a successful colonization. This interaction is ensured by bacterial surface proteins, so called adhesins. The binding of the adhesins to the epithelial lineage occurs predominantly indirectly via components of the extracellular matrix (ECM), but also directly to cellular receptors. Pneumococci and S. aureus bind to various ECM glycoproteins, amongst others: fibronectin, fibrinogen, vitronectin, and collagen. Also binding of both pathogens to human thrombospondin-1 has been described. Thrombospondin-1 is mainly stored in the α-granula of thrombocytes (platelets) and released into the circulation upon activation. However, thrombospondin-1 is also produced and secreted by other cell types like endothelial cells, macrophages, and fibroblasts, which gets subsequently incorporated as component into the ECM. So far, no thrombosponin-1-binding adhesins of pneumococci were identified. PspC, Hic, and PavB are important surface-localized virulence factors, which were shown to interact with human ECM and plasma proteins. PspC and Hic bind to vitronectin and factor H, which inhibits the complement cascade of the human immune system. PavB interacts with fibronectin and plasminogen, and a pavB-deficient mutant of S. pneumoniae showed diminished capacity in colonization in a mouse model. Among the surface proteins of S. aureus, only Eap was identified as thrombospondin-1-binding adhesin. Beyond colonization, pneumococci and S. aureus can enter the blood circulation, interact with platelets, and cause their activation. The aggregation of platelets, especially initiated by S. aureus, plays an important role in the clinic, because most of the septic patients develop thrombocytopenia. Surface localized factors of
S. pneumoniae triggering platelet activation are unknown to date. In contrast, few proteins of S. aureus with potential to activate platelets, including Eap, were identified previously.
This study identified the surface proteins PavB, PspC, and Hic of S. pneumoniae as specific ligands of the human thrombospondin-1. Flow cytometric, surface plasmon resonance spectroscopic and immunological analyses revealed interactions between the pneumococcal proteins and soluble as well as immobilized thrombospondin-1. The use of specific pneumococcal deletion mutants verified the importance of the three virulence factors as binding partners of soluble thrombospondin-1. The results suggest that pneumococci are capable of acquiring soluble thrombospondin-1 from blood as well as utilizing immobilized glycoprotein of the ECM as substrate for adhesion. Furthermore, the thrombospondin-1-binding domain within the pneumococcal proteins was analyzed by use of recombinant fragments of PavB, PspC, and Hic. The binding capacity of thrombospondin-1 increased proportionally with the amount of repetitive sequences in PavB and PspC, and the length of the α-helical region within the Hic molecule. The binding behavior of thrombospondin-1 towards PavB and PspC is comparable with that of the ECM proteins vitronectin and fibronectin, but is unique towards Hic.
The localization of the binding domain of the adhesins within the thrompospondin-1 molecule occurred via use of glycosaminoglycans as competitive inhibitors for the interaction. The results suggest that the pneumococcal proteins Hic and PspC target the identical binding region within thrombospondin-1, which differs from the binding domain for PavB. However, all three virulence factors seem to bind in the N-terminal part of thrombospondin-1.
Two-dimensional gel electrophoresis, thrombospondin-1 overlay assay and subsequent mass spectrometric analysis identified AtlA of S. aureus as a surface localized interaction partner of human thrombospondin-1. Moreover, a vitronectin binding activity for AtlA was determined. Immunological and surface plasmon resonance binding studies with recombinant AtlA fragments revealed that interactions with both matrix proteins is mediated via the C-terminal located repeats R1R2 of the AtlA amidase domain. Binding of thrombospondin-1 and vitronectin occurred not simultaneously, due to a competitive inhibition.
The second part of the study focused on the activation of human platelets by recombinant pneumococcal and staphylococcal proteins. In total, 28 proteins of S. pneumoniae and 52 proteins of S. aureus were incubated with human platelets. The activation of the cells was detected by flow cytometry using the activation markers P-selectin and the dimerization of the integrin αIIbβIII. The proteins CbpL, PsaA, PavA, and SP_0899 of S. pneumoniae induced platelet activation, however, the detailed mechanism has to be deciphered in further studies. Furthermore, the secreted proteins CHIPS, FLIPr, and AtlA of S. aureus were discovered as inductors for the activation of platelets. In addition, the domains of AtlA and Eap, crucial for platelet activation, were narrowed down. Interestingly, CHIPS, FLIPr, and Eap were described as inhibitors of neutrophil recruitment. Platelets are recently recognized as immune cells, due to the expression of immune receptors. The data obtained in this study highlight a comprehensive spectrum of effects of the S. aureus proteins towards different type of immune cells. Besides the activation of platelets in suspension buffer and plasma, the aggregation of platelets in whole blood was triggered by the proteins CHIPS, AtlA, and Eap. These results suggest a contribution of the proteins during the S. aureus-induced infectious endocarditis. Secretion of the platelet activating virulence factors, which were identified within this study, might represent a pathogenic strategy during S. aureus infection in which a direct contact between S. aureus and platelets is not required or even avoided.
In conclusion, PavB, PspC, and Hic of S. pneumoniae and AtlA of S. aureus were identified as interaction partners of human thrombospondin-1. Furthermore, CHIPS, FLIPr, AtlA, and Eap were characterized as platelet activators. This study provides candidates for the development of protein-based vaccines, to prevent bacterial colonization and to neutralize secreted pathogenic factors.
Streptococcus pneumoniae is a commensal of the human upper respiratory tract and
the etiological agent of several life-threatening diseases. This pathogen is the model bacterium
for natural competence. Furthermore, the pneumococci played an important role in the
identification of DNA as the main molecule involved in bacterial transformation. As a result,
studies on the pneumococcal genome provided an initial overview of the genetic potential of
this pathogen. The pneumococcus is a highly versatile bacterium possessing a high rate of
uptake and recombination of exogenous DNA from neighboring bacteria. As such, a significant
diversity in the genome content among the different pneumococcal strains has been reported.
The capsular polysaccharide, an important pneumococcal virulence factor, is the best example
on the pneumococcal diversity. There are over 98 serotypes characterized to date presenting
differences in their capsule (cps) locus. Additional to the cps locus, the pneumococcus also
presents 13 genomic islets annotated as regions of diversity (RD) encoded in the auxiliary
genome. Remarkably, 8 of the pneumococcal RD studied so far have been associated with
virulence. Furthermore, the ongoing sequencing of over 4000 pneumococcal genomes have
shed light on the conservation level of well-known pneumococcal virulence factors.
Interestingly, important pneumococcal virulence determinants show variations in the gene and
protein sequence among the different strains. Prototypes are for example the pneumococcal
surface protein C (PspC) and pneumococcal adherence and virulence factor B (PavB).
Conversely, gene regulation in S. pneumoniae is carried out by highly conserved and genome-
wide distributed transcriptional factors. Overall, the pneumococci interplays with its
environment with 4 major regulatory systems: quorum sensing (QS), stand-alone
transcriptional regulators, small RNAs (sRNAs) and two-component regulatory systems (TCS).
Some of these systems are multifaceted and share more than one feature. Furthermore, there
is crosstalk among the different systems, requiring the activation of a signaling cascade to
function properly.
A comprehensive analysis of the distribution and conservation of pneumococcal
virulence factors and TCS was obtained in this study. The results are summarized as a
simplified variome in which 25 pneumococcal strains with a complete sequenced genome were
analyzed. Interestingly, the genes encoding the glycolytic protein enolase and the toxin
pneumolysin were the most conserved virulence determinants. Additionally, the high level of
conservation was confirmed for the pneumococcal TCS regulators, especially for WalKR,
CiaRH and TCS08.
The main focus of this study was on the regulatory functions of pneumococcal TCS.
With this in mind, an extensive and detailed systematic review of the 13 pneumococcal TCS
and its orphan RR was undertaken. For this purpose, every pneumococcal TCS was analyzed
for its reported functional and structural information along with its contribution to the main
pathophysiology of the pneumococci. In brief, S. pneumoniae can utilize its TCS for the
regulation of important cellular processes and the sensing of detectable signals in the
environment. Additionally, the role of TCS in pneumococcal processes and signal sensing can
be divided further. In the first place, pneumococcal TCS regulate competence and fratricide,
the production of bacteriocins and host-pathogen interaction processes, while the detectable
signals include cell-wall perturbations, environmental stress, and nutrients. As a conclusion
from this section, it is possible to analyze the pneumococcal TCS in a comprehensive manner.
There is a complex network among the different pneumococcal regulators and the TCS play
an important role. Moreover, these systems are highly conserved and essential for the proper
functioning of the pneumococcus as a pathogen.
Following up on pneumococcal TCS, this study focused especially on the TCS08.
Interestingly, the pneumococcal TCS08 has been previously associated with the regulation of the cellobiose metabolism. Furthermore, this system has also been reported to regulate the
expression of genes encoded in the RD4 (Pilus-1). Remarkably, the pneumococcal TCS08
was shown to be highly homologous to the SaeRS system of Staphylococcus aureus. Initially,
mutant strains lacking a single (Δrr08 or Δhk08) or both components (Δtcs08) of the TCS08
were generated in pneumococcal D39 and TIGR4 strains. Transcriptomics and functional
assays showed a downregulation of the PI-1 in the absence of the complete tcs08, while PavB
presented an upregulation in the Δhk08 knockout. Moreover, an important number of genes
coding for intermediary metabolism proteins were also found to be differentially expressed by
microarray analysis. As such, the TIGR4Δhk08 strain presented a downregulation for the
cellobiose operon (cel). In contrast, an upregulation was reported for the fatty acid biosynthesis
(fab) and arginine catabolism (arc) operons. Conversely, a decrease in gene expression was
seen in the TIGR4Δrr08 strain for the arc operon. Finally, in vivo murine pneumonia and sepsis
models highlighted an involvement of TCS08 in pneumococcal virulence. Remarkably, the
different TCS08 mutants presented a strain dependent effect on their virulence severity. The
TIGR4Δrr08, and all TCS08 mutants in D39 showed a decrease in virulence in the pneumonia
model, with no changes in sepsis. Conversely, the absence of HK08 in TIGR4 presented a
highly virulent phenotype in both pneumonia and sepsis models. To sum up, the pneumococcal
TCS08 influenced the expression of genes involved in fitness and colonization. Specifically,
those coding for the adhesins PavB and PI-1 and fitness proteins from the cel, arc and fab
operons. Remarkably, the highest changes in expression were observed in the strains lacking
the HK08. Additionally, TCS08 has a strain dependent impact on pneumococcal virulence as
showed by murine pneumonia and sepsis models when comparing the effects in D39 and
TIGR4.
Streptococcus pneumoniae is one of the leading human pathogen causing morbidity and mortality worldwide. The pneumococcus can cause a variety of different diseases ranging from mild illnesses like otitis media and sinusitis to life-threatening diseases such as pneumonia, meningitis and sepsis. Mostly affected are infants, elderly and immune-suppressed patients. Although, there are vaccines against pneumococci available, still hundreds of thousands of people got infected each year. These vaccines are targeting the pneumococcal polysaccharide capsule. Because of the high number of different serotypes, it is not possible to generate a vaccine against all present serotypes. In the last years a shift to non-vaccine serotypes was noticed. This strengthens the need for the development of vaccines which do not target polysaccharides. Thus, proteins came into focus as potential new vaccine candidates or targets for drug treatment, because several proteins are highly conserved among different strains or even genera. Proteome analyses can give insights into the protein composition in a certain state of a bacterium. So, targets can be identified, which are especially expressed under infection-relevant conditions. Iron limitation is one of these conditions and the knowledge on iron acquisition in pneumococci is still limited. Iron is an essential trace element and as redox-active catalyst or as cofactor involved in various key metabolic pathway in nearly all living organisms and thus also in bacteria. For instance, iron is necessary during biosynthesis of amino acids and in electron transport as well as in DNA replication. Within the human host iron is extremely limited due to its high insolubility under physiological conditions, which is part of the nutritional immunity of its human host. Hence, bacteria had to evolve mechanism to overcome iron starvation. In this thesis the adaptation process triggered by iron limitation in the S. pneumoniae serotype 2 strain D39 was investigated in a global mass spectrometry-based proteome analysis.
In preceding growth experiments the pneumococcal growth was adapted to the needs of proteomic workflows. In order to investigate the pneumococcal response to iron limitation, the organic iron-chelating agent 2,2’-bipyridine (BIP) was applied. For the quantification of changes in protein abundances comparing stress to control conditions the very reliable and robust metabolic labeling technique Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC) was used. This method requires the bacterial cultivation in a chemically defined medium, for which reason modified RPMI 1640 medium was chosen. A pooled protein extract with heavy labeled amino acids was applied as an internal standard, which included proteins expressed under control and stress condition, to control, BIP and BIP-iron-complex (BIP control experiment) samples. Samples were analyzed by liquid chromatography coupled directly to a tandem mass spectrometer. It is described that under iron-restricted conditions proteins associated to pathogenesis are higher abundant in pathogenic bacteria like Staphylococcus aureus. Hence, similar observations were expected also for the proteomic adaptation of S. pneumoniae, but the first results showed a reduction in protein abundance of virulence factors. In order to explain these results inductively-coupled-plasma mass spectrometry was executed to determine the iron concentration of chemically defined medium (CDM) used in this experiment. The analysis revealed a relatively low iron concentration of approximately 190 µg l-1. Therefore, the iron concentration of the complex medium THY, in which pneumococci are usually grown, was investigated. THY contains four-fold (740 µg l-1) more iron than the CDM. Subsequently, an additional iron limitation approach was carried out in THY. As SILAC is not applicable in complex media like THY, MaxLFQ was applied as quantification method in this case. Because two different media were used, an additional comparative proteome analysis with regard to the two investigated media was executed.
Comparing the protein composition in both cultivation media it became clear that pneumococci exhibit a totally different proteome depending on the medium. Major differences were found in metabolisms of amino acids, vitamins and cofactors as well as in pathogenesis-associated proteins. These differences have to be taken into account during the analyses of both iron limitation approaches. Overall, more proteins were identified and quantified in CDM samples. The pneumococcal adaptation to iron limitation in both media was different; especially, the alterations in protein abundances of virulence factors. In contrast to the iron limitation in CDM, proteins involved in pathogenesis were higher abundant under iron limitation in THY, which was the expected result. Because of proteomic changes of cell division and lipid metabolism involved proteins in iron-limited pneumococci in CDM, electron microscopic pictures were taken in order to proof cell morphology. The pictures showed an impaired cell division in iron-limited CDM, but not in THY medium. However, both datasets have similarities as well. Thus, the iron uptake protein PiuA is strongly increased in iron-restricted conditions and the abundance of the iron storage protein Dpr is significantly decreased in both datasets. Notably, PiuA and Dpr seem to have important roles during the pneumococcal adaptation to iron-restricted environments.
One the basis of these results, it could be shown that the proteomic response of pneumococci to iron limitation is strongly dependent to the initial iron concentration of the environment. Hence, pneumococci will adapt differently to varying niches and thus potential vaccine candidates should be expressed independently of the localization within the human host.
Deciphering the influence of Streptococcus pneumoniae global regulators on fitness and virulence
(2019)
Streptococcus pneumoniae (S. pneumoniae; the pneumococcus) is a Gram-positive, aerotolerant, and opportunistic bacteria, which colonizes the upper respiratory tract of human. S. pneumoniae can further migrate to other sterile parts of the body, and causes local as well as fatal infections like, pneumonia, septicaemia and meningitis. Due to incomplete amino acid pathways, pneumococci are auxotrophic for eight different amino acids including glutamine and arginine. The pneumococcus has adapted to the various host environmental conditions and a number of systems are dedicated for the transport and utilization of nutrients such as monosaccharides, amino acids and oligopeptides.
In this study the amino acid metabolism was characterised by 15N-isotopologue profiling in two different pneumococcal strains, D39 and TIGR4. Efficient uptake of a labelled amino acids mixture of 15N-labelled amino acids showed that S. pneumoniae has a preference for the amino acids transport instead of a de novo biosynthesis. It is known that glutamine (Gln) serves as main nitrogen source for S. pneumoniae. The 15N-labelled Gln used in this study demonstrated an efficient 15N-enrichment of Glu, Ala, Pro and Thr. Minor enrichment was seen for the amino acids Asp, Ile, Leu, Phe, Tyr, and Val. Remarkably, labelled Gly and Ser could be determined in strain TIGR4, whereas for strain D39 these two labelled amino acids were not detected. This confirms earlier studies with 13C-labelled glucose, which showed the biosynthesis of Ser out of Gly. Strain TIGR4 was able to grow in chemically-defined medium depleted of Gly confirming that Gly can be synthesized out of serine by the action of the enzyme serine hydroxymethyltransferase (SHMT).
The transcriptional regulator GlnR controls the Gln and Glu metabolism in S. pneumoniae. Hence, the impact of the repressor GlnR on amino acids metabolism was also studied. An increased 15N-enrichment was determined for Ala and Glu in both used pneumococcal strains, while an increased level of Pro was only measured in the isogenic glnR-mutant of non-encapsulated D39.
Arginine can also serve as nitrogen source in strain TIGR4. The arginine deiminase system metabolizes Arg into ornithine, carbamoyl phosphate and CO2 by the generation of 1 ATP and 2 mol NH3. Because of the truncation of the arcA gene strain D39 lacks arginine deiminase activity and has thus no functional ADS system. When 15N-Arg was added for growth, only in strain TIGR4, thirteen (13) labelled amino acids were detected with the highest enrichment for Ala, Glu and Thr. Genes coding for the enzymes of the arginine metabolism and for arginine uptake are regulated by the activator ArgR2 in strain TIGR4. Inactivation of ArgR2 was not accompanied by an enrichment of labelled amino acids, when the argR2-mutant was grown with 15N-labelled Arg indicative of the important role of ArgR2.
The bicistronic operon arcDT encoding the arginine/ornithine transporter ArcD and a putative peptidase ArcT belong to the peptidase family M20. The in silico comparison of structures revealed a significant homology of ArcT to PepV of L. delbrueckii and to Sapep of S. aureus known as carboxypeptidase. ArcT was heterologously expressed in E. coli and purified under reducing conditions. An enzymatic reaction was established and several dipeptides like Ala-Arg, Arg-Ala, and Ala-Asp were used as substrates. In addition, the dependency on divalent cations was analysed. Cleavage of the dipeptide Ala-Arg was detected in the presence of Mn2+ as cofactor under reducing conditions. Reduced peptidase activity was observed when Zn2+ was added. No cleavage of the tripeptide Ala-Ala-Arg could be shown indicating that ArcT acts as dipeptidase with the preference to the Arg residue at the C-terminal end.
Bacterial meningitis caused by S. pneumoniae was studied in an in vivo proteomic analysis. In a mouse meningitis model S. pneumoniae was isolated from the cerebrospinal fluid (CSF) by a filter extraction step. The MS analysis identified AliB and ComDE only from CSF isolated pneumococci indicating that these proteins are expressed under infection conditions. Mice infected with D39 wild-type and isogenic aliB, comDE and aliB-comDE double knockout mutants showed significantly less number of pleocytosis in the CSF and lower bacterial load in the blood compared to the wild-type. The results indicate that AliB and ComDE play an important role during meningitis.
Phenotypic characterization was carried out to identify differences between the wild-type and the aliB-, comDE- and aliB-comDE double mutants. Oxidative stress conditions were induced by the application of hydrogen peroxide or paraquat during growth in a chemically-defined medium similar to the CSF. No alteration in growth and survival of these mutants compared to the wild-type was observed suggesting that oxygen radicals play not an important role during the progression of meningitis. In addition, no differences of AliB expression was detected in the ComDE deficient D39. No impact of aliB and comDE-mutation on the expression of different virulence factors like pneumolysin or proteins involved in capsular biosynthesis was detected.
In vitro proteome analysis was performed to compare the wild-type to the AliB, and ComDE deficient D39 in the early and mid logarithmic growth phase. More than 70 % of theoretically expressed proteins were identified. In the aliB-mutant 33 proteins were differentally expressed in the early growth phase and 50 proteins differed during mid log growth. For the comDE mutant 24 and 11 proteins differed in expression in these two growth phases. Interestingly, high level of AliA expression was identified in all samples. The aliB-mutant had a decreased abundance of the proteins resembling an oligopeptide ABC transporter (AmiA, AmiC, AmiD, AmiE). In addition, another ABC transporter for iron transport encoded by spd_1607 to spd_ 1610 was higher expressed in the aliB-mutant. In the ComDE deficient mutant lower abundance of the Ami transporter sytem was identified. An increased abundance of proteins involved in the pyrimidine metabolism (PyrF, PyrE, PyrDb, PyrB and PyrR) was recognized only in the early growth phase of the comDE-mutant. These analyses demonstrate the marginal changes in protein synthesis during growth of S. pneumoniae. These studies demonstrated the adaptation of the proteome of S. pneumoniae to different growth conditions and the impact of regulatory proteins on the availability of carbon and nitrogen sources.
Immunogenicity and protectivity of surface-localized lipoproteins of Streptococcus pneumoniae
(2019)
Steptococcus pneumoniae (pneumococcus) represents a common colonizer of the human upper respiratory tract (URT). However, under certain conditions, for example following viral infections, or in indiciduals with a weakened immune system, including young children, elderly and immunocompromised persons, it can cause a wide range of life-threatening diseases, such as pneumonia, meningitis or sepsis. Based on the polysaccharide capsule that surrounds the bacterium, pneumococci are classified into so far 98 different serotypes. Prevention of S. pneumoniae infections was achieved by the development of pneumococcal polysaccharide-based (PPSV) vaccines. However, these vaccines have important limitations, including high manufacturing costs and restricted serotype coverage facilitating replacement by non-vaccine serotypes. Aiming for the development of a serotype-independent vaccine, the potential of surface-exposed and highly conserved pneumococcal lipoproteins was evaluated for being targeted as a future protein-based vaccine. Therefore, selected lipoproteins were examined i) for their surface abundance and accessibility, ii) for their presence in clinically relevant S. pneumoniae strains, and iii) for their immunogenicity. Finally, based on these initial screenings, the most promising candidates were selected to analyze their protective efficacy in a moude model of colonization. DacB and PnrA were identified as highly abundant lipoproteins on the pneumococcal surface. They showed to be immunogenic both during natural infection using convalescent patient sera and when given to mice as a subunit vaccine formulation. Following intranasal immunization and challenge of mice with two heterologous S. pneumoniae strains, both proteins reduced the pneumococcal load in the nasopharynx. The protection correlated with increased production of IL-17A indicative for a Th17-mediated immunity, which is strongly suggested to play a critical role in preventing pneumococcal colonization and infection. Lipoproteins are triggering innate receptors on antigen-presenting cells, thereby linking innate with adaptive immune responses. Therefore, lipidated proteins were evaluated for their potential to be used as an adjuvant for vaccination. Lipidation clearly enhanced humoral immune responses to DacB and PnrA without the need of an additional adjuvant. However, an additional adjuvant was required to confer protection against pneumococcal colonization. In conclusion, Lipoproteins are interesting candidates for future protein-based vaccine strategies because they are highly conserved, abundant and immunogenic. PnrA and DacB were identified as potential candidates, since they induced protection against pneumococcal colonization, which in turn may lead to a decline in infections and transmission.
Summary
Streptococcus pneumoniae (the pneumococcus), a bacterium belonging to the normal flora in the human respiratory tract, continues to be an important pathogen due to its contribution to morbidity and mortality among children, the elderly, and immunocompromised persons. Global estimates of pneumococcal deaths among children declined by 51% between 2000 and 2015. This achievement was mainly due to the introduction of pneumococcal conjugate vaccines (PCVs) in countries with the highest pneumococcal burden. Since May 2012, children in Ghana have been receiving PCV vaccination as part of routine immunization. The continuous monitoring of the pneumococcus after PCV introduction is essential to understand the changing epidemiology of the pathogen in the population.
This study therefore, aims to determine the (1) prevalence, serotypes, and sequence types of pneumococcal isolates, (2) antibiotic susceptibility patterns and the genetic basis for the antibiotic resistance among these pneumococcal isolates, and (3) prevalence of selected virulence genes that have been identified as potential vaccine candidates. Nasopharyngeal swabs were obtained from vaccinated children under five years of age in Cape Coast, Ghana. Six years after PCV implementation, we provide data on the epidemiology of pneumococcal strains circulating among children in Cape Coast Ghana. Standard microbiological and molecular techniques were used to identify and characterize the pneumococcal strains.
Overall, pneumococcal carriage prevalence was 29.4% (151/513). All participating children were fully vaccinated. Of the 26 different serotypes identified, the top five PCV13 serotypes (VT) were 6B, 23F, 19F, 3, 6A and non-PCV13 vaccine serotypes (NVT) were 23B, 13, 11A, 15B, and 34. PCV13 coverage was 38.4%, however, more than half of the isolates were NVT with a coverage rate of 61.6%. The isolates were highly susceptible to levofloxacin, ceftriaxone, vancomycin, and erythromycin. However, marked resistance to cotrimoxazole and tetracycline was observed. The reduction in penicillin resistance (35.8%) as compared to pre-vaccination data (45% - 63%) suggests an attributable effect from PCV13 vaccination. However, penicillin resistance was also detected in some NVT serotypes. Overall, 28.5% of the isolates resistant to three or more different classes of antibiotics were classified as multidrug-resistant (MDR). To analyze the genetic basis for resistance to penicillin, erythromycin and tetracycline, pbp2b, ermB, mefA, and tetM genes were amplified.
Thirty-eight (70%) out of the 54 penicillin-resistant isolates contained the pbp2b resistance gene. Out of the 11 erythromycin-resistant isolates, 7 (63.6) and 4 (36.4%) were positive for the ermB and mefA genes, respectively. The tetM gene was detected in 85 (98.8%) of the 86 tetracycline resistance isolates.
To determine the extent to which potential protein-based vaccines could be protective in Ghanaian children, we sought to determine the prevalence of selected virulence genes among the isolates. The lytA, pavB, and cpsA genes were present in all the carrier isolates. However, psrP, pcpA, pilus islet (PI) PI-1, and PI-2 were present in 62.7%, 87.5%, 11.8%, and 6.5% of the strains, respectively. The psrP and pcpA virulence genes were evenly distributed among all the serotypes. However, the pilus islets were detected in only seven serotypes namely 19F, 6B, 9V, 6A, 13, 11A, and 23B. Five serotype 19F isolates possessed both PI-1 and PI-2. Furthermore, the pilus islets were associated with multidrug resistance.
The predominant NVT serotype 23B and isolates resistant to ≥ 4 antibiotics were analysed by multilocus sequence typing (MLST). Nine known sequence types (STs) and 10 novel STs were identified. Seven out of the 10 new STs belonged to serotype 23B, while the remaining 3 were VTs 6B and 19F. A capsular switch was identified among isolates of ST802, which comprised of both serotype 23F and 19F. The majority of serotype 23B strains belonged to ST172. The ST172 is associated with serotype 23F and a single locus variant (SLV) of internationally disseminated clone ST338 (Colombia23F-26). Consequently, ST172 was characterised with marked antibiotic resistance and with traits of capsular switching. One serotype 6B strain was identified as a SLV of ST273 (Greece6B-22) while two serotype 9V strains belonged to the internationally disseminated clone ST156 (Spain9V-3).
In conclusion, this study showed a marginal decline in overall pneumococcal carriage prevalence, persistence of VTs despite the increase in NVTs, and the occurrence of serotype replacement and capsular switching. In addition, sequence types related to internationally disseminated clones are circulating in Ghana. With the high pcpA and psrP coverage detected,including these genes in protein-based vaccines could provide adequate protection for Ghanaian Children.