The PPE Domain of PPE17 Is Responsible for Its Surface Localization and Can Be Used to Express Heterologous Proteins on the Mycobacterial Surface

PPE represent a peculiar family of mycobacterial proteins characterized by a 180 aminoacids conserved N-terminal domain. Several PPE genes are co-transcribed with a gene encoding for a protein belonging to another family of mycobacterial specific proteins named PE. Only one PE-PPE couple has been extensively characterized so far (PE25-PPE41) and it was shown that these two proteins form a heterodimer and that this interaction is essential for PPE41 stability and translocation through the mycobacterial cell wall. In this study we characterize the PE11-PPE17 couple. In contrast with what was found for PE25-PPE41, we show that PPE17 is not secreted but surface exposed. Moreover, we demonstrate that the presence of PE11 is not necessary for PPE17 stability or for its localization on the mycobacterial surface. Finally, we show that the PPE domain of PPE17 targets the mycobacterial cell wall and that this domain can be used as a fusion partner to expose heterologous proteins on the mycobacterial surface.     

Mycobacterial PE, PPE and ESX clusters: novel insights into the secretion of these most unusual protein families

The human pathogen Mycobacterium tuberculosis harbours a large number of genes that encode proteins whose N-termini contain the characteristic motifs Pro–Glu (PE) or Pro–Pro–Glu (PPE). A subgroup of the PE proteins contains polymorphic GC-rich sequences (PGRS), while a subgroup of the PPE proteins contains major polymorphic tandem repeats (MPTR). The function of most of these proteins remains unknown. However, in this issue of Molecular Microbiology , Abdallah and colleagues show that PE_PGRS proteins from the model organism Mycobacterium marinum are secreted by components of the ESX-5 system that belongs to the recently defined type VII secretion systems. These observations, which now need to be addressed and confirmed in M. tuberculosis , open new perspectives on the function of these highly abundant proteins.     

Prediction of Certain Well-Characterized Domains of Known Functions within the PE and PPE Proteins of Mycobacteria

The PE and PPE protein family are unique to mycobacteria. Though the complete genome sequences for over 500 M. tuberculosis strains and mycobacterial species are available, few PE and PPE proteins have been structurally and functionally characterized. We have therefore used bioinformatics tools to characterize the structure and function of these proteins. We selected representative members of the PE and PPE protein family by phylogeny analysis and using structure-based sequence annotation identified ten well-characterized protein domains of known function. Some of these domains were observed to be common to all mycobacterial species and some were species specific.     

Natural Variation in Odorant Recognition Among Odorant-Binding Proteins in Drosophila melanogaster

Chemical recognition is essential for survival and reproduction. Adaptive evolution has resulted in diverse chemoreceptor families, in which polymorphisms contribute to individual variation in chemosensation. To gain insights into the genetic determinants of individual variation in odorant recognition, we measured olfactory responses to two structurally similar odorants in a population of wild-derived inbred lines of Drosophila melanogaster. Odorant-binding proteins (OBPs) are the first components of the insect olfactory system to encounter odorants. Previously four single-nucleotide polymorphisms (SNPs) in the Obp99 group were associated with variation in olfactory responses to benzaldehyde. Here, we identify six different SNPs that are associated with variation in responses to a structurally similar odorant, acetophenone, in the same Obp genes. Five SNPs are in coding regions of Obp99b and Obp99d and one SNP is in the 3′-untranslated region of Obp99a (A610G). We found that the 610G allele is associated with higher response scores to acetophenone than the 610A allele, but with lower expression of Obp99a, suggesting that binding of acetophenone to Opb99a might limit rather than facilitate access to odorant receptors. Our results show that overlapping sets of OBPs contribute to odorant recognition for structurally similar odorants, but that different SNPs are associated with odorant-specific individual variation. Thus, dual olfactory recognition where OBPs regulate odorant access to receptors may enhance olfactory discrimination.ADAPTIVE evolution in diverse chemical environments has resulted in large multigene chemoreceptor families, including odorant-binding protein (Obp) genes, odorant receptor (Or) genes, and gustatory receptor (Gr) genes (Hekmat-Scafe et al. 2002; Robertson et al. 2003; Nozawa and Nei 2007; Nei et al. 2008; Su et al. 2009). Polymorphisms in these chemoreceptor genes contribute to individual variation in chemosensory behavior (Keller et al. 2007; Wang et al. 2007). At the same time, combinatorial recognition of odorants may contribute functional redundancy, which allows individual variation without compromising overall olfactory ability. This may be the reason why segregating null alleles of chemoreceptor genes can be maintained within a population (Takahashi and Takano-Shimizu 2005; Wang et al. 2007). Drosophila melanogaster presents a favorable model for investigating the genetic basis of individual variation in olfactory discrimination, because the genome can be manipulated readily. Furthermore, flies can be inbred, which enables repeated behavioral measurements on identical genotypes under controlled environmental conditions. In addition, both the olfactory and the gustatory systems of Drosophila have been well characterized (Su et al. 2009; Yarmolinsky et al. 2009). Convergent projections of olfactory neurons expressing distinct odorant receptors have been mapped to specific glomeruli in the antennal lobe (Gao et al. 2000; Vosshall et al. 2000), and detailed electrophysiological studies on transgenic flies have identified molecular response profiles of a large fraction of the odorant receptor repertoire (de Bruyne et al. 2001). Surprisingly, however, behavioral responses to odorants do not necessarily conform to predictions based on electrophysiological response profiles (Keller and Vosshall 2007).Whereas Drosophila odorant receptors have been studied extensively, less is known about the function of odorant-binding proteins (OBPs) in mediating odor recognition and olfactory discrimination. OBPs are secreted by support cells in olfactory sensilla into the aqueous perilymph that surrounds olfactory dendrites and are thought to facilitate solubilization and transport of hydrophobic odorants, thereby either promoting or limiting access of odorants to odorant receptors (Steinbrecht 1998). For example, the pheromone-binding protein of the silk moth, Bombyx mori, binds and releases bombykol in a pH-dependent manner at the membrane interface (Wojtasek and Leal 1999; Sakurai et al. 2004). In D. melanogaster, an OBP, Lush, is essential for activation of the Or67d receptor by the pheromone cis-vaccenyl acetate in trichoid sensilla of the Drosophila third antennal segment (Ha and Smith 2006; Kurtovic et al. 2007). Binding of the pheromone causes a conformational transition in Lush, which enables this OBP to activate the Or67d receptor (Laughlin et al. 2008). Lush also interacts with short chain alcohols (Kim et al. 1998), but recognition of alcohols by Lush does not involve a conformation change and, thus, proceeds via a different mechanism (Stower and Logan 2008).Polymorphisms in Obp genes can serve as a substrate for natural selection and contribute to speciation. A polymorphism in Obp57e is responsible for differences in host plant preference between D. sechellia and D. melanogaster. D. melanogaster flies lacking the Obp57e and Obp57d genes were no longer repelled by hexanoic and octanoic acid, toxins produced by Morinda citrifolia, the host plant for D. sechellia. Here, inactivation of an Obp gene has enabled D. sechellia to occupy a specialist evolutionary niche (Matsuo et al. 2007). Differences in expression levels between Ors and Obps between D. sechellia and D. simulans have also been reported and postulated to contribute to the evolution of host plant preferences (Kopp et al. 2008).Despite the demonstrated importance of OBPs in pheromone and host plant recognition, little is known about how naturally occurring allelic variation in Obp genes affects individual variation in olfactory behavior. Previously, we identified polymorphisms associated with natural variation in olfactory behavior in response to benzaldehyde in Obp99a, Obp99c, and Obp99d in a population of wild-derived inbred lines of D. melanogaster (Wang et al. 2007). These studies indicated that these OBPs are likely to recognize benzaldehyde in a combinatorial manner, similar to odorant recognition by mammalian odorant receptors (Malnic et al. 1999). This observation enables us to begin to explore OBP odorant response profiles using a population genetics approach that capitalizes on naturally occurring mutations that affect behavior. As a first step, we asked whether variation in responses to odorants that are chemically similar would be associated with the same or overlapping sets of OBPs and, if so, whether the same or different polymorphisms in these OBPs would contribute to individual variation for olfactory behavior in response to these odorants. We focused on genes of the Obp99 group, previously associated with phenotypic variation in response to benzaldehyde. We obtained complete sequences of these genes from 297 inbred lines from the same wild-derived inbred population of D. melanogaster and measured variation in olfactory behavior in response to acetophenone, which is structurally similar to benzaldehyde. These odorants occur in fruits from host plants on which flies from the Raleigh population feed (e.g., apples and peaches). We find that overlapping sets of OBPs contribute to recognition of these two odorants, but that different SNPs are associated with odorant-specific individual variation.     

Expression and Purification of Membrane Proteins in Different Hosts

International Journal of Peptide Research and Therapeutics - Membrane proteins play important functions, such as cellular communication and transferring materials in the cell. Many membrane...     

Ipr1/PPE68重组BCG诱导BALB/C小鼠免疫应答的探讨

目的构建Ipr1/PPE68重组卡介苗(Recombinant BCG,rBCG),探讨其诱导BALB/C小鼠免疫应答的效果。方法将Ipr1和PPE68基因及结核分枝杆菌(mycobacterium tuberculosis,MTB)复制子OriM分别插入pBudCE4.1的多克隆位点,构建共表达穿梭质粒pBIPO,将其电转入BCG,构建Ipr1/PPE68-rBCG并将rBCG免疫BALB/C小鼠,检测小鼠血清中IgG2a、IL-12、IFN-γ及IL-4的水平、特异性脾淋巴细胞增殖和CD4+和CD8+T细胞数量,同时观察脾、肺荷菌量及脾、肺组织病理学变化。结果酶切测序及菌落PCR鉴定Ipr1和PPE68以及OriM基因序列与理论值相符,Western-blotting结果显示Ipr1和PPE68蛋白成功表达。Ipr1/PPE68-rBCG免疫小鼠后,血清中的IgG2a和IL-12水平及脾淋巴细胞增殖情况明显高于对照组,但与BCG组相比没有显著意义;IFN-γ水平显著低于BCG组,与对照组相比无显著性差异;各组别IL-4的水平差异均不明显。脾、肺荷菌实验未见菌落生长,肺、脾组织未见病理学改变。结论成功构建Ipr1/PPE68-rBCG,该重组BCG能诱导BALB/C小鼠的细胞免疫应答。     

Microevolution of Helicobacter pylori during Prolonged Infection of Single Hosts and within Families

Our understanding of basic evolutionary processes in bacteria is still very limited. For example, multiple recent dating estimates are based on a universal inter-species molecular clock rate, but that rate was calibrated using estimates of geological dates that are no longer accepted. We therefore estimated the short-term rates of mutation and recombination in Helicobacter pylori by sequencing an average of 39,300 bp in 78 gene fragments from 97 isolates. These isolates included 34 pairs of sequential samples, which were sampled at intervals of 0.25 to 10.2 years. They also included single isolates from 29 individuals (average age: 45 years) from 10 families. The accumulation of sequence diversity increased with time of separation in a clock-like manner in the sequential isolates. We used Approximate Bayesian Computation to estimate the rates of mutation, recombination, mean length of recombination tracts, and average diversity in those tracts. The estimates indicate that the short-term mutation rate is 1.4×10⁻⁶ (serial isolates) to 4.5×10⁻⁶ (family isolates) per nucleotide per year and that three times as many substitutions are introduced by recombination as by mutation. The long-term mutation rate over millennia is 5–17-fold lower, partly due to the removal of non-synonymous mutations due to purifying selection. Comparisons with the recent literature show that short-term mutation rates vary dramatically in different bacterial species and can span a range of several orders of magnitude.     

Amino Acid Biases in the N- and C-termini of Proteins are Evolutionarily Conserved and are Conserved Between Functionally Related Proteins

Analysis of the Arabidopsis thaliana, Saccharomyces cerevisiae, Mus musculus, Escherichia coli, Bacillus subtilis, Thermoplasma acidophilum, and Sulfolobus tokodaii genomes demonstrate that many amino acid biases occur at the N- and C-termini of proteins, a statistically significant number of these biases are evolutionarily conserved, and these biases occur in amino acids beyond the first and last five amino acids. Analyses designed to shed light on the mechanism causing amino acid biases suggest that in at least some cases the bias is caused by forces acting at the nucleic acid level. It is also demonstrated that in E. coli functionally related proteins show similar biases at the N- and C-termini suggesting that the mechanisms causing the biases are complex and in some cases are related to function.     

TLR4激活剂对约氏疟原虫感染早期免疫应答的影响

通过外源性给予LPS,探讨TLR4在疟疾感染早期免疫应答的作用特点及其免疫调节作用。通过Plasmodium yoelii 17XL感染的BALB/c小鼠建立鼠疟模型并在感染前给予LPS,于感染第0、3和5天制备脾细胞悬液,通过流式细胞术检测脾细胞悬液中TLR4+DCs和Tregs百分含量;ELISA方法检测脾细胞培养上清中IFN-γ和IL-10水平。结果显示,LPS处理能够显著延长宿主生存期,降低原虫血症水平,同时显著提升脾上清中的IFN-γ水平,降低抑炎性细胞因子IL-10水平。在感染早期,LPS处理可诱导Th1型免疫应答的有效建立,明显遏制P.y 17XL红内期疟原虫的感染进程。     

Frequent homologous recombination events in Mycobacterium tuberculosis PE/PPE multigene families: potential role in antigenic variability

The PE and PPE (PE/PPE) multigene families of Mycobacterium tuberculosis are particularly GC-rich and share extensive homologous repetitive sequences. We hypothesized that they may undergo homologous recombination events, a mechanism rarely described in the natural evolution of mycobacteria. To test our hypothesis, we developed a specific oligonucleotide-based microarray targeting nearly all of the PE/PPE genes, aimed at detecting signals for homologous recombination. Such a microarray has never before been reported due to the multiplicity and highly repetitive and homologous nature of these sequences. Application of the microarray to a collection of M. tuberculosis clinical isolates (n = 33) representing prevalent spoligotype strain families in Tunisia allowed successful detection of six deleted genomic regions involving a total of two PE and seven PPE genes. Some of these deleted genes are known to be immunodominant or involved in virulence. The four precisely determined deletions were flanked by 400- to 500-bp stretches of nearly identical sequences lying mainly at the conserved N-terminal region of the PE/PPE genes. These highly homologous sequences thus serve as substrates to mediate both intergenic and intragenic homologous recombination events, indicating an important function in generating strain variation. Importantly, all recombination events yielded a new in-frame fusion chimeric gene. Hence, homologous recombination within and between PE/PPE genes likely increased their antigenic variability, which may have profound implications in pathogenicity and/or host adaptation. The finding of high prevalence (approximately 45% and approximately 58%) for at least two of the genomic deletions suggests that they likely confer advantageous biological attributes.     

The Differentiation of Infection Structures as a Result of Recognition Events between some Biotrophic Parasites and their Hosts

Most uredospores of rust fungi develop infection structures in a typical pattern so that they can infect the host plant. The function of these infection structures is divided into the following three phases:

• 1 In the recognition phase, the germ tube recognizes the cuticle and the stoma. This process may occur independently from the host plant since copies of the cuticle induce similar reactions of the fungus. During fungal growth on the epidermis, unspecific stress responses of the plant are triggered.
• 2 In the signal phase, the fungal substomatal vesicle and infection hypha(e) contact the host cells within the leaf parenchyma. A signal from the host induces further development of the fungus. Haustorium mother cell differentiation is effected and haustorium formation is initiated. At the same time, the fungus suppresses the synthesis of stress metabolites by the plant.
• 3 In the parasitic phase, the fungus penetrates the host cell and complex interactions between host and parasite begin. A highly specialized interface around the haustorium develops presumably in order to allow a more efficient nutrient transfer from host to parasite. Eventual defence reactions of the plant, generally on the race-cultivar level, fail to be evoked or are suppressed in compatible combinations.

     

Differential Immune Responses and Protective Effects in Avirulent Mycobacterial Strains Vaccinated BALB/c Mice

Screening live mycobacterial vaccine candidates is the important strategy to develop new vaccines against adult tuberculosis (TB). In this study, the immunogenicity and protective efficacy of several avirulent mycobacterial strains including Mycobacterium smegmatis, M. vaccae, M. terrae, M. phlei, M. trivial, and M. tuberculosis H37Ra were compared with M. bovis BCG in BALB/c mice. Our results demonstrated that differential immune responses were induced in different mycobacterial species vaccinated mice. As BCG-vaccinated mice did, M. terrae immunization resulted in Th1-type responses in the lung, as well as splenocytes secreting IFN-γ against a highly conserved mycobacterial antigen Ag85A. M. smegmatis also induced the same splenocytes secreting IFN-γ as BCG and M. terrae did. In addition, M. terrae and M. smegmatis-immunized mice predominantly increased expression of IL-10 and TGF-β in the lung. Most importantly, mice vaccinated with H37Ra and M. vaccae could provide the same protection in the lung against virulent M. tuberculosis challenge as BCG. The result may have important implications in developing adult TB vaccine.     

TLR9激动剂对约氏疟原虫体液免疫记忆的影响

为探讨TLR9激动剂对疟疾体液免疫记忆的影响,用非致死型约氏疟原虫感染BALB/c小鼠,感染前2 d注射TLR9激动剂CpGl826,90 d后进行二次感染。薄血膜染色法观察红细胞感染率,流式细胞术检测脾细胞悬液中记忆性和活化性B细胞百分比,双夹心ELISA法检测特异性抗体水平。结果显示,二次感染前,TLR9激动剂处理鼠记忆性和活化性B细胞以及抗体水平略高于对照组;二次感染后,其再感染发生率和虫血症水平均略低于对照组;活化性B细胞和抗体以及记忆性B细胞也分别于二次感染后1 d和3 d出现了有意义的升高,且升高幅度均略高于对照组。表明TLR9激动剂对约氏疟原虫感染后体液免疫记忆的建立和维持有一定促进作用。     

HIV-1 Conserved Elements p24CE DNA Vaccine Induces Humoral Immune Responses with Broad Epitope Recognition in Macaques

To target immune responses towards invariable regions of the virus, we engineered DNA-based immunogens encoding conserved elements (CE) of HIV-1 p24^gag. This conserved element vaccine is designed to avoid decoy epitopes by focusing responses to critical viral elements. We previously reported that vaccination of macaques with p24CE DNA induced robust cellular immune responses to CE that were not elicited upon wild type p55^gag DNA vaccination. p24CE DNA priming followed by p55^gag DNA boost provided a novel strategy to increase the magnitude and breadth of the cellular immune responses to HIV-1 Gag, including the induction of strong, multifunctional T-cell responses targeting epitopes within CE. Here, we examined the humoral responses induced upon p24CE DNA or p55^gag DNA vaccination in macaques and found that although both vaccines induced robust p24^gag binding antibody responses, the responses induced by p24CE DNA showed a unique broad range of linear epitope recognition. In contrast, antibodies elicited by p55^gag DNA vaccine failed to recognize p24CE protein and did not recognize linear epitopes spanning the CE. Interestingly, boosting of p24CE DNA primed animals with p55^gag DNA resulted in augmentation of antibodies able to recognize p24^gag as well as the p24CE proteins, thereby inducing broadest immunity. Our results indicate that an effectively directed vaccine strategy that includes priming with the conserved element vaccine followed by boost with the complete immunogen induces broad cellular and humoral immunity focused on the conserved regions of the virus. This novel and effective strategy to broaden responses could be applied against other antigens of highly diverse pathogens.     

Polydnaviral Ankyrin Proteins Aid Parasitic Wasp Survival by Coordinate and Selective Inhibition of Hematopoietic and Immune NF-kappa B Signaling in Insect Hosts

Polydnaviruses are mutualists of their parasitoid wasps and express genes in immune cells of their Lepidopteran hosts. Polydnaviral genomes carry multiple copies of viral ankyrins or vankyrins. Vankyrin proteins are homologous to IκB proteins, but lack sequences for regulated degradation. We tested if Ichnoviral Vankyrins differentially impede Toll-NF-κB-dependent hematopoietic and immune signaling in a heterologous in vivo Drosophila, system. We first show that hematopoiesis and the cellular encapsulation response against parasitoid wasps are tightly-linked via NF-κB signaling. The niche, which neighbors the larval hematopoietic progenitors, responds to parasite infection. Drosophila NF-κB proteins are expressed in the niche, and non cell-autonomously influence fate choice in basal and parasite-activated hematopoiesis. These effects are blocked by the Vankyrin I²-vank-3, but not by P-vank-1, as is the expression of a NF-κB target transgene. I²-vank-3 and P-vank-1 differentially obstruct cellular and humoral inflammation. Additionally, their maternal expression weakens ventral embryonic patterning. We propose that selective perturbation of NF-κB-IκB interactions in natural hosts of parasitic wasps negatively impacts the outcome of hematopoietic and immune signaling and this immune deficit contributes to parasite survival and species success in nature.     

Conserved Pro-Glu (PE) and Pro-Pro-Glu (PPE) protein domains target LipY lipases of pathogenic mycobacteria to the cell surface via the ESX-5 pathway

The type VII secretion system ESX-5 is a major pathway for export of PE and PPE proteins in pathogenic mycobacteria. These mycobacteria-specific protein families are characterized by conserved N-terminal domains of 100 and 180 amino acids, which contain the proline-glutamic acid (PE) and proline-proline-glutamic acid (PPE) motifs after which they are named. Here we investigated secretion of the triacylglycerol lipase LipY, which in fast-growing mycobacteria contains a signal sequence, but in slow-growing species appears to have replaced the signal peptide with a PE or PPE domain. Selected LipY homologues were expressed in wild-type Mycobacterium marinum and its corresponding ESX-5 mutant, and localization of the proteins was investigated by immunoblotting and electron microscopy. Our study shows that Mycobacterium tuberculosis PE-LipY (LipY(tub)) and M. marinum PPE-LipY (LipY(mar)) are both secreted to the bacterial surface in an ESX-5-dependent fashion. After transport, the PE/PPE domains are removed by proteolytic cleavage. In contrast, Mycobacterium gilvum LipY, which has a signal sequence, is not transported to the cell surface. Furthermore, we show that LipY(tub) and LipY(mar) require their respective PE and PPE domains for ESX-5-dependent secretion. The role of the PE domain in ESX-5 secretion was confirmed in a whole cell lipase assay, in which wild-type bacteria expressing full-length LipY(tub), but not LipY(tub) lacking its PE domain, were shown to hydrolyze extracellular lipids. In conclusion, both PE and PPE domains contain a signal required for secretion of LipY by the ESX-5 system, and these domains are proteolytically removed upon translocation.