iTRAQ quantitative analysis of Francisella tularensis ssp. holarctica live vaccine strain and Francisella tularensis ssp. tularensis SCHU S4 response to different temperatures and stationary phases of growth

Proteomics has been shown to significantly contribute to the investigation of the pathogenicity of the extremely infectious bacteria Francisella tularensis. In this study, the authors employed iTRAQ quantitative proteomic analysis in order to monitor alterations in proteomes of F. tularensis ssp. holarctica live vaccine strain and F. tularensis ssp. tularensis SCHU S4 associated with the cultivation at different temperatures or in the stationary phase. Correlated production of the identified proteins studied by the exploratory statistical analysis revealed novel candidates for virulence factors that were regulated in a similar manner to the genes encoded in the Francisella Pathogenicity Island. Moreover, the assessment of the adaptation of live vaccine strain and SCHU S4 strain to the examined stimuli uncovered differences in their physiological responses to the stationary phase of growth.     

Proteomics analysis of the Francisella tularensis LVS response to iron restriction: induction of the F. tularensis pathogenicity island proteins IglABC

Francisella tularensis is a highly virulent, facultative intracellular pathogen that causes tularemia in humans and animals. Although it is one of the most infectious bacterial pathogens, little is known about its virulence mechanisms. In this study, the response of F. tularensis live vaccine strain to iron depletion, which simulates the environment within the host, was investigated. In order to detect alterations in protein synthesis, metabolic labeling, followed by 2D-PAGE analysis was used. Globally, 141 protein spots were detected whose levels were significantly altered in the iron-restricted medium. About 65% of the spots were successfully identified using mass spectrometric approaches. Importantly, among the proteins produced at an increased level during iron-limited growth, three proteins were found encoded by the igl operon, located in the F. tularensis pathogenicity island I (FPI). Of these, the IglC and IglA proteins were previously reported to be necessary for full virulence of F. tularensis. These results, obtained at the proteome level, support and confirm recently published data showing that the igl operon genes are transcribed in response to iron limitation.     

Proteomic analysis of anti-Francisella tularensis LVS antibody response in murine model of tularemia

Francisella tularensis live vaccine strain infection of mice has been established as an experimental model of tularemia that is suitable for studies of immune mechanisms against the intracellular pathogen. In this study, the model was used to explore immunogenic repertoire of F. tularensis with the aim of identifying new molecules able to activate the host immune system, potential bacterial markers with vaccine, and diagnostic applications. Immunoproteomic approach based on the combination of two-dimensional gel electrophoresis, immunoblotting, and mass spectrometry was applied. Globally, 36 different proteins were identified, which strongly reacted with sera from experimentally infected mice, including several putative virulence markers of intracellular pathogens as nucleoside diphosphate kinase, isocitrate dehydrogenase, RNA-binding protein Hfq, and molecular chaperone ClpB. Of them, 27 proteins are described for the first time as immunorelevant Francisella proteins. When comparing murine immunoproteome of F. tularensis with our previous data from human patients, 25 of the total of 50 identified murine sera immunoreactive spots were recognized by human sera collected from patients suffering from tularemia, as well. Immune sera from two Lps gene congenic strains of mice, C3H/HeN (Lpsn) and C3H/HeJ (Lpsd), represented murine immunoproteome in this study. The spectrum of immunoreactive spots detected by two-dimensional immunoblotting varied throughout the course of infection depending on murine strain. Nevertheless, the antibody patterns of the two strains showed significant homogeneity in being directed against almost identical subset of antigens.     

土拉弗朗西斯菌与巨噬细胞膜的早期相互作用

评估土拉弗朗西斯菌LVS在感染鼠巨噬细胞早期与细胞膜的相互作用。用表达GFP的土拉弗朗西斯菌LVS感染鼠巨噬细胞1774A1。结合单抗的小窝蛋白-1或转铁蛋白受体-1分别用键合了Alexa594的羊抗鼠二抗显色。土拉弗朗西斯菌疫苗株LVS可以诱导宿主细胞膜伸出伪足,将细菌吸收进入巨噬细胞。分布在细胞膜上的小窝蛋白-1和转铁蛋白受体-1参与巨噬细胞对弗朗西斯菌的摄入。这些发现说明,弗朗西斯菌进入巨噬细胞需要细胞膜微结构域和小窝蛋白;在感染早期转铁蛋白受体-1参与了细菌的摄入,这可能与弗朗西斯菌获取铁以利在胞内生存有关。     

In vivo proteomic analysis of the intracellular bacterial pathogen, Francisella tularensis, isolated from mouse spleen

Understanding the pathogenesis of infectious diseases requires comprehensive knowledge of the proteins expressed by the pathogen during in vivo growth in the host. Proteomics provides the tools for such analyses but the protocols required to purify sufficient quantities of the pathogen from the host organism are currently lacking. Here, we present a rapid immunomagnetic protocol for the separation of Francisella tularensis, a highly virulent bacterium and potential biowarfare agent, from the spleens of infected mice. In less than one hour, bacteria can be isolated in quantities sufficient to carry out meaningful proteomic comparisons with in vitro grown bacteria. Furthermore, the isolates are virtually free from contaminating host proteins. Two-dimensional gel analysis revealed a host induced proteome in which 78 proteins were differentially expressed in comparison to in vitro grown controls. The results obtained clearly demonstrate the complexity of the adaptive response of F. tularensis to the host environment, and the difficulty of mimicking such behavior in vitro.     

Suppression of Francisella tularensis growth in the rat by co-infection with F. novicida

We have previously shown that when cultured in vitro, peritoneal rat macrophages infected with Francisella novicida spontaneously release nitric oxide in sufficient quantities to inhibit bacterial growth. However, it is not known whether F. novicida can have a similar antimicrobial effect in vivo. Here we show that a co-infection of F. novicida with Francisella tularensis can suppress the number of F. tularensis cells in rat spleens by as much as 100-fold.     

肌动蛋白结合脂筏促进巨噬细胞摄入土拉弗朗西斯菌

观察土拉弗朗西斯菌LVS借助脂筏以肌动蛋白为动力被鼠巨噬细胞摄入的过程。细胞胆固醇用菲律平Ⅲ染色,结合神经节苷酯GM1的霍乱毒素B亚基用键合了Alexa 594的兔抗霍乱毒素B亚基二抗显色;肌动蛋白用键合了Alexa 594的鬼笔环肽显色。免疫荧光显微镜观察到脂筏成分中的胆固醇、神经节苷酯GM1均可与细菌共定位;胆固醇可与肌动蛋白共定位。随着感染时间的延长,细菌可离开脂筏。离开脂筏的细菌囊泡可与肌动蛋白共定位。这些发现提示肌动蛋白与脂筏结合,在弗朗西斯菌早期进入巨噬细胞期间发挥重要作用。     

Redox-regulatory mechanisms induced by oxidative stress in Brassica juncea roots monitored by 2-DE proteomics

ROS, including hydrogen peroxide (H(2)O(2)), can serve as cellular signaling molecules following oxidative stress. Analysis of the redox state of proteins in Brassica juncea roots by 2-DE proteomics following treatment with either exogenous H(2)O(2) or buthionine sulfoximine, which depletes glutathione to cause accumulation of endogenous H(2)O(2), led to the identification of different sets of proteins. These data suggest that exogenous and endogenous oxidative stresses trigger specialized responses.     

Advances in shotgun proteomics and the analysis of membrane proteomes

The emergence of shotgun proteomics has facilitated the numerous biological discoveries made by proteomic studies. However, comprehensive proteomic analysis remains challenging and shotgun proteomics is a continually changing field. This review details the recent developments in shotgun proteomics and describes emerging technologies that will influence shotgun proteomics going forward. In addition, proteomic studies of integral membrane proteins remain challenging due to the hydrophobic nature in integral membrane proteins and their general low abundance levels. However, there have been many strategies developed for enriching, isolating and separating membrane proteins for proteomic analysis that have moved this field forward. In summary, while shotgun proteomics is a widely used and mature technology, the continued pace of improvements in mass spectrometry and proteomic technology and methods indicate that future studies will have an even greater impact on biological discovery.     

The immune response against Francisella tularensis live vaccine strain in Lpsn and Lpsd mice

Abstract The impact of Lps gene on the course of immune response against subcutaneous infection of mice with Francisella tularensis live vaccine strain was studied. Production and specificity of antibodies, cytotoxic responses of macrophages and NK-cells, spontaneous production ex vivo of cytokines IL-1α, IL-2, IL-4, IL-6, IL-10, IFN-γ, and TNF-α in spleen cell cultures in C3H/HeJ ( Lps ^d) mice in comparison with C3H/HeN ( Lps ^r) mice were tested. The value of LD₅₀ was significantly different in the two strains of mice (8.0 × 10³ cfu for C3H/HeJ versus 4.61 × 10⁵ cfu for C3H/HeN mice after subcutaneous inoculation). The production of NO₂ is also impaired in C3H/HeJ mice in the early intervals after infection. Thus, the defective Lps gene of C3H/HeJ mice influences both the level of innate resistance of mice to F. tularensis live vaccine strain infection and the process of induction and regulation of immune response against this intracellular bacterial pathogen.     

Hydroponic isotope labelling of entire plants (HILEP) for quantitative plant proteomics; an oxidative stress case study

Hydroponic isotope labelling of entire plants (HILEP) is a cost-effective method enabling metabolic labelling of whole and mature plants with a stable isotope such as (15)N. By utilising hydroponic media that contain (15)N inorganic salts as the sole nitrogen source, near to 100% (15)N-labelling of proteins can be achieved. In this study, it is shown that HILEP, in combination with mass spectrometry, is suitable for relative protein quantitation of seven week-old Arabidopsis plants submitted to oxidative stress. Protein extracts from pooled (14)N- and (15)N-hydroponically grown plants were fractionated by SDS-PAGE, digested and analysed by liquid chromatography electrospray ionisation tandem mass spectrometry (LC-ESI-MS/MS). Proteins were identified and the spectra of (14)N/(15)N peptide pairs were extracted using their m/z chromatographic retention time, isotopic distributions, and the m/z difference between the (14)N and (15)N peptides. Relative amounts were calculated as the ratio of the sum of the peak areas of the two distinct (14)N and (15)N peptide isotope envelopes. Using Mascot and the open source trans-proteomic pipeline (TPP), the data processing was automated for global proteome quantitation down to the isoform level by extracting isoform specific peptides. With this combination of metabolic labelling and mass spectrometry it was possible to show differential protein expression in the apoplast of plants submitted to oxidative stress. Moreover, it was possible to discriminate between differentially expressed isoforms belonging to the same protein family, such as isoforms of xylanases and pathogen-related glucanases (PR 2).     

低产高级醇酿酒酵母突变菌株的差异蛋白组分析及

【目的】高级醇是白酒微量香气成分中的重要组成部分,但是高级醇含量过高会对酒的品质产生不利影响,而白酒中的高级醇主要是在酒精发酵过程由酵母产生的,因此酿酒酵母高级醇合成相关蛋白的研究对于控制高级醇产生具有重要意义。【方法】以诱变得到的低产高级醇酿酒酵母菌株ARTP5和原始酿酒酵母菌株CF4为研究对象,比较两株酵母的胞内蛋白组差异,寻找高级醇合成相关蛋白。【结果】与原始菌株CF4相比,诱变菌株ARTP5高级醇产量降低了20%,有45个胞内蛋白表达量差异2倍以上,通过MALDITOF-MS质谱鉴定出29个,主要包括碳源和能量代谢、胁迫反应过程、蛋白翻译和折叠过程、氨基酸代谢和高级醇代谢等途径的蛋白,其中ARTP5菌株表达上调的支链氨基酸代谢合成途径的ILV5蛋白和表达下调的高级醇合成途径中的ADH1蛋白与诱变菌株ARTP5高级醇降低具有一定相关性。【结论】与高级醇合成具有一定相关性蛋白的发现对于酿酒酵母酒精发酵过程高级醇的合成机制的解析以及白酒酿造过程高级醇产量的控制有重要意义。     

Isolation of a Francisella tularensis mutant that is sensitive to serum and oxidative killing and is avirulent in mice: Correlation with the loss of MinD homologue expression

Abstract We constructed mutant strains of Francisella tularensis biotype novicida by insertional mutagenesis with a kanamycin resistance (Km^R) cassette. One mutant, KEM7, was defective for survival in macrophages in comparison with the wild-type (WT) strain and a random insertion strain, KEM21. While all three strains exhibited intracellular growth, the number of viable KEM7 present after 24–48 h of infection was approximately 10 times less than that of WT or KEM21. This observation was apparently due to a reduced number of viable KEM7 associated with the macrophages one hour after phagocytosis. KEM7 was approximately 3 times more susceptible than WT or KEM21 to killing by the products of the xanthine-xanthine oxidase reaction or by hydrogen peroxide. KEM7 was also found to be susceptible to killing by serum, whereas WT and KEM21 were resistant. Upon intravenous inoculation of C57BL/6 mice, the number of KEM7 in the livers and spleens 48 h post-infection was found to be 1000- to 10 000-times less than that of either KEM21 or WT. DNA sequence analysis at the Km^R insertion site suggested that the F. tularensis homologue of min D had been interrupted. Western immunoblot analysis confirmed the presence of a MinD homologue in F. tularensis WT and KEM21, and demonstrated its absence in KEM7.     

Release of proteins: Insights into oxidative response of Taxus cuspidata cells induced by shear stress

The sensitivity of plant cells to shear stress has been regarded as one obstacle to the scale-up of plant cell suspension cultures. For better understanding on molecular levels of oxidative responses caused by laminar shear stress, extracellular proteins of the suspension cultured Taxus cuspidata cells were investigated by two-dimensional-liquid chromatography–tandem mass spectrometry (2D LC–MS/MS). Totally 35, 73, and 70 proteins in media were identified in shake flask (3 h) and a Couette-type shear device after laminar shear treatment (3 h and 6 h), respectively. These proteins were, respectively, categorized into different kinds of bioprocesses including stress responses, detoxification, transporter, cell wall catabolic and glycolysis and various metabolisms including carbohydrate, energy, and sulfur. Some cytoplasm proteins were released into the media after shear treatment. The glutathione S-transferase, aldo/keto reductase, peroxidase 3 precursor, oxidoreductase associated with oxidative stress and heat shock proteins, transport-associated proteins were only monitored in shear-treated cells. Particularly, shear treatment-induced accumulation of geranylgeranyl diphosphate synthase and isopentenyl diphosphate delta isomerase, which closely associated with Taxol biosynthesis. These findings provide new insights into better understanding of the molecular and signal basis of plant cell cultures in response of oxidative stress induced by shear stress.     

Proteomic analysis of the oxidative stress response in Candida albicans

An efficient oxidative stress response (OSR) is important for the facultative pathogenic yeast Candida albicans to survive within the human host. We used a large scale 2-D protein gel electrophoresis approach to analyze the stress response mechanisms of C. albicans after treatment with hydrogen peroxide and the thiol oxidizing agent, diamide. Quantitation of in vivo protein synthesis after pulse labeling of the proteins with radioactive L-[35S]-methionine resulted in characteristic proteome signatures for hydrogen peroxide and diamide with significant overlap of 21 up-regulated proteins for both stressors. Among the induced proteins were enzymes with known antioxidant functions like catalase or thioredoxin reductase and a set of oxidoreductases. 2-D gel analysis of mutants in the CAP1 gene revealed that the synthesis of 12 proteins is controlled by the oxidative stress regulator Cap1p. Stressing its importance for the C. albicans OSR, all 12 proteins were also induced after oxidative challenge by hydrogen peroxide or diamide.     

Comparative proteomic analysis of the Arabidopsis cbl1 mutant in response to salt stress

Many environmental stimuli, including light, biotic and abiotic stress factors, induce changes in cellular Ca(2+) concentrations in plants. Such Ca(2+) signatures are perceived by sensor molecules such as calcineurin B-like (CBL) proteins. AtCBL1, a member of the CBL family which is highly inducible by multiple stress signals, is known to function in the salt stress signal transduction pathway and to positively regulate the plant tolerance to salt. To shed light into the molecular mechanisms of the salt stress response mediated by AtCBL1, a two-dimensional DIGE proteomic approach was applied to identify the differentially expressed proteins in Arabidopsis wild-type and cbl1 null mutant plants in response to salt stress. Seventy-three spots were found altered in expression by least 1.2-fold and 50 proteins were identified by MALDI-TOF/TOF-MS, including some well-known and novel salt-responsive proteins. These proteins function in various processes, such as signal transduction, ROS scavenging, energy production, carbon fixation, metabolism, mRNA processing, protein processing and structural stability. Receptor for activated C kinase 1C (RACK1C, spot 715), a WD40 repeat protein, was up-regulated in the cbl1 null mutant, and two rack1c mutant lines showed decreased tolerance to salt stress, suggesting that RACK1C plays a role in salt stress resistance. In conclusion, our work demonstrated the advantages of the proteomic approach in studies of plant biology and identified candidate proteins in CBL1-mediated salt stress signaling network.     

Differential proteomics in the aging Noble rat ventral prostate

Incidence of prostatic diseases increases dramatically with age which may be related to a decline in androgen support. However, the key mechanisms underlying prostate aging remain unclear. In the present study, we investigated the aging process in the ventral prostate (VP) of Noble rats by identifying differentially expressed prostate proteins between 3- and 16-month-old animals using ICAT and MS. In total, 472 proteins were identified with less than a 1% false positive rate, among which 34 were determined to have a greater than two-fold increase or 1.7-fold decrease in expression in the aged VPs versus their younger counterparts. The majority of the differentially expressed proteins identified have not been previously reported to be associated with prostate aging, and they fall into specific functional categories, including oxidative stress/detoxification, chaperones, protein biosynthesis, vesicle transport, and intracellular trafficking. The expression of GST, ferritin, clusterin, kininogen, oxygen regulated protein 150, spermidine synthase, ADP ribosylation factor, and cyclophilin B was verified by Western blot analyses on samples used for the ICAT study, as well as on those obtained from an independent group of animals comprised of three age groups. To the best of our knowledge, this is the first study on the proteome of the aging rat prostate.