Ascorbate Peroxidase from Leishmania major Controls the Virulence of Infective Stage of Promastigotes by Regulating Oxidative Stress

يمثل البيروكسيداز مجموعة غير متجانسة من عائلة الإنزيمات المتميزة التي تلعب وظائف بيولوجية متنوعة للغاية. ثبت أن بيروكسيداز الأسكوربات من الليشمانيا الكبرى (LmAPX) أساسي لنظام الدفاع عن الأكسدة في الليشمانيا. لمزيد من التحقيق في دورها الفسيولوجي الدقيق في الليشمانيا، حاولنا إنشاء طفرات LmAPX - بالضربة القاضية عن طريق استبدال الجينات في السلالات الرئيسية L. تحتوي مزرعة الخلايا الطافرة الصفرية على نسبة أعلى من الخلايا ما وراء الحلقية والخلايا المبرمجة مقارنة بكل من النوع البري وخلايا LmAPX المفرطة في التعبير. يكشف تحليل قياس التدفق عن وجود تركيز أعلى من H(2)O(2) داخل الخلايا، مما يدل على زيادة الإجهاد التأكسدي في الطفيليات التي تفتقر إلى LmAPX. تُظهر قيمة IC(50) لـ H(2)O(2) المضافة خارجيًا أن حذف LmAPX في L. major يجعل الخلية أكثر عرضة لـ H(2)O(2). تُظهر دراسات تفاعل البوليميراز المتسلسل في الوقت الفعلي ارتفاع مستوى الحمض النووي الريبوزي المرسال لبيروكسيديز الجلوتاثيون غير السيلينيوم في خط الخلية الطافرة الخالية من LmAPX، مما يشير إلى أن هذه الإنزيمات تم حثها لتعويض إنزيم LmAPX. تُظهر الخلايا الطافرة العديمة الفوعة المفرطة بعد الإصابة بالبلاعم وكذلك التلقيح في فئران BALB/c ؛ على النقيض من ذلك، تُظهر الخلايا المفرطة في التعبير عدم الفوعة. بشكل جماعي، توفر هذه البيانات دليلًا قويًا على أن LmAPX هو عامل مهم للتحكم في تمايز الطفيليات والبقاء على قيد الحياة داخل البلاعم.

section_content: Leishmania are protozoan human pathogens that cycle between an extracellular promastigote stage residing in the digestive tract of vector sandflies and an intracellular amastigote stage colonizing the phagolysosomal compartment of mammalian macrophages. By nature, the transformation of replicating, poorly infective procyclic promastigote into non-replicating, highly infective metacyclic promastigote occurs within the insect vector [1]. The transformation of procyclic to metacyclic form is accompanied by an improved ability to infect and survive in the vertebrate host, where the parasite is assaulted by the host's immune system [2]. During the differentiation from procyclic to metacyclic forms in the insect gut, morphological and chemical changes like shorter cell size, slender shape, longer flagellum, elevated level of both lipophosphoglycan (LPG) and surface protease gp63 expression are observed [3, 4]. When cultivated in liquid medium, L. major promastigotes transform from a less infective procyclic form during log-phase growth to a highly infectious metacyclic promastigote when they reach stationary phase [5, 6]. This development is accompanied by an increased ability to survive intracellularly in macrophages. Although several metacyclic stage specific genes have been identified yet the molecular mechanism(s) for the initiation and regulation of these genes remain uncertain. 

It is a well-known phenomenon that phagocytic functions are suppressed by the apoptotic cells (AnxA5 + ) via an immunesilencing (phagocytotic) process [7, 8]. The immune-silencing phagocytotic process is characterized by the release of antiinflammatory cytokines such as transforming growth factor beta (TGF-b) and IL-10, and down-regulation of the proinflammatory cytokine tumor necrosis factor alpha (TNF-a. ). Recently a group of workers have shown that neither 100% nonapoptotic metacyclic (AnxA5 -) nor 100% apoptotic metacyclic L. major promastigote (AnxA5 + ) population leads to the establishment of disease; rather a mixture of nonapoptotic and apoptotic parasites goes ahead to the development of severe disease [9, 10]. This in vivo study suggests that virulence is found to depend on the presence of apoptotic parasites that is crucial for both disease development and intracellular survival of the parasite as a population. 

Much progress has been made in recent years to understand the signaling function of exogenously added reactive oxygen species (ROS) (e. g. stimulation with hydrogen peroxide), NADPH oxidase-generated ROS or mitochondria-generated ROS [11, 12]. Some signaling molecules and pathways have been already identified that are explicitly activated by increases in mitochondrial ROS. For example, the c-Jun N-terminal kinase (JNK) is activated by mitochondria-generated ROS and induces apoptosis through the regulation of cytochrome c release and caspase activation [13]. Both proapoptotic signaling molecules, JNK and p38, are activated by high doses of ROS [14]. Cells also have protective ROS-sensing signaling pathways that are activated by moderate increases in mitochondrial ROS [12]. Although several roles of mitochondrial-generated ROS in multicellular organism have been identified, almost nothing is known about the molecular function(s) of mitochondria-generated ROS in Leishmania. Recently, we have demonstrated that overexpression of LmAPX in L. major protects promastigote cells against oxidative stress-induced apoptosis [15] [16] [17]. Peroxidase is found in a great variety of organisms, where they fulfill distinct functions, such as ROS detoxification, cell signaling, or differentiation [18]. LmAPX, localized in the mitochondrion, seems to be of particular interest, since kinetoplastids are known to generate H 2 O 2 as a byproduct of their own mitochondrial energy metabolism. Although localization and overexpression studies have predicted the possible physiological role of this protein, the exact physiological function is unknown. In this manuscript, we provide evidence for the first time that LmAPX gene knockout cells have higher levels of intracellular H 2 O 2 and elevated level of both metacyclic and apoptotic cells, more infectious property with respect to macrophage infection, and induced larger cutaneous lesions (hypervirulence). Taken together, these gene knockout results not only support the central role of ROS in the mechanism of Leishmania differentiation, but also indicate its relevance to the control of virulence during evolution.
section_name: Introduction

section_name: Results

section_content: L. major Gene DB reveals that LmAPX is a single copy gene. To find out biological significance of this protein in the parasite we attempted to create LmAPX null mutant cell line by gene replacement. Leishmania are asexual diploids and thus require two rounds of gene replacement [19]. We generated LmAPX knockout constructs by gene replacement either hygromycin or neomycin selectable markers (Fig. 1A ). After two rounds of transfection and selection with neomycin and hygromycin drugs, both the LmAPX alleles in cells had been replaced. To screen the null mutants, we first performed a PCR analysis on genomic DNA with primers generated from the coding region as well as from the 59-and 39flanking regions (Fig. 1B ). Western blot analysis with anti-LmAPX antibody further confirmed the absence of LmAPX in the LmAPX 2/2 line, and the presence of,40% LmAPX in the LmAPX 2/+ line (Fig. 1C-D ). These results suggested that both LmAPX alleles had been knocked out in the L. major cell line that is resistant to both neomycin and hygromycin drugs. On the other hand, the results of Western blot technique demonstrated that the overexpressing (OE) cell line expressed higher LmAPX compared to wild type (WT) cell line although the complementation (CM) cell lines expressed same amount of LmAPX compared to wild type cells (Fig. 1C-D ) [15, 16].
section_name: Generation of LmAPX Null Mutants

section_content: To investigate whether null mutants (KO) are morphologically distinct from WT, OE or CM cells, microscopic analysis was performed. Microscopic examination showed that KO population had two distinct types of cell compared to WT, OE or CM cells i. e. one type is slender and elongated in shape while the other is round shaped (Fig. 2A ). Because typical metacyclic morphology is slender cell body, KO culture might posses the elevated levels of infectious metacyclics. To investigate whether KO culture contained more metacyclics, we had purified metacyclic promastigotes from OE, WT, KO and CM cultures by negative agglutination with peanut agglutinin (PNA). Procyclic promastigotes strongly agglutinate, whereas metacyclic parasites do not react (PNA 2 ) due to developmental modifications of terminally exposed oligosaccharides on the lipophosphoglycan [5]. Interestingly, quantitative analysis of PNA 2 promastigotes by flowcytometry showed that KO cell culture exhibited 16 folds excess metacyclic (PNA 2 ) parasites compared to OE cells and similarly the percentage of metacyclic KO (PNA 2 ) parasites was 2 folds higher than that of WT or CM cell (Fig. 2B-C ). These results strongly suggested that the higher levels of metacyclic parasites were present in the KO population compared to OE, WT or CM cells. As morphology of apoptotic cell is round shaped, knockout culture might present the higher levels of apoptotic cells. We checked whether null mutant populations in liquid culture contain apoptotic (AnxA5+) parasites. Phosphatidylserine exposure is one of the characteristics of apoptotic cells. To study the presence of phosphatidylserine on the surface, L. major promastigotes were stained with AnxA5-FITC. Fluorescence microscopy data revealed that a major population of the null mutant parasites was AnxA5 + (Fig. 2D ), while almost no AnxA5 + were found in the OE population. To further substantiate the higher % of apoptotic cell in the null mutant compared with control or overexpressing cells, the DNA fragmentation of AnxA5-analyzed samples was performed in parallel by TUNEL assay (Fig. 2E-F ); the results clearly confirmed the data obtained by AnxA5-FITC result in fluorescence microscope. Representative FACS dot plots of FITC-conjugated annexin A5-and PI-labeled samples are shown in Fig. 2G. Quantitative analysis of FITC-conjugated annexin A5-and PIlabeled samples by flowcytometry showed that KO cell culture exhibited 1. 6 folds excess early apoptotic (lower right quadrant) and 2. 8 folds excess late apoptotic (upper right quadrant) parasites compared to WT or CM cells whereas both early and late apoptotic parasites were absent in OE cell population. These data strongly indicated that the elevated levels of both early and late apoptotic parasites were present in the KO population compared to OE or WT cells.
section_name: Increased metacyclogenesis and apoptosis in LmAPX null mutants

section_content: To evaluate the consumption of ROS in OE, WT, KO and CM cell lines, we measured intracellular levels of H 2 O 2 and O 2 2 by using the fluorescent probes DCFDA and MitoSox Red, respectively. The intracellular H 2 O 2 concentration in the KO population was increased compared to the WT, OE or CM cells indicating that LmAPX might have the role in detoxification of endogenous H 2 O 2 (Fig. 3A-C ). Similarly O 2 2 level in overexpression system was lower than the WT or CM, but it was also lesser in KO (Fig. 3B-C ). Because LmAPX-H 2 O 2 system can oxidize ferrocytochrome c, which scavenges O 2 2 occasionally, OE cells might eliminate more O 2 2 compared to WT cells. On the other hand, the low intracellular O 2 2 concentration in the KO population compared to the WT cells demonstrates that either suppression of O 2 2 production or elevation of O 2 2 scavenger has occurred in KO cells. To investigate whether LmAPX lacking cells was sensitive against oxidative stress, the transformed and wild type cell lines were grown in the presence of various concentration of H 2 O 2 or O 2 2 generating drug (menadione) and subsequently IC 50 was determined (Fig. 3D-E ). When exposed to exogenous H 2 O 2 or menadione, the LmAPX overexpressing cell line showed an approximately 1. 5 -folds increase in resistance compared with wild type or CM cells. But the KO lines showed a lower IC 50 value for both H 2 O 2 and menadione treatment. These results suggested that KO cells were more susceptible to H 2 O 2 or O 2 2 compared to LmAPX presenting cells.
section_name: Deletion of LmAPX in L. major renders the cells sensitive to ROS

section_content: To investigate the relative quantities of other antioxidant genes in KO, WT, OE and CM cells, we performed quantitative Real time PCR to measure putative non-selenium glutathione peroxidase (nsGPX, LmjF36. 3010), Type-II (glutathione peroxidaselike) tryparedoxin peroxidase (TDBX, LmjF26. 0810), putative NADH-Ubiquinone oxidoreductase (NADHUOR, LmjF05. 0980), iron superoxide dismutase (FESODA, LmjF08. 0290), trypanothione reductase (TRYR, LmjF05. 0350), tryparedoxin peroxidase (TRYP5, LmjF15. 1120) and peroxidoxin tryparedoxin Peroxidase (PXN, LmjF23. 0040). qRT-PCR results demonstrated a higher expression of nsGPX (. 2 fold) mRNA in KO mutants compared to WT or CM cells (Fig. 4 ). These results indicated that nsGPX was induced to balance for LmAPX deletion. The expression of NADHUOR was,2 fold reduced and that of FeSODA was,1. 25 fold increased in KO mutants, while the expression levels of the other anti-oxidant genes tested did not differ much (Fig. 4 ). A possible explanation for lower O 2 2 concentration in KO compared to WT (Fig. 3B-C ) might be higher FeSODA expression as well as lower level of NADHUOR, which, being part of the respiratory complex I, is a chief site of electron leakage. However, the mRNA expression of TDBX in OE cells was,2. 5 folds lower compared to WT cells, while nsGPX in OE cells was,1. 5 folds increased suggesting that peroxide scavenging gene depletion might have induced nsGPX.
section_name: Deletion of LmAPX alleles leads to increased expression of other antioxidant mRNA

section_content: Macrophages are the host cells for L. major promastigotes, therefore we focused on promastigote interactions with macrophages. We investigated to what extent KO, WT, OE and CM cells were phagocytosed by macrophages. The internalization rates of KO promastigotes were much higher than WT, CM and OE (Fig. 5A ). After phagocytosing KO promastigotes, most of the infected macrophages still contained parasites after 72 h of incubation. However, the percentage of macrophages infected with wild type decreased significantly. In addition, the OE parasites resulted in negligible macrophage infection (Fig. 5B ). These data of OE parasites suggested that the parasites were killed more easily inside macrophages in absence of any apoptotic parasite in the inoculum. In general, phagocyte functions are suppressed by the apoptotic cells (AnxA5 + ) via the release of antiinflammatory cytokines like TGF-b and down-regulation of the proinflammatory cytokine TNF-a [7, 20, 21]. The release of TGF-b and TNF-a was measured in supernatants of mouse macrophages after coculture with KO, WT, CM and OE promastigotes. The KO promastigotes induced the release of high levels of TGF-b and down-regulated the expression of the proinflammatory cytokine TNF-a (Fig. 5C ) compared to wild type, CM or LmAPX overexpressing cells, probably due to the presence of apoptotic cells, which might be an important factor controlling TGF-b and TNF-a production by monocytes [9, 22, 23]. We later investigated whether L. major parasites lacking LmAPX were able to induce infections in mice. After promastigotes were grown to stationary phase, they were inoculated into the footpads of BALB/c mice. We found that KO cells induced a more severe disease with an earlier onset of footpad necrosis, as compared to WT or CM promastigotes (Fig. 5D ). These data were confirmed by the OE promastigote infection results, where they were avirulent in an in vivo infection model. These findings indicated that the down-regulation of LmAPX gene in parasites is crucial for disease development.
section_name: Deletion of LmAPX alleles leads to increased disease development

section_content: For the single-celled Leishmania parasites, which reside in the phagolysosomes of macrophages, the absence of catalase and selenium-containing glutathione peroxidase raises natural curiosity to look for an effective enzyme system capable of detoxification of ROS, and ascorbate peroxidase (LmAPX) from L. major presents itself to be a potential candidate. Here, we have successfully generated L. major cells completely lacking LmAPX by means of homologous gene replacement method. Our study for the first time depicts a contribution of the leishmanial APX in the infectivity of the parasite to host macrophages and survivability within BALB/c mice. Mutating essential genes, those are implicated in virulence, usually diminishes virulence, pathology, or infectivity. This makes the hypervirulence of the LmAPX null mutants unusual but not unique among Leishmania genes. The pteridine reductase 1 null mutants in Leishmania results in hypervirulence manifested by increased lesion formation and parasite numbers, probably due to the action of tetrahydrobiopterin, which may be an important factor controlling metacyclogenesis [24]. Although our result shows LmAPX levels as another important factor for controlling the extent of both metacyclogenesis and apoptosis but the mechanism is completely different from tetrahydrobiopterin depletion mechanism. The apoptotic Leish- mania in KO culture exhibits altruistic behavior in providing survival advantage for the viable metacyclic parasites. 

At least three central players are involved in the removal of H 2 O 2 in Leishmania: 2-cysteine peroxiredoxins, nsGPX, and LmAPX [25]. From our recent study it is revealed that as the culture is incubated with H 2 O 2, where the cells encounter more oxidative stress, the expression of the LmAPX enzyme also increases [16]. Therefore, it is clear that in the absence of catalase, the single copy LmAPX gene plays a major role in protecting the parasite against oxidative stress. In this study we reported that a deficiency in LmAPX resulted in about two-fold induction of nsGPX, along with a slight induction of peroxidoxin and type II (glutathione peroxidase-like) tryparedoxin peroxidase, suggesting that these enzymes were induced to compensate for LmAPX. Taken together, these findings suggest a high degree of redundancy in ROS detoxifying mechanisms in Leishmania. Interestingly, compared to OE, CM or WT Leishmania, KO cells have been more sensitive to ROS stress. This is in accordance with the previous finding which points to the low K m value of LmAPX for H 2 O 2 (,25 mM in presence of ascorbate). 

However, at least within macrophage, KO Leishmania did not appear to be subjected to the same degree of oxidative stress as OE, CM or WT Leishmania. It is possible that KO Leishmania induced an unknown ROS scavenging mechanism that protected them from ROS-induced damage. Alternatively, they might have suppressed the rate of ROS production within phagolysosome, thereby lowering the intracellular level of ROS. The suppression of pro-inflammatory activity or induction of antiinflammatory activity in macrophage by KO Leishmania may account for such a response. The oxidative burst is one of the major sources of ROS production within macrophage, and suppression of oxidative burst was shown to accompany the defense response of certain Leishmania to adverse physical conditions [26, 27]. 

It has been established from our previous studies that LmAPX plays an important role for scavenging of ROS [16]. Accordingly, here null mutant shows elevated level of intracellular H 2 O 2 as well as lower level of IC 50 value for both exogenously added H 2 O 2 and superoxide generating drug (menadione). Thus, the hypervirulence observed for LmAPX null mutants occurs through a distinct mechanism. A central question in the study of Leishmania is why KO cells cause cutaneous leishmaniasis at the site of infection, whereas OE parasites produce little or no cutaneous pathology. To survive the hostile environment of macrophages, Leishmania developed subversion mechanisms including the modulation of host cytokine production. Pro-inflammatory cytokine TNF-a as well as anti-inflammatory cytokine TGF-b can tightly control the intracellular replication of both Leishmania and T. cruzi in vitro and in vivo by modulating the antimicrobial activities of the phagocytes [28, 29]. Here, TNF-a levels were significantly higher for OEcompared to WT-, CM-or KO-infected macrophages. On the other hand, TGF-b levels were significantly lower for OEcompared to WT-, CM-or KO-infected macrophages. We cannot exclude that differences in TNF-a or TGF-b production could be responsible for different rates of infection observed between OE and KO strains. In human, some studies demonstrated that Leishmania are able to infect monocytes without inducing TNF-a production [30], whereas others report the opposite [31]. TGF-b is well-known in silencing cytotoxic effector reactions of activated macrophage and a direct correlation between the amounts of TGF-b produced following in vitro infection of murine macrophages and virulence of Leishmania was demonstrated [22, 23]. In agreement with previous studies, we observed both TGF-b and TNF-a modulation by KO during the early inflammatory events which might be associated directly with the outcome of disease. 

It is also possible that the loss of APX activity has secondary effects on leishmanial gene expression caused by an alteration in the redox balance in the protozoa. As a consequence, modulation in the form of LPG and simultaneous differentiation of the promastigotes into infective metacyclic form may occur. A group of workers have suggested that the infectious parasite population in the midgut of infected sandfly or in vitro stationary phase cultures contain both metacyclic as well as apoptotic parasites and these cells are needed for infectivity of the parasite within host macrophages [9]. In accordance with this, we also found that KO Leishmania, deprived of LmAPX, contains in its stationary phase culture a higher number of metacyclic as well as apoptotic parasites compared to both wild type and LmAPX overexpressing cells. Thus, our results show LmAPX may have a major role in cellular differentiation in L. major as well as may act to protect the cells from apoptosis. There is now a wealth of evidence to suggest that H 2 O 2 could act directly as a signaling molecule, by affecting cell differentiation, signal transduction and cell death in other organisms [12]. Hence, besides protection against apoptosis we have identified a new and second role for LmAPX in Leishmania, that of regulating parasite differentiation to the infective metacyclic stage by modulating the ROS content of the cell.
section_name: Discussion

section_name: Materials and Methods

section_content: 2', 7'-dichlorodihydrofluorescein diacetate (DCFDA), Mito-SOX TM Red were procured from Molecular Probes (Eugene, OR). Anti a-tubulin antibody was purchased from Upstate Cell Signaling. All other chemicals were purchased from Sigma (St Louis. MO) or sources previously reported [16, 17, [32] [33] [34] [35].
section_name: Reagents

section_content: All Balb/C mice were obtained from and maintained in our Institutional animal facility (Kolkata, India). The studies were approved by IICB Animal Ethical Committee (Registration no. 147/1999, CPCSEA), registered with Committee for the purpose of Control and Supervision on Experiments on Animals (CPCSEA), Govt. of India, and Balb/C mice were handled according to their guidelines.
section_name: Ethics Statement

section_content: L. major (strain 5ASKH) promastigotes were cultured at 26uC in M199 medium supplemented with 40 mM HEPES, (pH-7. 4) 200 mM adenine, 1% penicillin-streptomycin (v/v), 50 mg/ml gentamycin and 10% heat inactivated fetal bovine serum [16, 17]. Genomic DNA was isolated from L. major promastigotes by Qiagen genomic DNA isolation kit as per manufacturer's instructions. To amplify LmAPX open reading frame, following primers were used. Primer1: 59-AAAACCCGGGCGCATGT-CCGGCACCTCGCGG-39, Primer2: 59-AAAAGGATCCT-TAGCTCTCCGAAGCGGGTGCTTTG-39. The underlined portions denote restriction enzyme sites. The amplified product of primer1 and primer2 was cloned in pXG-B2863 vector at SmaI and BamHI sites to generate full length LmAPX. Transformation of the LmAPX containing pXG-B2863 vector in Leishmania cell was performed by electroporation with a Bio-Rad Gene Pulsar apparatus using 450 volt and 550 mF capacitance [16]. Finally all the transfected cells were maintained in 200 mg/ml G418.
section_name: Molecular constructs for overexpression of LmAPX allele

section_content: The vectors pXG-neo and pXG-hyg were first modified by sitedirected mutagenesis at position 1981 and 1952 respectively at the T3 promoter end of the vectors to generate unique HindIII site using following primers: Primer3: 59-CACACACAAAGCTGCCTTG-CACACAACG-39 and Primer4: 59-CGTTGTGTGCAAGGC-AGCTTTGTGTGTG-39. The underlined portions denote the site of mutation. Next, a 0. 976 Kb flanking sequence upstream (59F) and 1. 051 Kb flanking sequence downstream (39F) of LmAPX were PCR amplified from L. major genomic DNA using the following primers: Primer5: 59-AAAAGGATCCCCCTCCTCTGTCAAGTGTG-39, Primer6: 59-AAAAGAATTCGCGTGGCACGTAACTAGGC-39, Primer7: 59-AAAACCCGGGGACCGAGCTCGGCACCAGG-39, and Primer8: 59-AAAAGGATCCCACCTGACCCACTGCA-CAGC-39. The primers 5 and 6 were used to amplify the 59F and the primers 7 and 8 were used to amplify the 39F. The 59F was then cloned at the BamHI/EcoRI site of the pTrcHisA vector and an internal HindIII site at position 307 of 59F was modified by sitedirected mutagenesis using primers: Primer9: 59-CACTCG-TATCGGCGAGCTGCGCTGTACACTGC-39 and Primer10: 5'-GCAGTGTACAGCGCAGCTCGCCGATACGAGTG-39. The modified 59F (mod59F) was next PCR amplified from pTrcHisA with the help of the primers: Primer11: 59-AAAAAA-GCTTCCCTCCTCTGTCAAGTGTG-39 and Primer6. Next, the mod59F was digested with HindIII and SalI restriction enzymes and cloned at the HindIII/SalI site of the vectors pXG-neo and pXG-hyg. Then, the 39F was cloned in the vectors containing mod59F at SmaI/BamHI site. These were then digested with HindIII and BamHI to generate the gene deletion constructs LmAPX::NEO and LmAPX::HYG.
section_name: Modification of the vector and molecular constructs for knockout of LmAPX alleles

section_content: For generating LmAPX knockout L. major, transformations of all the constructs were performed by electroporation [16, 36] with a Bio-Rad Gene Pulsar apparatus using 450 volt and 550 mF capacitance. Briefly late log phase wild type (WT) promastigotes (0. 5-1. 0610 7 ) were harvested at 1200 g (4uC) for 10 minutes and washed twice in electroporatic buffer (21 mM HEPES, 137 mM NaCl, 0. 7 mM NaH 2 PO 4, 6 mM glucose, pH 7. 4). Cells were finally suspended in a density of 1610 8 /ml and 0. 36 ml was taken in a 0. 2 mm ice chilled electroporation cuvette. 12 mg of linear gene replacement cassette LmAPX::NEO, dissolved in 40 ml of electroporatic buffer, was then added to cuvette and incubated in ice for 10 minutes followed by electroporation. Cells were incubated further for 10 minutes in ice and added to 10 ml of drug free growth medium. After 24 hours of revival, 20 mg/ml G418 added and kept at 26uC for another 10 days with mild shaking. Finally all the transfected cells (LmAPX 2/+ mutants) were maintained in 50 mg/ml G418. The latter was selected for the second round of targeting using the LmAPX::HYG construct. Transfectants (LmAPX 2/2 or KO) resistant to both G418 and Hygromycin B were obtained and clones were maintained in 50 mg/ml G418 and 100 mg/ml hygromycin B.
section_name: Generation of LmAPX knockout cells

section_content: To restore LmAPX in the knock out parasites, LmAPX orf was first PCR-amplified using a LmAPX containing plasmid as template and the following forward and reverse primers. Forward primer: 59-AAAAGGATCCCGCATGTCCGGCACCTCGCG-G-39. Reverse primer: 59-AAAAGGATCCTTAGCTCTCC-GAAGCGGGTGCTTTG-39. The underlined portions denote BamHI restriction enzyme sites. The amplified product was cloned at the same site of pXG-PHLEO vector and 10 mg of the recombinant plasmid, pXG-PHLEO-LmAPX, was transfected into the knockout promastigotes. Transfected promastigotes were selected with minimal doses of phleomycin (5 mg/ml) and finally grown in the presence of 10 mg/ml of drug. A series of transfected clones were picked up for measuring LmAPX expression by Western blot analysis with anti-LmAPX antibody. We used CM clones, which were expressed equal amount of LmAPX compare to wild type cells.
section_name: Complementation of LmAPX in null mutants

section_content: After fixation with paraformaldehyde, WT, OE KO and CM cells from late log phase were observed under the Olympus IX81microscope for bright field imaging. At least 20 microscope fields were observed for each sample.
section_name: Microscopic Analysis

section_content: Proteins from whole cell were resolved on 13% SDS-PAGE and electroblotted onto nitrocellulose membranes (Sigma) by Hoefer wet transfer apparatus. Membranes were incubated with rabbit anti LmAPX (1:50) polyclonal antibody followed by anti rabbit (1:5000) secondary antibody. Detection was carried out by enhanced chemiluminescence reaction by ECL kit (Amersham). Expression of a-tubulin was considered as the endogenous control.
section_name: Western blot

section_content: Real time PCR was performed to investigate the relative quantities of antioxidant genes like Glutathione Peroxidase (nsGPX), type-II (Glutathione Peroxidase-like) tryparedoxin peroxidase (TDBX), NADH-ubiquinone oxidoreductase (NAD-HUOR), iron superoxide dismutase (FESODA), trypanothione reductase (TRYR), tryparedoxin peroxidase (TRYP5) and peroxidoxin tryparedoxin Peroxidase (PXN) in WT, OE, KO and CM cells. Briefly, total RNA was isolated from the parasites using RNAqueousH-4PCR Kit (Ambion) according to the manufacture's protocol. cDNA synthesis was then performed using High Capacity cDNA Reverse Transcription Kit (Applied Biosystems, ABI). Real-time quantitative PCR was performed on the StepOne Real-Time PCR system (Applied Biosystems, ABI) using Power SYBRH Green PCR Master Mix (ABI) and primers (Table 1 ). Relative expression levels of mRNA were normalized using WT cells as reference sample and Glyceraldehyde-3-phosphate dehydrogenase gene (GAPDH, LmjF30. 2970) as the endogenous control using a Comparative C T method as described by the manufacturer.
section_name: Real-time quantitative PCR

section_content: Growth inhibitory concentration of H 2 O 2 or Menadione was studied on WT, OE, KO and CM cells using Nunclon 24 well plates. Log phase promastigotes of WT, OE KO and CM cells were seeded at 3610 5 cells/ml in 2 ml growth medium in presence of increasing concentration of H 2 O 2 or Menadione. After five days of growth, cell densities were determined by haemocytometer.
section_name: Determination of IC 50

section_name: Flowcytometric measurement of intracellular ROS

section_content: Phosphatidyl serine (PS) exposure was assessed by Vybrant apoptosis assay kit # 3 (Molecular Probes). WT, OE, KO and CM cells were harvested by centrifugation for 5 min at 1200 g and washed twice with cold PBS. Cells (1610 6 /ml) were then resuspended in 100 ml 1X annexin binding buffer and incubated with 5 ml FITC conjugated annexin A5 and 1 mg/ml PI for 15 min. After staining, 400 ml of 1X buffer was added to the cells, and samples were stored on ice until data acquisition by flow cytometry. To eliminate the emission spectral overlap of fluophores, fluorescence compensation was performed with log phase unstained and single-stained (with either PI or with FITC) promastigotes. For fluorescence imaging, only annexin A5-bound cells were used.
section_name: Apoptosis assessment by Annexin-A5 staining

section_content: Cells undergoing apoptosis go through DNA fragmentation in the nuclei. TUNEL staining was performed with an Apoalert DNA fragmentation assay kit (Clontech, Mountain View, CA) to detect in vivo DNA fragmentation according to manufacturer's manual as described before [15].
section_name: TUNEL staining

section_content: Metacyclic promastigotes were purified from stationary cultures by treatment with the PNA lectin as described before [37]. Briefly, stationary promastigote cultures of WT, OE, KO and CM parasites were washed in PBS, resuspended to 10 8 /ml cell density, and incubated with 50 mg/ml of PNA. After 30 min of incubation, the suspension was centrifuged at 40 g for 5 min. The nonagglutinated promastigotes (PNA 2 ), collected in the supernatant, were washed two times in PBS and resuspended in PBS and analyzed for light scatter by Flowcytometry. Dot plots of forwardangle light scatter (FSC) vs. side-angle light scatter (SSC) represent the acquisition of 30,000 events [38].
section_name: Metacyclic purification assay and flowcytometry

section_content: Promastigotes were used to infect cultures of adherent murine macrophage cell line RAW 264. 7 on glass coverslips (22 mm 2 ; 5610 5 macrophages/coverslip) in 0. 5 ml of RPMI 1640/10% FCS at a parasite to cell ratio of 10:1 for a period of 2 hrs for determination of parasite entry and a period of 6 hrs for determination of intracellular parasite numbers. Following the incubation, unphagocytosed parasites were removed by washing Table 1. To amplify the relative quantities of antioxidant genes, following primers were used. with medium, and cells were resuspended in RPMI 1640/10% FCS at 37uC, 5% CO 2 and then 6 hrs incubated cultures were transferred to a CO 2 incubator at 37uC for an infection period of 24 hrs, 48 hrs and 72 hrs in presence of RNase A. Cells were then fixed in methanol and stained with propidium iodide. Cells were visualized and quantified using Olympus IX81 microscope.
section_name: In vitro macrophage infection

section_content: TGF-b and TNF-a production by macrophages was assessed by ELISA (OptEIA TM TGF-b1 ELISA Set and OptEIA TM TNF (Mono/Mono) ELISA Set (BD Biosciences) respectively according to manufacturer's protocol.
section_name: Cytokine measurements

section_content: For cutaneous infection, female BALB/c mice, 6-7 weeks old, were infected subcutaneously with 5610 6 stationary-phase WT, OE, KO and CM promastigotes in their left hind footpads [8 mice/group). Disease progression was monitored by daily caliper measurement of footpad swelling.
section_name: Infection in mice

section_content: All results were expressed as the mean 6 SE from at least three independent experiments. Statistical analysis for parametric data was calculated by Student's t test or analysis of variance (ANOVA) wherever applicable using Origin 7. 0 software (Microcal software, Inc. Northampton, MA, USA). The ANOVA was followed by post hoc analysis (multiple comparison t test) for the evaluation of the difference between individual groups. A p value of less than 0. 05 was considered statistically significant.
section_name: Statistical analysis

section_name: Acknowledgments

section_content: We thank Dr. S. M. Beverley ( Washington University, St. Louis, MO ) for providing pXG-B2863, pXG-neo, pXG-hyg and pXG-phleo vector as a gift.
section_name: Acknowledgments

section_content: This work was supported by Department of Science and Technology Grant SR/SO/BB-54/2005, Council of Scientific and Industrial Research (CSIR) Project NWP 0038, CSIR Fellowships (to S. P., S. D. and R. K. Y. ). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

section_name: Author Contributions

section_content: Conceived and designed the experiments: SA. Performed the experiments: SP SD RKY SA. Analyzed the data: SP SA. Contributed reagents/ materials/analysis tools: SA. Wrote the paper: SA.
section_name: Author Contributions