Oxidative stress response pathways: Fission yeast as archetype

Schizosaccharomyces pombe is a popular model eukaryotic organism to study diverse aspects of mammalian biology, including responses to cellular stress triggered by redox imbalances within its compartments. The review considers the current knowledge on the signaling pathways that govern the transcriptional response of fission yeast cells to elevated levels of hydrogen peroxide. Particular attention is paid to the mechanisms that yeast cells employ to promote cell survival in conditions of intermediate and acute oxidative stress. The role of the Sty1/Spc1/Phh1


Introduction
All organisms are continuously exposed to environmental changes during their lifetime. Unicellular organisms are particularly susceptible to sudden fluctuations in their growth environment, including alterations in nutrients, temperature, pH and osmolarity. Eukaryotic cells are often exposed to reactive oxygen species (ROS) during the course of normal aerobic metabolism. Increased ROS levels can also challenge cells exposed to oxidizing agents, such as hydrogen peroxide (HP). An excess of ROS leads to oxidative stress by directly or indirectly damaging DNA, proteins and lipids (Toledano, 2003). On the other hand, there is evidence for the involvement of ROS in vital signaling functions associated with diverse cellular processes (Rhee, 2006;Veal et al., 2007).
Cells need therefore to precisely tune cellular ROS levels and employ oxidative stress defense mechanisms to maintain ROS homeostasis. Eukaryotic cells have indeed evolved sophisticated ways to sense and respond to ROS (Temple et al., 2005). Evolutionary conserved signal transducing proteins, namely mitogen-activated protein kinases (MAPKs), constitute a large family of proteins that connect cell-surface receptors to critical regulatory targets within the cells, thereby controlling cell survival and adaptation in response to mitogens and other stimuli (English et al., 1999). Furthermore, there exists a conserved subfamily of MAPKs, namely the stress-activated protein kinase (SAPK) subfamily, which responds to diverse stress types rather than mitogenic stimuli (Waskiewicz & Cooper, 1995).
In humans, ROS are implicated in aging, cancer, atherosclerosis, Alzheimer's and Parkinson's disease among others (Finkel & Holbrook, 2000). Therefore, studies investigating the stress-mediated gene expression changes and the cellular mechanisms employed in response to oxidative stress have markedly increased in recent years, especially using model organisms.
The fission yeast Schizosaccharomyces pombe is a genetically amenable system that has limited genome redundancy, which makes it well suited for phenotypic studies and the investigation of stress responses in particular. Schizosaccharomyces pombe employs distinct molecular pathways to respond to stress triggered by different HP dosages. The complexity and high sophistication of these pathways are highly conserved in mammals, and the fission yeast SAPK pathway activates orthologous transcription factors in humans. Importantly, additional fission yeast regulators, such as two-component signaling proteins, are highly conserved in many fungal species. Fission yeast is thus often the model organism of choice for oxidative stress studies, which aim to understand how fungal pathogens respond to ROS and reveal the gene regulation mechanisms that govern human disease progression.
Several gene expression studies have uncovered the global transcriptional program of fission yeast cells in response to oxidative stimuli. Thus, a solid basis of stress response data is available for this yeast. The study of fission yeast responses to oxidative stress is currently a highly active field of research that contributes substantially to our understanding of how eukaryotic cells respond to intracellular redox imbalances.
The aim of the present review is to summarize the upto-date knowledge on the gene expression changes initiated in the model eukaryote S. pombe in response to oxidative stimuli. Moreover, a major goal of the review is to describe the substantial body of work that has been performed to reveal the molecular pathways that fission yeast employs in response to oxidative stimuli as well as the mechanisms by which gene expression changes are implemented.
To this direction we discuss the multi-level regulation of gene expression mediated by the Sty1 SAPK (also known as Spc1 or Phh1). Sty1 not only controls several aspects of normal fission yeast physiology (Sansó et al., 2011a), but it also plays a vital role in cell survival under diverse stress conditions, including oxidative, osmotic, heat and metal stress (Nguyen et al., 2000;Shiozaki & Russell, 1995b). Sty1 exerts its effects on gene expression mainly through the phosphorylation and stabilization of the Atf1 transcription factor (also known as Gad7, Mts1 or Sss1), which is similar to the human ATF2 and binds closely related DNA sequences Wilkinson et al., 1996). Hence, a large fraction of genes that are transcriptionally regulated through the Sty1-Atf1 pathway in fission yeast are closely related to the ones regulated via orthologous SAPKs in mammals. A number of additional molecular mechanisms are employed by Sty1 to regulate gene expression at the post-transcriptional level, interfere with the operation of the translational machinery and control the progression through the cell cycle. All these mechanisms are discussed in detail in the following sections.

Stress responses cause widespread changes in transcription
Cellular adaptation and survival in changing environments requires the rapid reprogramming of the transcriptional machinery towards molecular damage repair and cell survival (Estruch, 2000). The degree of stress resistance is inversely correlated with the rate of cellular growth. Therefore, upon stress unicellular organisms are challenged to balance two antagonistic gene expression programs, the growth-and the stress-related programs (López-Maury et al., 2008). Indeed, hundreds of growth-related genes in the budding yeast Saccharomyces cerevisiae show a considerable overlap with core stress genes in a way that the latter are expressed at low levels in normal growth and vice versa. Thus, many stress genes do not respond to stress, but to a reduction in growth rate caused by stress (Brauer et al., 2008;Castrillo et al., 2007).
Genome-wide expression profiling in model organisms, including the budding and fission yeasts, has provided insight into major principles of eukaryotic transcriptional regulation in response to a wide range of stress conditions (Chen et al., 2003;Gasch et al., 2000). These studies identified hundreds of genes with significantly altered transcript levels in stress that account for 10-15% of all protein-coding genes in the genome (Chen et al., 2003;Gasch et al., 2000). In both yeasts the magnitude and the duration of a stress response is proportionally affected by the dose of the stressor, with each stress condition resulting in a distinct expression signature (López-Maury et al., 2008).
Transcriptional responses are transient and mRNA levels reach, after some time, a new steady state that is close to the one prior to stress (Chen et al., 2008;Hughes et al., 2000). It has been recently shown that the treatment of S. cerevisiae cells with cumene hydroperoxide results in the transient induction and repression of approximately hundred genes within 6 minutes of exposure to the oxidizing agent (Sha et al., 2013). Another study in budding yeast revealed that the response to the fungicide benomyl involves the alteration of transcript levels already 30 seconds after the addition of the drug (Lucau-Danila et al., 2005). Moreover, a recent study in S. pombe has shown that both the mRNA-and protein-level responses to heat and oxidative stress are rapid, with the former peaking at 15 minutes and the latter at 60 minutes after stress induction (Lackner et al., 2012).
Schizosaccharomyces pombe and S. cerevisiae launch transcriptional programs that are commonly induced in most of the stress conditions that have been examined. The core transcriptional response to diverse stress conditions is known as the environmental stress response (ESR) in S. cerevisiae (Gasch et al., 2000) and the core environmental stress response (CESR) in S. pombe (Chen et al., 2003). Notably, ESR and CESR are largely conserved between the two evolutionary distant yeasts (Causton et al., 2001;Chen et al., 2003;Gasch et al., 2000). The phenomenon of crossprotection, whereby cells treated with mild concentrations of a stressor become more resistant upon exposure to other stress agents, could be explained by such general-purpose responses (Kültz, 2005).
In fission yeast, 140 and 106 CESR genes are, respectively, induced and repressed (42-fold change) in most of the five stress conditions that have been tested, i.e. heat, osmotic, oxidative, heavy metal and DNA-damage stress (Chen et al., 2003). Genes with very different functions are commonly induced, while growth-related and energy consumption processes are often negatively regulated ( Figure 1). Less conservative lists that include hundreds of CESR genes from each regulated group have also been reported. Genes in these lists are consistently regulated in response to most stress conditions but marginally fail the selection criterion (42-fold change) in some of the conditions (Chen et al., 2003).
The regulation of CESR genes is largely dependent on the Sty1 MAPK. However, the Atf1-binding site, i.e. cAMPresponsive element (CRE), is over-represented only in the promoter regions of induced CESR genes, while the repressed CESR group is virtually independent of Atf1 (Chen et al., 2003).
Furthermore, fission yeast extensively redirects its gene expression program in response to different doses of HP, with the expression of 1800-3000 genes changing significantly in at least one HP concentration (0.07, 0.5 or 6.0 mM) and one time point, respectively. Cellular responses are similar upon exposure to medium (0.5 mM) or very high HP concentrations (6.0 mM), while the response to low HP doses (0.07 mM) is weak and triggers expression changes to only a few genes (Chen et al., 2008). A group of 127 core oxidative stress genes (COSG) (Chen et al., 2008) is induced in stress caused by a wide range of HP concentrations (0.07, 0.5 and 6.0 mM). COSG are also hyper-induced in stress imposed by two other oxidizing agents, namely tert-butyl hydroperoxide and menadione (Chen et al., 2008).
Transcriptional regulation in HP stress is conserved across different kingdoms for a group of four protein families. This small group constitutes the so-called ''core eukaryotic HP response'' and includes G proteins, ubiquitin-conjugating enzymes, heat shock proteins and calcium-dependent protein kinases (Vandenbroucke et al., 2008). The conserved inductive transcriptional response to HP in yeasts (S. pombe and S. cerevisae) (Chen et al., 2003) is more conserved in plants than in animals (Vandenbroucke et al., 2008). Interestingly, the increased expression of antioxidant enzymes being caused by elevated HP levels is not always observed for cells of multicellular organisms (Desaint et al., 2004), but it appears to be a universal response in unicellular organisms (Vandenbroucke et al., 2008).

Stress signaling pathways: sensing of stress through complex upstream events
The ability of an organism to constantly sense and respond to stimuli (or signals) involves extensive interactions between the environment and the genome. In challenging conditions a complex network of pathways and molecular interactions mediates genome-environment interactions to promote cell survival. Signals are processed not only via linear kinase cascades but also through networks of cross-talking pathways involving TFs, protein kinases (PKs), RNA-binding proteins (RBPs), small interfering RNAs and other biomolecules. Signals not only alter the transcriptional activity of the cell, but also affect mRNA half-lives, translation, protein half-lives, protein localization, protein activation and protein turnover.
Fungi and plants possess multistep phosphorelay systems, which are reminiscent of the bacterial two-component systems that transduce environmental signals to MAPKs, which in turn direct the reprogramming of the transcriptional machinery (Imamura et al., 1998;Stock et al., 2000). Unlike prokaryotic systems, where a stress signal is transduced from a histidine (His) kinase (sensor kinase) directly to a response regulator (RR), a third component exists in eukaryotic phosphorelay systems. This component is a His-containing phosphotransfer protein (HPt), which mediates the phosphotransfer between the sensor kinase and the RR (upper part of Figure 2A).
Schizosaccharomyces pombe possesses a similar multistep phosphorelay system ( Figure 2B), which specifically senses and transduces oxidative stress signals through two highly related His kinases (Mak2/Phk1 and Mak3/Phk2), the Mpr1/ Spy1 HPt protein and the Mcs4 aspartic acid (Asp)-containing RR (Buck et al., 2001;Nguyen et al., 2000). Fission yeast possesses a second RR, namely Prr1 (Ohmiya et al., 1999;Shieh et al., 1997a), which plays an important role for cell viability in oxidative stress of different intensity (see following sections). Notably, a phosphorelay system similar to those identified in fungal species has not been identified in mammals.

A closer look into the fission yeast phosphorelay system
The fission yeast phosphorelay system operates by sequential phosphorylation of the component proteins, and it is dedicated to sense oxidative stress signals (Buck et al., 2001;Nguyen et al., 2000). Similar to prokaryotic organisms, the His sensor kinase (Mak2) could be potentially autophosphorylated in the expense of ATP upon intermediate and acute HP stress (Stock et al., 2000), but the validity of this regulatory event remains elusive. The phosphoryl group is sequentially transferred from Mak2 to downstream components (Mak3, Mpr1 and Mcs4) through the His-Asp phosphotransfer reaction (Figures 4 and 6) (Buck et al., 2001;Nguyen et al., 2000). The role of another His kinase, Mak1/Phk3, is only partially understood. At low HP concentrations Mak1 is possibly involved in the Pap1/Caf3-(see following sections) and/or Prr1-dependent transcription (Buck et al., 2001) and presumably reduces the extent of Sty1 activation by inhibiting Mpr1 and thus weakening the Mak2-Mak3 signal ( Figure 6) (Quinn et al., 2002).
The different arrangement of redox sensing domains in Mak1 compared with those in Mak2 and Mak3 is related to the differential regulation of the corresponding kinase domains upon stress (Buck et al., 2001). In HP stress two conserved protein domains in the structures of Mak2 and Mak3, i.e. the GAF and PAS domains, are essential for sensing and relaying signals to the downstream MAPK pathway (Quinn et al., 2011;Taylor & Zhulin, 1999). Both domains bind diverse cofactors to sense different stimuli, with the PAS domain being also involved in protein-protein interactions (Erbel et al., 2003). Interestingly, 18 TFs have been identified as potential interaction partners of the Mak1-3 proteins, with Mak2 alone being predicted to physically interact with six TFs (Atf31, Hsr1, Rsv1, Res1, Moc3 and Prr1) (Pancaldi et al., 2012).
In addition to structural kinase domains, signal transduction through the phosphorelay system is facilitated by an unexpected mechanism. Upon exposure to very high HP concentrations (41.0 mM), the glycolytic enzyme glyceraldehyde-3-phosphate dehydrogenase (GAPDH) encoded by tdh1/ gpd1 is transiently oxidized through S-thiolation of a conserved cysteine residue in the catalytic center (Cys-152). This molecular event renders the GAPDH enzyme inactive and ceases glycolysis (Grant et al., 1999;Morigasaki et al., 2008). The transient oxidation of Tdh1 enhances its interaction with Mcs4 and, therefore, facilitates the interaction between Mcs4 and Mpr1 ( Figure 5). Though to a lesser extent, a second GAPDH (Gpd3) can also promote stress signaling through the phosphorelay system (Morigasaki et al., 2008).
In many species proteins involved in the transduction of environmental signals localize at the plasma membrane (Moskvina et al., 1999;Tatebayashi et al., 2007). Instead, the fission yeast His kinases are cytoplasmic and, thus, evolutionarily optimized to sense internal and external oxidative stress signals (Quinn et al., 2011). Mcs4 localizes in the cytoplasm, Mpr1 is located in both the cytoplasm and the nucleus and, the Prr1 RR resides constitutively in the nucleus (Quinn et al., 2011). Interestingly, this localization pattern is not altered after treatment of cells with HP (Figures 4-6) (Quinn et al., 2011). The nuclear localization of Mpr1 and Prr1 and the essential role of a conserved Prr1 residue  in stress induced by extreme HP doses (41.0 mM) led to the conclusion that Prr1 could be phosphorylated by Mpr1 to control its TF activity. However, the Mpr1-mediated phosphotransfer does not seem to affect Prr1 stabilization (Quinn et al., 2011).

Stress signaling pathways: the central role of the MAPK family
In many species the MAPK family of proteins plays a central role in mediating changes associated with perturbations in the microenvironment of the cell (Marshall, 1994). The basic architecture of a MAPK pathway consists of three sequentially acting PKs: MAPK kinase kinases (MAPKKKs) phosphorylate and activate MAPK kinases (MAPKKs), which in turn phosphorylate and activate MAPKs (lower part of Figure 2A) (Marshall, 1994;Waskiewicz & Cooper, 1995).
In S. pombe, three distinct MAPK pathways have been identified to date: the cell integrity (Pmk1/Spm1) (Toda et al., 1996), pheromone signaling (Spk1) (Toda et al., 1991) and SAPK (Sty1) pathways (Millar et al., 1995;Shiozaki & Russell, 1995a). As opposed to six or more MAPK pathways in S. cerevisiae (Hohmann, 2002), the fission yeast MAPK pathways are tightly connected with each other. For instance, the Pmk1 and Sty1 MAPKs not only share regulatory links (i.e. the Pyp1, Pyp2 and Ptc1 protein phosphatases) (Takada et al., 2007), but also target the same TF (i.e. Atf1) to regulate gene expression through the cell integrity and stress response pathway respectively ( Figure 3). Furthermore, a considerable functional overlap between the two pathways exists, with their role in controlling cellular morphogenesis being equally important (Madrid et al., 2007). Nevertheless, cellular protection against environmental insults depends heavily on the Sty1 pathway, as demonstrated by sensitivity tests with relevant deletion mutants (Pérez & Cansado, 2010). Specifically, activation of the Sty1 SAPK in fission yeast is essential to promote cell survival in osmotic, oxidative, heat, heavy metal and nutrient stress (Degols & Russell, 1997;Nguyen et al., 2002;Samejima et al., 1997;Shieh et al., 1997b;Shiozaki & Russell, 1995b).
Although the stress signal is most often relayed to the Sty1 MAPK through MAPKKKs (Ikner & Shiozaki, 2005), there exists evidence for the activation of Sty1 in a MAPKKKindependent manner. For instance, stress imposed by cadmium or low glucose concentrations bypasses MAPKKKs and stimulates the Sty1 pathway through the oxidation-dependent inhibition of the Pyp1 phosphatase (Zhou et al., 2010), which deactivates Sty1 in normal conditions of growth (Shiozaki & Russell, 1995a). Similarly, upon heat stress Sty1 becomes activated after the abolishment of the binding between Sty1 and Pyp1 (Nguyen & Shiozaki, 1999). However, osmotic and oxidative stress signals from the phosphorelay system are relayed to downstream proteins of the fission yeast MAPK pathway in a MAPKKK-dependent manner (see next section) (Buck et al., 2001;Ikner & Shiozaki, 2005).

Activation of Sty1 results in redirection of gene expression to promote cell survival in oxidative stress
At the intersection of the phosphorelay system with the SAPK pathway, Mcs4 binds and activates the Wis4/Wak1/Wik1 and Win1 MAPKKKs (Shieh et al., 1997b), which are functionally redundant in phosphorylating the Wis1/Spc2/Smf2 MAPKK (Degols & Russell, 1997). In turn, activated Wis1 phosphorylates the Sty1 MAPK, which becomes fully activated by the dual phosphorylation of a threonine and a tyrosine residue (Thr-171 and Tyr-173) in a Thr-XXX-Tyr motif within the activation loop ( Figure 3) (Robbins et al., 1993). Notably, at very high HP dosages (41.0 mM) the noncatalytic domains of Wis4 and Win1 interact constitutively with the Tdh1 GAPDH, but the interaction is not required for the association of Mcs4 with the MAPKKKs (Morigasaki et al., 2008). Wis1 not only phosphorylates but also targets Sty1 to the nucleus by the use of a MAPK-docking site and a nuclear export signal, which are present in the structure of the protein (Figure 4) (Nguyen et al., 2002).
Specifically upon oxidative stress and after Wis1-mediated phosphorylation of Sty1, the thioredoxin peroxidase Tpx1 activates the MAPK by a distinct mechanism, which does not involve the peroxidase activity of Tpx1 but affects the redox state of the latter. In particular, HP induces the formation of a transient disulphide complex between Tpx1 (Cys-48) and Sty1 (Cys-35) ( Figure 4) (Veal et al., 2004). Additional redoxsensitive cysteine(s) present in the Sty1 protein or the reduced form of the thioredoxin Trx1 could further control the activation of Sty1 downstream of the SAPK pathway (Day et al., 2012;Veal et al., 2004).
After dual phosphorylation and Tpx1-mediated oxidation in the cytoplasm, activated Sty1 translocates in the nucleus (Gaits et al., 1998), where it phosphorylates the Atf1 TF (Wilkinson et al., 1996). Although Sty1-mediated phosphorylation of Atf1 is required for the activation of its TF activity (Sansó et al., 2008), this phosphorylation event mainly promotes the stability of the Atf1 protein (Lawrence et al., 2007). Notably, there are 11 MAPK phosphorylation sites in Atf1 and the pattern of phosphorylation varies with both the time and type of stress (Quinn et al., 2002). Hyperphosphorylation and stabilization of Atf1 disrupts the preexisting association of the protein with a Skp, Cullin, F-box containing (SCF) E3 ligase, Fbh1/Fdh/Fdh1 (Lawrence et al., 2009). Upon exposure to intermediate HP levels (0.25-1.0 mM) the constitutive recycling of Atf1 through the ubiquitin-proteasome system is in this manner prevented, a fact that results in the accumulation of the Atf1 protein ( Figure 4) (Lawrence et al., 2009  In the nucleus Atf1 can form a heterodimer with a second basic-leucine zipper (bZIP) TF, namely Pcr1/Mts2 (Watanabe & Yamamoto, 1996). Atf1 and Pcr1 have overlapping binding sites (i.e. CRE site: 5 0 -ATGACGT-3 0 ) and exist as phosphoproteins at the promoters of core stress (i.e. CESR) genes even in unstressed conditions (Figures 4 and 6) (Eshaghi et al., 2010;Kanoh et al., 1996;Lawrence et al., 2007;Reiter et al., 2008;Sansó et al., 2008;Wahls & Smith, 1994). Specifically upon oxidative stress, hyper-phosphorylation of Atf1 is accompanied by the Sty1-dependent dephosphorylation of Pcr1 (Figure 4) (Sansó et al., 2008).
Atf1 and Pcr1 regulate gene transcription either as a heterodimer or homodimer (Eshaghi et al., 2010). In conditions of HP stress the Atf1/Pcr1 heterodimer is primarily involved in the induction of Sty1-dependent genes, while its role in gene repression is minor (Eshaghi et al., 2010;Sansó et al., 2008). Although the heterodimer binds to the CRE site with much higher affinity than either homodimer complex (Kon et al., 1997), there are genes that are solely dependent on Atf1 and, to a lesser extent, on Pcr1 (Eshaghi et al., 2010;Reiter et al., 2008;Sansó et al., 2008). In particular, in response to intermediate stress (0.5 mM HP) the transcriptional regulation of 110, 38 and 10 genes is, respectively, driven by Atf1/Pcr1, Atf1 and Pcr1 (Eshaghi et al., 2010). The requirement of an intact Atf1/Pcr1 heterodimer for Atf1 stabilization has been a topic of debate. The Sty1-mediated phosphorylation of Atf1 and heterodimerization of the latter with Pcr1 were initially suggested to increase the stability of the Atf1 protein (Lawrence et al., 2007). However, in a later study the role of transcription and/or translation was proposed to be of higher importance for the regulation of Atf1 levels (Sansó et al., 2008).
Pap1 encodes an AP-1-like TF, which contains a bZIP DNA-binding domain (Turner & Tjian, 1989)   structural and DNA-binding properties with the mammalian c-Jun protein and the YAP1 TF in budding yeast (Table 1) (Moye-Rowley et al., 1989;Kouzarides & Ziff, 1988). Atf1 and Pap1 regulate the expression of distinct and overlapping sets of genes in response to increasing HP levels (Bozonet et al., 2005;Chen et al., 2008). However, as described above, the role of the Atf1 is more profound in the response to intermediate HP concentrations, while Pap1 activates target genes primarily in response to low HP levels (Quinn et al., 2002).
Previous HP stress studies have suggested a role for Sty1 in the regulation of Pap1 (Quinn et al., 2002). Although Pap1 appears to be phosphorylated after treatment of fission yeast cells with the microtubule depolymerizing agent thiabendazole (Wilson-Grady et al., 2008), upon intermediate and acute HP stress Sty1 has been hypothesized to exert its effects on Pap1 through indirect mechanisms, with the possibility of direct phosphorylation of Pap1 by Sty1 remaining elusive (Quinn et al., 2002;Toone et al., 1998;Vivancos et al., 2004). Specifically, Atf1 could negatively regulate Pap1 target genes by direct binding to their promoters, or alternatively, the phosphorylation state of Atf1 may affect Pap1 localization and/or activity (Quinn et al., 2002).
Moreover, Sty1-dependent regulation of Pap1 could be alternatively exerted through the activity of the Srx1 sulfiredoxin. Upon intermediate stress Tpx1 is temporarily inactivated through hyper-oxidation (Bozonet et al., 2005;Vivancos et al., 2005). Sty1-mediated induction of srx1 expression results in the reactivation of the Tpx1 peroxidase activity (i.e. Srx1-mediated catalytic conversion of Cys-48-SOOH to Cys-48-SOH in the Tpx1 protein) and, thus, the activation and nuclear accumulation of Pap1  Figure 5. Molecular mechanisms that are specifically employed upon exposure to acute oxidative stress conditions (41.0 mM HP). To emphasize molecular events that occur specifically in extreme -but not intermediate -HP stress, many branches of the demonstrated molecular network appear faded. Most of these branches remain, however, active even in very high HP doses (e.g. the SAPK pathway and the multistep phosphorelay sytem) (Quinn et al., 2002(Quinn et al., , 2011. Whether other faded parts of the figure represent active events in very high HP doses awaits validation (e.g. the (de)stabilization effects of the Csx1, Upf1, Cip1 and Cip2 RNA-binding proteins). The different graphical representations of the figure are explained in the upper left and right parts.  Figure 6. Overview of molecular events that enable cellular adaptation to mild oxidative stress (50.25 mM HP). Faded parts of the figure correspond to events, whose occurrence remains elusive in low HP doses (e.g. the Ptc4-mediated regulation of Sty1 and the Sty1-mediated phosphorylation of the Srk1 and Cmk2 MAPKAPKs). The thickness of the arrows associated with the activity of thioredoxin (Trx1) provides a quantitative indication of the relative reaction rates. In the presence of low HP levels, the import of the Pap1 TF into the nucleus predominates the export to the cytoplasm, a fact indicated by a thicker arrow for Pap1 import. CESR, core environmental stress response genes; COSG, core oxidative stress genes; CRE, cAMPresponsive element; RNAPII, RNA polymerase II; SAGA, Spt-Ada-Gcn5-Acetyltransferase; oxid, oxidized; red, reduced. Additional graphical representations are explained in the upper left and right parts of the figure.  (Bozonet et al., 2005;Vivancos et al., 2005). These events occur presumably late in the response to intermediate HP stress and constitute a positive feedback mechanism for the regulation of the Pap1 activity through the Sty1-Atf1 pathway ( Figure 4) (Chen et al., 2008).

Sty1 exerts additional nuclear roles
Interestingly, Sty1 is recruited at both the promoter and coding regions of Atf1/Pcr1-dependent genes (Figure 4) (Eshaghi et al., 2010;Reiter et al., 2008). Sty1 recruitment to the Atf1/Pcr1-bound HP-induced genes shows an apparent dependence on the heterodimer, but this is not the case for the SAPK recruitment at the bound-unresponsive genes (Eshaghi et al., 2010). It has, therefore, been speculated that upon HP stress other factors are bound at the promoters of the Atf1/ Pcr1-bound HP-unresponsive genes, and these factors suppress the activity of Atf1/Pcr1 and recruit Sty1 to the promoters of stress genes when Atf1 or Pcr1 is absent (Eshaghi et al., 2010). Sty1 recruitment at stress promoters suggests an active role of the SAPK in transcription regulation (Reiter et al., 2008). Indeed, the phosphorylated form of the Sty1 (and Atf1) protein enables transcription initiation from stress promoters by triggering the recruitment of the RNA polymerase II (RNAPII), the TATA binding protein (Tbp1) and the Spt-Ada-Gcn5-Acetyltransferase (SAGA) complex (Figure 4) (Sansó et al., 2011b). To allow transcription progression, Atf1 or RNAPII recruit the Gcn5/Kat2 histone acetyltransferase, which facilitates RNAPII to escape stress promoters by acetylating the nucleosomal histones located downstream of the transcription start site. Notably, RNAPII drags Gcn5 into the coding region of CESR genes during transcription elongation (Figure 4) (Sansó et al., 2011b).
Nuclear Sty1 employs additional mechanisms to increase the levels of the Atf1 protein, including the prevention of destabilization of the atf1 mRNA. In response to very high HP levels (41.0 mM), two redox-sensitive cysteine residues (Cys-153 and Cys-158) of the cytoplasmic Sty1 protein form an intramolecular disulfide bond on its surface ( Figure 5) (Day & Veal, 2010). The reversible oxidation of these cysteine residues prevents the HP-induced destabilization of the atf1 transcript in the nucleus (Day & Veal, 2010). In addition, transcription of atf1 and pcr1 is under the control of Sty1 (Chen et al., 2003), and the Atf1/Pcr1 heterodimer binds at the promoters of both genes, thus, forming a positive feedback loop (Figure 4) (Eshaghi et al., 2010). There also exists evidence for the Sty1-mediated stabilization of the atf1 and pcr1 transcripts at the post-transcriptional level (see the next section).

Sty1 regulates gene expression at the post-transcriptional level
In response to elevated HP levels Sty1 not only coordinates stress-mediated changes at the transcriptional level (Chen et al., 2008), but it also regulates gene expression at the posttranscriptional level through the direct or indirect control of RBP and PK activities (Park et al., 2003;Rodríguez-Gabriel & Russell, 2008). Specifically upon intermediate oxidative stress, the Csx1 RBP directly binds and stabilizes mRNAs of several genes that are under the transcriptional control of Atf1 (e.g. pyp2, atf1 and pcr1) (Figure 4) (Rodríguez-Gabriel et al., 2003). Interestingly, the mRNA levels of pap1 and prr1 are not affected in csx1 deletion mutants, and Csx1 appears to have additional functions that do not involve Atf1 (Rodríguez-Gabriel et al., 2003). The Sty1 SAPK directly or indirectly controls the phosphorylation status of the Csx1 protein, which can accept phosphate groups at four specific serine residues   (Rodríguez-Gabriel et al., 2003). Phosphorylation of Csx1 is, however, not critical for its function and other protein modifications could play a role in defining the specificity of its activity (Rodríguez-Gabriel et al., 2003). Csx1 and Sty1 have independent functions in stress resistance, but both increase the specificity of the oxidative stress response by positively controlling the stability of the atf1 transcript (Figure 4). The role of Sty1 in atf1 mRNA stabilization is though more profound than that of Csx1 (Day & Veal, 2010;Rodríguez-Gabriel et al., 2003).
Upon intermediate oxidative stress two other RBPs, Cip1 and Cip2, counteract the function of Csx1 to control the stability of cellular mRNAs. The three RBPs do not form a stable complex, but interact through their association with a transcript. The Cip1 and Cip2 proteins are cytoplasmic and become heavily phosphorylated upon HP stress in a Sty1dependent manner (Figure 4) (Martín et al., 2006). Although the mRNA levels of cip1, but not those of cip2, increase in the presence of elevated HP levels (Chen et al., 2003), Cip2, and to a lesser degree Cip1, require Atf1 for their function (Martín et al., 2006). Since constitutively high levels of the Atf1 protein are not beneficial for cellular physiology (Day & Veal, 2010), the Sty1-dependent activation of two RBPs that counteract the stabilization effects of Csx1 suggests a mechanism to tightly control the mRNA levels of atf1.
Unexpectedly, upon oxidative stress the conserved RNA helicase Upf1, which is essential for the fission yeast nonsense-mediated mRNA decay (NMD) pathway, cooperates with Csx1 to stabilize the atf1 and pcr1 mRNAs (Rodríguez-Gabriel et al., 2006). The two RBPs exert their stabilization effects through the same pathway, but unlike Csx1, Upf1 does not interact directly with the atf1 transcript ( Figure 4). Instead Upf1 positively regulates mRNA stability by counteracting the activities of Cip1 and Cip2. Alternatively, Upf1 could mediate the degradation of a yet unknown transcript that harbors premature termination codon(s) and encodes a negative effector of the Csx1-Upf1 pathway (Rodríguez-Gabriel et al., 2006). Another NMD factor, namely Upf2, seems to also play a role in the stress-mediated control of mRNA stability (Rodríguez-Gabriel et al., 2006).
It has been speculated that HP stress activates destabilizing factors or mRNA degradation pathways that are supported by Cip1 and Cip2 and counteracted by Csx1 and Upf1. An alternative hypothesis supports the idea that HP triggers direct transcript destabilization, which is prevented by Csx1 and Upf1 binding on cellular mRNAs (Rodríguez-Gabriel et al., 2003, 2006. In either scenario, Cip1 and Cip2 counteract the stabilization activities of Csx1 and Upf1. According to another interesting scenario, Cip1 and Cip2 could regulate the trafficking of transcripts in the cytoplasm and presumably contribute to the assembly of stress granules (SGs) (Martín et al., 2006). SGs are non-membranous structures, composed of messenger ribonuleoprotein particles (mRNPs) that form in the cytoplasm in response to diverse stress types (Anderson & Kedersha, 2009).
All eukaryotes possess LAMMER kinases (LKs), which are proteins with the characteristic EHLAMMERILG motif in a kinase subdomain (Lee et al., 1996;Yun et al., 1994). LKs show dual substrate specificity and are capable of autophosphorylation (Howell et al., 1991). In addition to its diverse physiological roles, the single fission yeast LK, namely Lkh1/Kic1 (Kim et al., 2001), phosphorylates Csx1 and, thus, plays an essential role in the stress-induced posttranscriptional regulation of gene expression (Kang et al., 2007). Lkh1-mediated phosphorylation of Csx1 results in increased stability of the atf1 transcript and induction of diverse stress-defense genes, including sod1 and ctt1/cta1 (James et al., 2009;Park et al., 2003). The stress-related activity of Lkh1 is presumably regulated through the Sty1 pathway ( Figure 4) (Kang et al., 2007).
Co-translational assembly of protein complexes is a common albeit specific phenomenon in fission yeast (Duncan & Mata, 2011). Sty1 has been shown to interact with three mRNAs, cip2 and pyp2 and its own mRNA ( Figure 4) (Duncan & Mata, 2011). The association of Sty1 with two of its targets (i.e. Cip1 and Pyp2) (Figure 4) (Wilkinson et al., 1996;Martín et al., 2006) presumably reflects the necessity to tightly regulate the stress-related functions of the Cip2 RBP and the Pyp2 protein phosphatase (Duncan & Mata, 2011). Similarly, the concomitant assembly of the Atf1/Pcr1 heterodimer (Figure 4) (Duncan & Mata, 2011) supports the idea of a cross-protective relationship between Atf1 and Pcr1, whereby the two TFs protect each other from ubiquitination and degradation (Lawrence et al., 2007).

The Sty1 regulatory signals on translation
In response to oxidative stress global translation is halted through phosphorylation of the translation initiation factor 2a (eIF2a) (Dever et al., 2007). As shown in S. cerevisiae this post-translational event occurs at the onset of the stress response in a Gcn2/Ppk28-dependent manner (Mascarenhas et al., 2008). Another eIF2a kinase, Hri2, becomes also critical for survival upon long exposure of fission yeast cells to stress (Dunand-Sauthier et al., 2005;Zhan et al., 2002). Stress-induced activation of the Sty1 pathway triggers translation re-initiation by negatively regulating the closely related pathways of the Gcn2 and Hri2 kinases (Berlanga et al., 2010;Dunand-Sauthier et al., 2005). However, the corresponding molecular mechanisms remain unclear. It has been speculated that downstream components of the fission yeast SAPK pathway regulate the kinase activities of Hri2 and Gcn2 through direct interaction. Alternatively, the Sty1mediated ROS detoxification has been suggested as a means to indirectly inhibit the two kinases (Dunand-Sauthier et al., 2005).
Many eukaryotic species encode PKs that are activated through phosphorylation by an upstream MAPK, i.e. MAPKactivated protein kinases (MAPKAPKs) (Bilsland et al., 2004). These proteins have been linked to the post-transcriptional control of gene expression in mammals and yeast (Dahlkvist et al., 1994;Neininger et al., 2002). Fission yeast encodes two MAPKAPKs (Srk1/Mkp1 and Cmk2/Mkp2), which are calmodulin-dependent, dual specificity protein kinases (Alemany et al., 2002). Upon oxidative stress both MAPKAPKs are activated by phosphorylation in a Sty1-dependent manner (Figure 4), with the Srk1-Sty1 interaction being stronger than that of Cmk2-Sty1 (Asp & Sunnerhagen, 2003). There is no apparent link between the post-stress recovery of general translation and the kinase activity of Srk1 or Cmk2 (Asp et al., 2008). However, based on the fact that RCK2, the Cmk2 ortholog in budding yeast, phosphorylates in vitro the eukaryotic translation elongation factor 2 (eEF2), Cmk2 has been suggested as a mediator of the Sty1 regulatory signals on translation .
Additionally, Sty1 has been shown to directly interact with some translation factors, including eEF2 and the eukaryotic initiation factor 3a (eIF3a) (Asp et al., 2008). When HP levels are higher than normal, the Sty1-eIF3a interaction weakens, but the Sty1-eEF2 association remains stable (Asp et al., 2008). Global translation can be maintained without eIF3a (Asp et al., 2008) and the composition of eIF3 varies in different stress conditions to serve global and specific translation demands (Zhou et al., 2005). These findings support the idea that upon oxidative stress Sty1 allows specific cellular needs to be met by affecting primarily the initiation rather than the elongation phase of translation (Dunand-Sauthier et al., 2005).
Another mechanism employed by Sty1 to alter translation initiation and affect protein expression in response to oxidative stimuli involves the inhibition of the proteolytic cleavage of the Pabp polyA-binding protein, which is involved in shortening the polyA tail of cellular transcripts (Weeks et al., 2006).

Cell cycle progression in oxidative stress: the role of Sty1
Treatment of S. pombe cells with intermediate HP doses (0.5 mM) causes an arrest at the G2 phase of the cell cycle (Chen et al., 2008). Upon stress a common cellular mechanism to slow down the mitotic cell cycle progression at the G2/M transition involves the Sty1-mediated regulation of the Srk1 MAPKAPK (Asp & Sunnerhagen, 2003). Srk1 regulates the onset of mitosis and exhibits an inhibitory effect on the Cdc2-activating phosphatase Cdc25 (Lopez-Aviles et al., 2005). Indeed, the transcript levels of srk1, but not those of the second fission yeast MAPKAPK (i.e. cmk2), become highly increased after environmental perturbations, including oxidative stress (Chen et al., 2003;Smith et al., 2002). Notably, the expression of srk1 is regulated by the mitochondrial TF Mtf1, which has been previously linked to cell cycle control (Sun et al., 2011).
Moreover, it has been shown that the overexpression of a constitutively active form of the Cmk2 MAPKAPK results in low Cdc2 activity and eventually in G2 arrest (Alemany et al., 2002;Rasmussen & Rasmussen, 1994). In response to oxidative stress, Sty1 binds and phosphorylates Cmk2 at the single phosphorylation site (Thr-411) of the protein . Cmk2 levels change during the cell cycle, with Cmk2 expression peaking at the end of mitosis and becoming negligible at the entry into the G2 phase (Alemany et al., 2002). Due to its Sty1-dependent regulation and its localization at the growth sites of the cell, Cmk2 has been suggested to play a role in cell morphogenesis when intracellular ROS levels are high (Alemany et al., 2002).

Control of Sty1 signaling during stress recovery
If the cells are able to remediate their environment, or the stress is attenuated in one way or another, deactivation of repair pathways and restoration of growth processes must also be achieved. Therefore, the amplitude and duration of the MAPK-mediated signaling are two parameters that become tightly regulated as part of the oxidative stress response (Kyriakis & Avruch, 2001). Towards this direction, specific protein phosphatases dephosphorylate and deactivate the Sty1 SAPK to initiate the recovery phase of the response. Four PP2C-type serine/threonine phosphatases (Ptc1-4) and two tyrosine phosphatases (Pyp1-2) act in a condition-specific manner to remove phosphates from the Thr-171 and Tyr-173 residues of Sty1, respectively (Millar et al., 1995;Nguyen & Shiozaki, 1999;Shiozaki & Russell, 1995b). For instance, Pyp1 and Ptc2 are constitutively expressed and deactivate Sty1 during normal growth (Gaits et al., 1997;Shiozaki & Russell, 1995b). In heat stress the binding between Sty1 and Pyp1 is abolished to activate the MAPK, which is subsequently deactivated by Ptc1 and/or Ptc3 (Nguyen & Shiozaki, 1999).
Upon oxidative stress Pyp1, Pyp2, Ptc1 and Ptc3 deactivate Sty1 after the stress-related transcriptional program has been launched (Chen et al., 2003;Gaits et al., 1997;Millar et al., 1995). Interestingly, the attenuation of Sty1 signaling by Pyp1, Pyp2 and Ptc1 is mediated through the Sty1-Atf1 pathway, thus forming a negative feedback loop (Figure 4) (Degols et al., 1996;Wilkinson et al., 1996). Specifically upon HP stress the Ptc4 phosphatase deactivates the mitochondrial pool of activated Sty1 in a mechanism that involves the inhibition of HP-mediated cleavage of the Ptc4 mitochondrial targeting sequence ( Figure 4) (Di et al., 2012). In oxidative stress conditions the full-length form of the Ptc4 protein and the mitochondrial fraction of Sty1 are strongly associated with mitochondrial membranes (Di et al., 2012). Although the scenario that Sty1 shuttles through mitochondria in addition to its nuclear translocation awaits verification, the role of Sty1 in the mitochondrion should be related to cellular respiration (Di et al., 2012).
Furthermore, Sty1-mediated signaling is regulated at the translational level through the activity of the RACK1 ortholog Cpc2/Rkp1, which is a component of the 40S ribosomal subunit and has an important role in cell cycle progression (Nunez et al., 2010). In response to diverse stress conditions, including elevated HP levels, Cpc2 favors the translation of some downstream Sty1 targets, such as the mRNAs of pyp1, pyp2, atf1 and ctt1 (Figure 4) (Núñez et al., 2009). Although the function of Atf1 as a transcriptional activator in response to stress is not compromised in cpc2 deletion mutants (Núñez et al., 2009), Cpc2 assists the cell to scavenge elevated ROS levels through efficient translation of the ctt1 mRNA. Given that the Pmk1 and Sty1 MAPK pathways share regulatory links (i.e. the Pyp1, Pyp2 and Ptc1 phosphatases), the translational control of tyrosine phosphatases by Cpc2 should allow for the amplitude and duration of signaling mediated by these two pathways to be tightly controlled and coordinated.

Cellular adaptation to mild oxidative stress
In the presence of non-physiological but low HP concentrations, there is an increased cellular demand in enzymes that scavenge ROS and promote redox homeostasis (e.g. Ctt1, Trx1 and Trr1/Caf4). The Pap1 TF is thus activated to regulate the expression of COSG, which mainly encode enzymes that confer antioxidant protection (Chen et al., 2008).
Pap1 has a nuclear import signal (NLS) and a nuclear export signal (NES), which are recognized by the importin-a Imp1 (Umeda et al., 2005) and the exportin Crm1/Caf2 (Kudo et al., 1999) respectively. Under normal conditions, Pap1 is primarily cytosolic because Crm1 binds the NES of the Pap1 protein and mediates its nuclear export (Castillo et al., 2002;Vivancos et al., 2004).
Upon exposure to mild HP concentrations (0.07-0.25 mM) Tpx1 mediates the activation of Pap1 in a process that requires both the peroxidatic and resolving cysteines of the enzyme (Vivancos et al., 2005). The process presumably involves the formation of an intermolecular disulfide bond between Tpx1 (Cys-48) and Pap1 (Cys-501 or Cys-532) (Vivancos et al., 2005). Transduction of the HP signal from Tpx1 to Pap1 induces a conformational change to the TF, which results in the dissociation of Pap1 from the Crm1-Hba1 nuclear export machinery ( Figure 6) (Castillo et al., 2002(Castillo et al., , 2003Vivancos et al., 2004). Notably, Tpx1 and Pap1 undergo thiol oxidation at similar times with other protein thiols (García-Santamarina et al., 2011).
After its nuclear accumulation, Pap1 regulates the expression of most COSG ( Figure 6) (Chen et al., 2008) through binding on the consensus nucleotide sequence 5 0 -TTACGTAA-3 0 (Fujii et al., 2000), which slightly deviates from the consensus DNA sequence for bZIP motifs (Fujii et al., 1998). Moreover, the promoter regions of genes being under the control of Pap1 in mild HP (and menadione) stress are enriched for a distinct sequence motif (5 0 -GCTTAC-3 0 ) (Chen et al., 2008). To some extent, induction of Pap1 targets requires the formation of a heterodimer between the oxidized Pap1 protein and Prr1 ( Figure 6) (Calvo et al., 2012;Chen et al., 2008). It has been speculated that oxidation of Pap1 exposes a Prr1-interacting domain, which leads to the enhancement of the Pap1 affinity for antioxidant promoters (Calvo et al., 2012).
In fission yeast, Int6 is a conserved subunit of the eIF3 and has been linked to the promotion of general translation and proper Sty1-mediated signaling in response to different types of stress (Udagawa et al., 2008). A truncated version of the Int6 subunit, Int6CT, has been shown to activate Pap1dependent transcription by an alternative mechanism, which does not involve a redox-mediated conformational change or nuclear accumulation of the Pap1 protein (Jenkins et al., 2005). However, the mechanism itself and whether the Int6CT-mediated activation of Pap1 reflects an aspect of normal cell physiology remain elusive.
In mild HP stress conditions the multiple phosphorelay system and the SAPK pathway are active, and either of the Wis1 and Win1 MAPKKKs interacts with Mcs4 to transduce the stress signal to Sty1 -as opposed to intermediate HP stress, where both MAPKKKs are required for signal transduction (Quinn et al., 2002). Moreover, it has been shown that the levels of active Sty1 increase with increasing HP concentrations (Quinn et al., 2002). Upon mild HP stress the levels of active Sty1 are thus expected to be low. The phosphorylation status of Atf1 should, therefore, be kept close to the basal levels (Lawrence et al., 2007), with the protein being under continual turnover through the ubiquitinproteasome system ( Figure 6) (Lawrence et al., 2009). Although in the presence of low HP concentrations the levels of active Sty1 are low and the protein is not recruited to stress promoters, Atf1 should be able to support the weak expression of CESR genes, as previously reported for unstressed cells (Reiter et al., 2008).

Different fission yeast responses to oxidative stress of different intensity: a summarized mechanistic view
As presented throughout the manuscript, fission yeast employs different regulatory pathways and TFs to mount an effective response to oxidative stress of different intensity. This is achieved by two major mechanisms. Firstly, the Mak2-Mak3-Mpr1-Mcs4 multistep phosphorelay system specifically senses oxidative stress signals and relays them to the Sty1 MAPK (Buck et al., 2001;Quinn et al., 2011). Secondly, the redox coupling between the thioredoxin activity of the Trx1 protein and the thioredoxin peroxidase activity of the Tpx1 enzyme defines the balance between the activation of two independent pathways, the Pap1 and the Sty1 pathway.
Upon exposure to intermediate HP doses (0.25-1.0 mM) Tpx1 is required for the activation of Sty1, which initiates a transcriptional program that promotes cell survival (Veal et al., 2004). In these conditions, the temporal inactivation of Tpx1 through hyper-oxidation (Bozonet et al., 2005;Vivancos et al., 2005) is of particular importance for the response, as it allows Trx1 to reduce the Pap1 TF and other oxidized cellular proteins with a key role in damage repair (e.g. Mxr1/MsrA, peptide methionine sulfoxide reductase) (Figure 4) (Day et al., 2012). In this manner the Pap1 pathway is ''switched off'' (Bozonet et al., 2005;Vivancos et al., 2005) and the restricted capability of the HP-damaged translational machinery to de novo synthesize protective molecules is overcome (Grant, 2011). Although Pap1 (together with the Prr1 RR) is the main regulator of gene expression in mild HP stress (50.25 mM), the expression of a small set of genes (Figure 4) depends on the cooperative activity of these two TFs even in intermediate HP stress (Chen et al., 2008;Quinn et al., 2011) (Quinn et al., 2002. Upon acute exposure (41.0 mM HP), the Prr1 RR and its regulation through the phosphorelay system are presumably crucial for the required stress-induced gene regulation (Quinn et al., 2011). At very high HP concentrations, Sty1 phosphorylation is increased, but the Atf1-dependent gene transcription is only slightly induced (Chen et al., 2008). This could be explained by the overall inhibition of cellular transcription, which presumably results from the extremity of the stress condition. The sensitivity of the Sty1 protein to the HP-induced oxidation could also partly explain the reduction in Atf1-mediated transcription that is observed upon exposure to high HP levels (Day & Veal, 2010).
Transcriptional regulation in HP stress becomes even more complex as new regulators are being discovered. For instance, the expression of the Hsr1 zinc-finger TF is under the control of all four regulators, Sty1-Atf1, Pap1 and Prr1, and it appears to support global gene expression upon oxidative stress (Chen et al., 2008). It has been proposed that Hsr1 is a part of a positive feedback for the response to HP stress, since it is required for the full induction of genes that are regulated by different TFs (i.e. COSG regulated by Pap1 and/or Prr1 and CESR genes regulated by Atf1) (Figures 4 and 6) (Chen et al., 2008).

Conclusions and perspectives
Cellular stress responses represent an important interaction between the cell and its environment with implications on its behavior and survival. Stress responses may serve as models for signaling pathways in general, as for instance to understand how natural genetic variability affects intracellular signal processing. To understand the mechanisms involved in signaling for any agent, signal transducers and their physical interactions within the highly interactive networks of the cell have to be precisely defined. Moreover, construction of mechanistic models describing cellular signaling necessitates knowledge on the number, identity and subcellular localization of the PKs and additional proteins that are activated in response to a given stimulus.
In humans, redox imbalance is associated with aging, cancer, Alzheimer's and Parkinson's disease among others. Therefore, studies investigating the cellular mechanisms employed in response to oxidative stress have markedly increased in recent years, especially using model organisms. Fission yeast is well suited for such studies given the high degree of complexity and sophistication of the pathways it employs in response to oxidative stimuli. Despite the wealth of existing knowledge, some aspects of the fission yeast response to HP stress require further investigation. For instance, existing in silico predictions on Csx1 targets (Pancaldi & Bähler, 2011) and predicted interactions between the Mak1-3 proteins and a number of TFs (Pancaldi et al., 2012) need to be validated. To refine the current view of transcriptional regulation in oxidative stress, the binding specificities of the less studied transcriptional regulators that are highly induced upon HP exposure (Chen et al., 2003(Chen et al., , 2008 need to be defined as well.
Nevertheless, the fission yeast oxidative stress response has been studied in sufficient detail to allow the development of new experimental and computational methods, which can be verified based on the framework of available knowledge. Understanding the fission yeast inner workings will empower research into more complex systems that control stress response networks in human cells.