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Ciguatoxins (CTXs) are polyether marine neurotoxins and potent activators of voltage-gated sodium channels. This toxin is carried by multiple reef-fish species and human consumption of ciguatoxins can result in an explosive gastrointestinal/neurologic illness. This study characterizes the global transcriptional response in mouse brain to a symptomatic dose of the highly toxic Pacific ciguatoxin P-CTX-1 and additionally compares this data to transcriptional profiles from liver and whole blood examined previously. Adult male C57/BL6 mice were injected with 0.26 ng/g P-CTX-1 while controls received only vehicle. Animals were sacrificed at 1, 4 and 24 hrs and transcriptional profiling was performed on brain RNA with Agilent whole genome microarrays. RT-PCR was used to independently validate gene expression and the web tool DAVID was used to analyze gene ontology (GO) and molecular pathway enrichment of the gene expression data.
A pronounced 4°C hypothermic response was recorded in these mice, reaching a minimum at 1 hr and lasting for 8 hrs post toxin exposure. Ratio expression data were filtered by intensity, fold change and p-value, with the resulting data used for time course analysis, K-means clustering, ontology classification and KEGG pathway enrichment. Top GO hits for this gene set included acute phase response and mono-oxygenase activity. Molecular pathway analysis showed enrichment for complement/coagulation cascades and metabolism of xenobiotics. Many immediate early genes such as Fos, Jun and Early Growth Response isoforms were down-regulated although others associated with stress such as glucocorticoid responsive genes were up-regulated. Real time PCR confirmation was performed on 22 differentially expressed genes with a correlation of 0.9 (Spearman's Rho, p < 0.0001) with microarray results.
Many of the genes differentially expressed in this study, in parallel with the hypothermia, figure prominently in protection against neuroinflammation. Pathologic activity of the complement/coagulation cascade has been shown in patients suffering from a chronic form of ciguatera poisoning and is of particular interest in this model. Anti-inflammatory processes were at work not only in the brain but were also seen in whole blood and liver of these animals, creating a systemic anti-inflammatory environment to protect against the initial cellular damage caused by the toxin.
Ciguatoxins (CTXs) are a suite of heat stable, lipid soluble, cyclic polyethers produced by benthic marine dinoflagellates of the genus Gambierdiscus . These toxins activate voltage-gated sodium channels (VGSCs) , are bioaccumulated and metabolized to increasingly potent toxins through trophic transfer in reef associated fish , and are responsible for causing ciguatera fish poisoning (CFP) in humans, affecting an estimated 50,000 - 100,000 people each year . CFP is characterized by acute gastrointestinal and neurological symptoms, including vomiting, diarrhea, abdominal pain, severe localized itching, tingling of extremities and lips, and thermal dysthesia. While gastrointestinal symptoms typically resolve within few days, other symptoms of CFP can last from several weeks to, in some cases, several years . These long term symptoms can include fatigue, weakness, depression, as well as hypersensitivity to repeated exposure, and recurrence of symptoms that may occur upon consumption of non-toxic fish or alcohol .
Suites of CTX congeners have been distinguished, with minor differences in their cyclic polyether backbone. As reviewed by Lewis , Pacific CTXs (P-CTX) have thirteen fused rings, with either a seven (Type 1) or eight (Type 2) member ring in the E position (Figure (Figure1).1). CTX congeners are differentiated within each type by the hydroxyl groups at their A- or M-ring, and exclusively for the type-1, the four carbon saturated side chain extending from the A-ring. Differences in the R-groups of the type 1 P-CTX change the partition coefficient of the molecule by more than three orders of magnitude (NCBI PubChem Compound log P value of 2.5 for P-CTX-1 and 5.7 for P-CTX-4B). P-CTX-4B, the most lipophilic identified ciguatoxin, is a primary product of the algae while P-CTX-1, more polar, is a fish metabolite and 16-fold more potent than P-CTX-4B . Other families of ciguatoxins have also been isolated from the Caribbean and Indian Ocean [8,9]. The former has fourteen fused rings; the later has not been structurally elucidated. In the Pacific Ocean, neurological symptoms dominate. Indian Ocean CFP is similar to the Pacific with the addition of hallucinogenic symptoms while gastrointestinal symptoms predominate in the Caribbean . P-CTX-1 is the most potent known ciguatoxin and reported to cause human illness at 0.1 ppb . It is a major congener found in carnivorous fish of the region and is thought to be a significant source of CFP in the Pacific .
The action of CTX isolated from a Gambierdicus toxicus culture, from the Martinique clone MQ2, was previously investigated in mice [12,13]. The toxin induced a rapid decrease in core body temperature that persisted for several hours with a corresponding induction of c-Fos mRNA in brain. Immunostaining for c-Fos-like immunoreactivity, showed positive immunoreactivity in only select brain regions including the medial preoptic and supraoptic nuclei of the hypothalamus and certain regions of the brain stem including the locus coeruleus, dorsolateral parabranchial nucleus, area postrema and the nucleus of the solitary tract. This study indicated that Caribbean ciguatoxin(s) produced by the algae had neuroexcitatory actions on several autonomic hypothalamic and brain stem regions, many of which appeared to be mediated by ascending projections.
Recent studies of acute CTX effects in mice have been conducted with the more potent and polar P-CTX-1 to examine toxicogenomics during a 24 hour period, which coincides with observable symptoms. P-CTX-1 exposure resulted in a rapid central response to lower body temperature and reduced motor activity, and a more persistent effect on spinal heat antinociception and delayed fever-like response . Gene expression studies were conducted in parallel to characterize the immune response by examining whole blood, as well as potential detoxification pathways in the liver of these same animals. Through both proteomic and transcriptomic analysis of whole blood, there was evidence of an anti-inflammatory Th2 immune response , which is thought to be neuroprotective and may be advantageous to preventing neuronal damage during exposure to CTX. In the liver we identified differential expression of several genes involved in phase 1 and phase 2 detoxification pathways . With such a high density of sodium channels in the brain, even limited ciguatoxin penetration makes this an interesting tissue to examine. The current study was designed to investigate responses of the brain to P-CTX-1 using oligonucleotide microarrays and real-time PCR. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) molecular pathway analysis were performed to identify possible enrichment of genes with specific biological themes.
The animals used in this study were also analyzed in two companion papers looking at the transcriptomic response to CTX in blood and liver, for further details of symptoms see [15,16]. The treated mice all displayed hallmark symptoms of CTX exposure including hypothermia and hypoactivity while control animals displayed no obvious symptoms. All treated mice showed a rapid depression in core body temperature, which reached a minimum of 33°C at 1 h and slowly returned to basal temperature (37°C) by 8 hr.
Raw and processed gene expression data have been deposited in NCBI's Gene Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo/, GEO Series accession number GSE20949). Triplicate Agilent whole mouse genome arrays from each time point (1, 4, and 24 h) underwent weighted averaging by Rosetta Resolver software to produce an average differential expression ratio for every gene at each time point. As different cutoffs for quality filtering for microarray data can provide different insights, we subjected our data to three different levels of stringency filters: high (1.7 fold change, p < 10-5 and signal > 70 counts in both channels); medium (1.7 fold change, p < 10-5); and low (1.5 fold change, p < 0.0005) in at least one time point for a feature to be called significant, and then analyzed each data set individually. Of the 41,234 sequence probes on the array, totals of 550, 707, and 1,625 (Additional file 1), respectively, were found to be significantly differentially expressed. Although there are cases on the array where more than one probe is used to query different parts along the sequence of a single gene, and in some instances, identical probes to the same gene are replicated mainly for QC purposes, the vast majority of genes are queried using a single probe with the Agilent platform. Similar to earlier transcriptional profiling in blood and liver of the same CTX exposed animals, the majority of differential expression was seen at the 4 hr time point.
The use of different stringency filters, in this case, produced data sets with similar results throughout the analysis. For brevity, and more importantly a lack of appreciable differences, we did not present each set individually in all the figures and tables, but did present results from each level of quality filter. Clustering of the data resulting from each stringency filter was performed by K-means using 2 different metrics, Euclidian and Pearson, to identify genes with similar expression patterns (Figure (Figure2).2). Membership in a cluster can provide insight into the activation of specific pathways, and crosstalk between pathways. The use of two different metrics for the K-means algorithm can identify different patterns of similarity, which is helpful for interpreting coordinated gene expression. The Pearson metric clusters genes with an emphasis on profiles of similar shape and direction while the Euclidian metric places an emphasis on absolute distance between expression values. Use of the different metrics produced slightly different cluster membership, as illustrated for the medium stringency filter data in Figure Figure2.2. This in turn produced slightly different ontology and pathway enrichment results as well (Table (Table11).
GO (gene ontology) analysis using DAVID (Database for Annotation, Visualization of Integrated Discovery)  can identify over representation of GO categories, which can give insight into mechanisms responsive to ciguatoxin. The resultant gene data from each stringency filter was used as a whole but tended to produce non-specific, although significant, results such as the GO categories "metabolic process" and "binding". Analysis of individual K-means clusters was more informative. Overall, the described stringency and clustering metrics differed only slightly in resultant GO enrichment. Regardless of clustering metric or stringency, the genes of the up-regulated cluster (Figure (Figure2b2b &2h) showed no significant enrichment for any GO category. The other clusters (Figure 2d, f, g), however, were more revealing. GO analysis of high, medium and low stringency filters, for both Euclidean and Pearson metrics, were similar, with only the medium stringency data shown (Table (Table1).1). As a result of the different metrics, some genes fell into different clusters producing different GO results, and no significant results occurred for cluster 1C, using the Pearson metric. When taken together, the most significant ontology classifications were for acute inflammatory response, response to external stimulus, and response to wounding, regardless of clustering metric or stringency filter.
KEGG pathway analysis of the 1,625 low stringency genes showed significant enrichment (p < 0.05) for three molecular pathways: complement/coagulation cascades, linoleic acid metabolism and metabolism of xenobiotics (Table (Table2).2). The last 2 pathways are dominated with cytochrome p450 enzymes, or Cyps. Cyps are reductases and oxidases critical to metabolism of xenobiotic compounds such as drugs and the toxin used here. Many of the Cyp isoforms found in brain in this study are also found in liver and are discussed in detail in the companion paper Morey et al, describing gene expression in the liver of these animals, the major site for metabolism of xenobiotics . DAVID analysis of medium and high stringency data revealed enrichment of 5 pathways, including the 3 resulting from the low stringency set, as well as two new ones, arachidonic acid metabolism and γ hexachlorocyclohexane degradation, both Cyp rich. Analysis of individual clusters strengthened the significance (lower p-values) of these pathways, but did not add any new insights.
The enriched molecular pathways and GO categories identified at all stringency levels for this data were predominantly driven by genes in the cluster down-regulated at 4 hrs and strongly up-regulated at 24 hrs (Figure (Figure2d2d and and2f).2f). The dramatic fold change seen here could be due in part to low expression levels for most of these genes, such that small changes in fluorescence intensity result in large fold-changes that may overestimate their responses. This is the main reason we added a minimum intensity criterion to our most stringent filter, minimizing false positives. In addition to genes involved in complement and coagulation pathways, and cytochrome p450 genes, there are several genes of the mouse major urinary protein family, or Mup, found in this down-regulated cluster. Mups are small ligand binding proteins best known for their role in excretion of pheromones. The differential expression of these genes is probably a result of chemosignalling induced by the stress of the experiment, with a relative lag in induction created by the hypothermia of treated animals. The binding pocket of Mups will accommodate a variety of small hydrophobic pheromone ligands, typically one quarter the size of ciguatoxin , but it would be interesting to determine if these proteins may be able to bind and excrete hydrophobic ciguatoxins.
For each tissue, the low stringency conditions, (1.5 fold change, p < 0.0005) were used to filter for significant gene probes. This resulted in 17 probes that were differentially regulated and common to all tissues (Table (Table3).3). There were two instances of different, but similarly reporting, probes for the genes FK506 bp and Gag protein, reducing our unique gene total to 15. In general, these genes were regulated in the same direction for the three tissues assayed at 1 and 4 hrs. However, at 24 hrs, there was no statistically significant differential expression for these 15 genes in brain, only 2 significant changers in liver, and 1 in blood. When two of the three tissues had statistically significant differential gene expression at any time point, all three tissues were consistently regulated in the same direction as shown in Table Table3,3, with two exceptions. C/EBP was significant at both 1 and 4 hours in all three tissues, although in brain and liver the gene was up-regulated at both time points, while in blood it was down-regulated at both time points. Arginase1 was significantly up-regulated in blood and liver but down in brain at 4 hrs.
Twenty-two genes were selected for verification by real-time PCR, including transmembrane protein 59 used for normalization (Figure (Figure3).3). Overall, the changes in gene expression measured by qPCR strongly supported the microarray results, with a correlation of 0.90 across the time series (Spearman's Rho, p < 0.0001, n = 66). Correlations at individual time points decreased throughout the time series with a maximum correlation of 0.91 (Spearman's Rho, p < 0.0001, n = 22) observed at 1 hr. Correlations decreased to 0.89 (Spearman's Rho, p < 0.0001, n = 22) or 0.65 (Spearman's Rho, p = 0.0011, n = 22) at the 4 and 24 hr time points, respectively. The fact that many of the genes validated exhibited very minor changes at the 24 hr time point is likely the cause of decreased correlation, as has been previously observed . Overall, the direction of change reported by qPCR and microarray agreed for 59 of 66 samples and, with one exception, the observed fold change was less than 1.2 when the methods disagreed.
This study examines the genomic response in brain to a sub-lethal dose of the potent marine neurotoxin, P-CTX-1. The neurotoxic action of CTX is attributed to its activation of voltage-gated sodium channels (VGSCs) in peripheral and central nervous systems and cardiac, smooth and striated muscle, which collectively impact multiple organ systems . Ciguatoxin is also associated with action on other systems, such as immune cells , not traditionally viewed as excitable. The brain provides a fascinating organ for investigation of ciguatoxin action because of its regional specialization, universal expression of voltage-gated sodium channels on neurons and certain glial cells, direct and humoral input from the periphery and a specialized immune system. Yet, other aspects of the brain provide complications to such analysis, such as regional differences in permeability to toxic agents and a strong hypothermic response to ciguatoxin in mice that is rarely reported in humans.
CTX-treated mice displayed a rapid 4°C decrease in core body temperature, which reached a minimum at 1 hr and slowly returned to baseline by 8 hr. Other marine polyether toxins, including maitotoxin and brevetoxin, cause similar acute stage hypothermia in mice [22,23] as do a variety of other xenobiotics including heavy metals, ethanol and organophosphates . Many studies have shown hypothermia to positively impact recovery from traumatic injury and this hypothermic response appears to be a programmed protective mechanism against toxic insult. A recent review of beneficial effects of induced hypothermia after neurological injury cited four key elements for success: 1) speed of induction, with better outcomes in animals when cooling commences shortly after injury, 2) duration of cooling, which depends on degree of injury, 3) speed of rewarming, which should be slow, otherwise destructive processes will be reinitiated, and 4) management of side effects . Animals in this study showed a rapid induction of hypothermia, with maximal cooling one hour after toxin exposure. Their return to normothermia took 7 hrs, relatively protracted compared to initiation. The protective mechanisms of hypothermia after brain trauma are well documented and include suppression of excitotoxicity, free radical production, intercellular signaling cascades, cerebral metabolism, neuroinflammation, blood brain barrier disruption, and seizure activity, as well as stabilizing membranes and cytoskeletal elements, in addition to modification of early gene expression .
Immediate early genes (IEGs) are a class of genes that quickly respond to a wide range of stimuli and also regulate a wide variety of functions. Primarily transcription factors, these genes such as Fos, Jun and Early Growth Response (EGR) isoforms can be found active in most acute gene expression studies. One study of hypothermia in rats proved to dramatically reduce the expression of IEGs after brain injury, but only to the level of control animals . What is interesting in this study is that these genes, in particular, c-Fos, Jun B, Immediate early response 2 (Ier2), nuclear receptor 4A (Nr4a1), transcription factor NXF (NXF), Early growth response 1 (EGR1), EGR2, EGR4 are all significantly down-regulated at 1 and 4 hrs compared to controls. Many of these genes were independently validated by RT-PCR with similar results (Figure (Figure3).3). In contrast, an earlier investigation of a Caribbean CTX isolated from algae, indicated a transient induction of c-Fos mRNA by northern analysis that paralleled a reduction of core body temperature . In that study, immunohistochemistry for the Fos protein showed limited regional expression in hypothalamic and brain stem nuclei. It is possible that the Caribbean CTX used previously is less polar than P-CTX-1 used in the current study, where cFos is down-regulated, and therefore may have greater brain penetration. Comparable studies with the marine algal toxin domoic acid, a glutamate analog not known to cause hypothermia, produced acute up-regulation of these genes in the brain  and extensive expression of Fos and neuroexcitatory damage throughout the limbic system [28-31]. Domoic acid induced responses of immediate early genes parallel their rapid induction in brains of animals following hypoxia-ischemia, and are thought to play a role in the death cascade of sensitive neurons . Another study using microarrays in a mouse seizure model found 6 genes specific to seizure that were up-regulated after one hour . Three of these genes are significantly down-regulated in response to P-CTX at 1 and 4 hours, cFos, Egr1 and Nxf. A fourth, serum and glucocorticoid regulated kinase (Sgk) is up-regulated at 1 and 4 hrs while the remaining two were statistically unchanged in this study. Significantly, glucocorticoids up-regulate anti-inflammatory gene expression while also suppressing inflammatory gene expression . Glucocorticoid regulation of inflammation is ubiquitous and is reflected by a gene found significantly up-regulated at 1 and 4 hrs in all tissue studied from these animals, FK506 binding protein 5. Fk506bp5 has been shown to inhibit binding of cortisol to the glucocorticoid receptor  and its increased expression suggests tight regulation of glucocorticoid signaling in the anti-inflammatory response of these animals. Additionally, CTX has been shown to act directly on adrenal chomafin cells and increase the release of catecholamines [36,37].
Another hallmark of anti-inflammatory response in the CTX treated mice is the down-regulation of IL1β gene expression in brain at 4 h (-1.7 fold), as was also seen in liver (-5.9 fold) and blood (-2.9 fold) [15,16]. IL1β is well known for its role in inflammation and the generation of fever, its down regulation, along with the down regulation of other inflammatory cytokines, may be contributing to the hypothermic response . To further diminish IL1β signaling, the IL1 type 2 receptor is up-regulated, which is a decoy receptor that binds IL1β without any concomitant signaling, thereby sequestering the inflammatory cytokine . This same regulation of Il1β was also seen in blood of these animals. Chemokine ligand 5, Ccl5, a chemotactic signal for eosinophil and T lymphocyte recruitment into inflamed areas was also down-regulated here. Another protein indicative of inflammation is the s100 protein heterodimer A8 and A9, calgranulin. Both subunits were found significantly down-regulated at 24 hrs. Additionally, just missing our fold change cut-off, cyclooxygenase II (COX2) was also down-regulated (-1.4 fold, p = .00004) in brain at 4 hrs. Hypothermia is quite effective at suppressing inflammation, and inflammatory genes that are down-regulated seem to correlate well with the temperature suppression seen here. Concurrently, many anti-inflammatory genes, such as those involved with glucocorticoid signaling, are up-regulated acutely.
Molecular pathway analysis identified significant activity of complement and coagulation cascades. The complement system is a critical first line of defense against invading pathogens and also in the removal of cellular debris, such as necrotic tissue. The coagulation system is critical in maintaining hemostasis and together these two systems control many of the initial events in response to injury. Both systems employ cascades of serine proteases, which now have been shown to exhibit crosstalk at multiple levels, and together these systems significantly influence the magnitude and progression of inflammation in response to injury . At all levels of data stringency, these pathways were found to undergo a high degree of regulation compared to control animals. Additionally, two poorly annotated genes in the high stringency data set, that were not mapped to the KEGG pathway (Figure (Figure4),4), appear to have von Willebrand factor domains, a protein crucial to blood coagulation. The complement/coagulation pathway is of particular interest in light of recent findings in cases of chronic ciguatera illness in humans. These patients suffer from pathologic expression of activated complement component C4 as well as the essential clotting protein Factor VIII, ristocetin associated cofactor and von Willebrand's antigen itself . The expression of these pathways is sharply down-regulated after acute CTX exposure in mice and coincides with the temperature suppression, which may be prophylactic against a potentially pronounced dysregulation.
Hypo-osmotic stress, due to sodium influx caused by ciguatoxin, is thought to cause neuronal swelling, which is why the osmolyte mannitol is thought to reduce some symptoms of exposure [42,43]. NFAT5, a transcription factor found to be up-regulated in response to hyper-osmotic stress  was down-regulated at 1 hr. Interestingly, recent studies have extended the direct actions of ciguatoxins beyond neurons and into blood cells. A study using frog erythrocytes showed that ciguatoxin caused swelling and actin cytoskeletal deformation in RBCs, through nitric oxide pathways . The enzyme arginase 1 (Arg1) was one of only fifteen genes that was significantly regulated in liver, blood and brain of the P-CTX treated mice. Arg1 competes with inducible nitric oxide synthase (iNOS) for the L-arginine substrate, causing the reciprocal inhibition of these enzymes . Expression of Arg1 is induced in macrophages predominantly by anti-inflammatory Th2 cytokines while iNOS is induced by inflammatory Th1 cytokines . An in vitro study in macrophages showed ciguatoxin to stimulate an immune response, including a dramatic induction of iNOS . Although Arg1 was sharply up-regulated in blood of the CTX treated mice, it was down-regulated in brain at 4 hrs.
Fifteen genes were found to be similarly, and significantly, altered by ciguatoxin exposure in brain, liver and blood (Table (Table3).3). An interesting aspect of this comparison is the diversity of function between these tissues and the deficiency of target voltage gated sodium channels (VGSCs) in liver and leukocytes. The regulation of these genes is more likely driven by hypothermia and humoral input, rather than direct action of the toxin. In fact, many shared genes are readily identified as being immune related, such as immunity related GTPase, very large Ifn inducible GTPase, IL1β, Immunoglobulin receptor 3, Infγ inducible protein, NFκB inhibitor, and CEBPδ, which was formerly known as NF-IL6β. Cold inducible RNA binding protein (Cirbp) was up-regulated, peaking at 4 hrs in liver and brain, and then peaking in blood at 24 hrs. The differential expression of this gene is easily explained by the temperature suppression. Cirbp is a cold stress inducible protein that has been shown to protect cells from TNFα induced apoptosis . Another sign of stress response in these animals is the common up regulation of the endogenous retroviral protein Gag. Gag can initiate innate immune activity through toll like receptors; TLR7, a receptor important to innate viral response, was found in the high stringency data, up-regulated more than 2-fold in brain. However, with the down regulation of genes involved with inflammation, the acute effects of TLR signaling are probably not fully realized in these animals.
Although some of the genes in the brain induced by P-CTX-1 could indicate neuronal damage and dysfunction, these genes were not statistically over-represented, unlike the pathways discussed here. This is consistent with sensory, motor and autonomic actions of ciguatoxin that originate in the periphery. Instead, what was most apparent from this data was the suppression of inflammatory processes and activated humoral signaling. The hypothermic response coupled with down-regulation of complement/coagulation pathways and other inflammatory pathways could be involved in suppression of cerebral inflammation and edema during a critical time window after trauma. These processes were at work not only in the brain but were common to blood, liver and brain, creating a systemic anti-inflammatory environment to protect against the initial cellular damage caused by the toxin. Hypothermia is not a typical feature of human intoxications, but reports of temperature dysregulation are not unusual in ciguatera poisoning. Future work is needed to address questions raised in this study regarding potential differences in brain penetration and activation of thermoregulatory neurons by the different toxin congeners, as well as humoral contributions to temperature management.
All exposures were conducted at Duke University in accordance with institutional and NIH guidelines for the ethical care and use of laboratory animals. Adult male C57/BL6 mice were maintained on a 12 hr:12 hr light:dark cycle and were given food and water ad libitum. Radio frequency transmitters were implanted in the mice to measure core temperature and motor activity as previously published . Briefly, mice were anesthetized with ketamine HCl and a sedative analgesic, medetomidine HCl, and the transmitter (TA10TA-F40; Data Science International Sciences, St. Paul, MN) was implanted in the abdominal cavity. Following surgery, mice were administered atipamezol HCl by i.p. injection to counteract the anesthetic effect of ketamine. The mice were allowed at least 10 days of recovery before testing while animal health was monitored.
On the day of exposure, mice were weighed and randomly assigned to control or experimental groups. Three groups of control mice (n = 3) were injected i.p. with a single dose of physiological saline with 1% Tween 60 (vehicle). Three groups of experimental mice (n = 3) were injected ip with 0.26 ng/g P-CTX-1 in vehicle. P-CTX-1, obtained from Dr. Richard Lewis (University of Queensland, Australia), was purified from moray eel liver as described in Lewis et al.  with >90% purity. At 1, 4, and 24 hr post-injection, 3 experimental mice and 3 time-matched controls were anesthetized with 50 mg/ml sodium pentobarbital i.p. Brains were immediately dissected, flash frozen in liquid nitrogen, and stored at -80°C until RNA processing.
The brains of the 3 control mice for each time point were pooled prior to RNA extraction while RNA was extracted from brains of individual CTX exposed mice. The brains were crushed using a BioPulverizer (BioSpec Products, Inc., Bartlesville, OK) in liquid nitrogen. The crushed tissue was immediately placed in cooled Tri-Reagent (Molecular Research Center, Inc., Cincinnati, OH) and homogenized using a Tissue-Tearor (United Lab Plastics, St. Louis, MO) at 25,000 rpm for 1 min on ice. All homogenates were processed according to the manufacturer's protocol. RNA was resuspended in nuclease-free water and further processed using an RNeasy mini-column (Qiagen, Valencia, CA) according to manufacturer's protocol. RNA was then quantified using a NanoDrop ND-1000 (Wilmington, DE) and qualified on an Agilent 2100 Bioanalyzer (Foster City, CA).
Five hundred nanograms of total RNA from control and experimental animals was separately amplified and labeled with either Cy3 or Cy5 labeled CTP (GE Healthcare Life Sciences) using the Ambion Message Amp Amino Allyl kit according to manufacturer's protocol. Following labeling and clean up, amplified RNA and dye incorporation were quantified using a NanoDrop ND-1000. Seven hundred fifty ng each of Cy3 and Cy5 labeled targets were combined and hybridized to an Agilent catalog 44 K whole genome mouse oligonucleotide array for 17 h at 60°C. After hybridization, arrays were washed consecutively in solutions of 6X SSPE with 0.005% N-lauroylsarcosine and 0.06X SSPE with 0.005% N-lauroylsarcosine for 1 min each at room temperature. This was followed by a final 30 sec wash in Agilent Stabilization and Drying solution. Three biological replicates, including a dye swap, were performed at each time point.
The microarrays were run in a two color format where at each time point total brain RNA from 3 individual mice exposed to P-CTX-1 was compared to pooled total brain RNA from time-matched control mice (n = 3). Microarrays were imaged on an Agilent microarray scanner, extracted with Agilent Feature Extraction software version A8.5.3, and data analyzed with Rosetta Resolver 7.0 gene expression analysis system (Rosetta Informatics, Seattle, WA). Features were subjected to a combination linear and LOWESS normalization algorithm using a rank consistency filter. Resolver generated a weighted average composite array from the replicates (n = 3) for each time point based on the error model for the Agilent platform . The composite arrays were used for a trend analysis to determine the expression pattern of genes throughout the time course. The data were subjected to three levels of stringency filters, high, medium and low, to sort out possible bias due to data quality. These filters consisted of: high (1.7 fold change) + (p < 10-5) + (signal > 70 counts in both channels); medium (1.7 fold change) + (p < 10-5); and low (1.5 fold change) + (p < 0.0005) in at least one time point. Data resulting from all 3 stringency filters were clustered using K-means with both Euclidean and Pearson metrics and further analyzed using the web tool DAVID (Database for Annotation, Visualization and Integrated Discovery) . Gene ontology (GO) and KEGG molecular pathway analysis was performed to identify possible enrichment of genes with specific biological themes using both the data set as a whole and then in the individual K-means clusters. DAVID calculates a modified Fishers Exact p-value to demonstrate GO or molecular pathway enrichment, where p-values less than 0.05 after Benjamini multiple test correction are considered to be strongly enriched in the annotation category. For comparison between tissues, our low stringency filter (fc > 1.5, p < .0005) was applied to data from brain, liver and blood, to capture maximum overlap for analysis.
Differentially expressed genes of interest were selected for validation of the microarray results by quantitative real-time PCR (qPCR). Triplicate reverse transcription reactions were carried out using 500 ng total RNA with an oligo(dT) primer using Ambion's RETROscript Kit (Austin, TX). Gene specific primers (Additional file 2) were used for qPCR on an ABI 7500 using the ABI Power SYBR Green master mix (Applied Biosystems, Foster City, CA). The optimal annealing temperature for each primer set was determined prior to the analysis of experimental samples. The specificity of each primer set and size of the amplicon were verified by analysis with Agilent's Bioanalyzer 2100 and further confirmed by melting curve analysis. The efficiency of each primer set was determined using a serial dilution series of cDNA from mouse brain. Duplicate 25 μl qPCR reactions were run from each cDNA triplicate. A cycle threshold (Ct) was assigned at the beginning of the logarithmic phase of PCR amplification and the difference in the Ct values of the control and experimental samples were used to determine the relative expression of the gene in each sample. Transmembrane protein 59 (NM_029565) was used for normalization as its expression did not change significantly in microarray or qPCR experiments (Wilcoxon, p > 0.05). As data were not normally distributed (Shapiro-Wilk W test), correlation to the microarray data set was determined by Spearman's Rho using JMP version 5.1.2 (SAS Institute, Cary, NC). Gene abbreviations; basic helix-loop-helix/Per-ARNT-Sim (bHLH-Pas), Cold inducible RNA-binding protein (Cirbp), Chemokine (C-X-C motif) ligand 7 (Cxcl7), Early growth response 1 (Egr1), Early growth response 4 (Egr4), c-fos (Fos), Haptoglobin (Hp), Immediate early response 2 (Ier2), Interleukin 1 beta (Il1b), Interferon inducible protein 47 (Infi47), Jun-b (JunB), MAP kinase kinase kinase 6 (Map3k6), Nuclear Factor kappa B (NF-KappaB), Placenta specific 8 (Plac8), RNA binding motif protein 3 (Rbm3), s100a8 (s100a8), s100a9 (s100a9), Serum and glucocorticoid regulated kinase (Sgk), Serum and glucocorticoid regulated kinase 3 (Sgk3), T-cell specific GTPase (Tgtp).
(CFP): Ciguatera Fish Poisoning; (CTX): Ciguatoxin, (P-CTX): Pacific Ciguatoxin, (DAVID): Database for Annotation, Visualization and Integrated Discovery; (GO): Gene Ontology; (Inf): Interferon; (Il1β): Interleukin 1 beta; (iNOS): Inducible nitric oxide synthase; (qPCR): Real time polymerase chain reaction; (Th): Helper T cell; (VGSC): Voltage gated sodium channel
The authors declare that they have no competing interests.
JCR performed the microarray studies and analysis, and drafted the manuscript. JSM performed the RT-PCR and helped edit the manuscript. MYBD participated in the animal dosing, tissue collection and editing of manuscript. JSR participated in the design of the study and editing of manuscript. FMV participated in the design of the study and editing of manuscript. All authors read and approved the final manuscript.
This publication does not constitute an endorsement of any commercial product or intend to be an opinion beyond scientific or other results obtained by the National Oceanic and Atmospheric Administration (NOAA). No reference shall be made to NOAA, or this publication furnished by NOAA, to any advertising or sales promotion which would indicate or imply that NOAA recommends or endorses any proprietary product mentioned herein, or which has as its purpose an interest to cause the advertised product to be used or purchased because of this publication.
Processed and filtered microarray data. The processed and filtered gene expression data used for analysis.
PCR primers. Accession numbers for genes along with PCR primers and annealing temperatures used for RT-PCR validation of microarray data.
We would like to thank J. Tiedeken, M. Peterson, A. Rezvani, E. Levin and C. Gordon for help with experimental procedures and J. Lynch, M. Beal and T. Greig for helpful reviews. This work was partially funded by the NOAA Center of Excellence in Oceans and Human Health Initiative at Hollings Marine Lab.