Plants respond to and defend themselves against a wide range of disease-causing microbes. In order to do so, massive reprogramming of cellular protein expression patterns, which underpin various defense pathways, must occur. A family of basic leucine zipper transcription factors, called TGA factors, has been implicated in mediating this response. The TGA factors themselves are subject to complex regulation; of note, TGA1 and TGA4 are regulated via a reduction of conserved cysteines after treatment with the phenolic signaling molecular salicylic acid, which accumulates following pathogen challenge. Previous studies indicate that TGA factors physically interact in the yeast two-hybrid system with the plant-specific CC-type of glutaredoxin (Grx)-like proteins. Grx are a family of oxidoreductases that are important for maintaining the cellular redox status and often are required to modulate protein activity. The goal of this study was to ascertain the role of these Grx-like proteins in regulating TGA1 redox state. To this end, the expression patterns of several Grx genes were analyzed.<p> Quantitative-reverse-transcriptase PCR (q-RT-PCR) experiments indicated that TGA1 and TGA4 may be involved in down-regulating levels Grx-like gene transcripts after exposure to pathogens or salicylic acid (SA). Furthermore, qRT-PCR experiments also indicated that expression of some Grx-like genes is induced by SA, jasmonic acid (JA), and <i>Pseudomonas syringae</i>. Overexpression of the Grx-like protein, CXXC9, in <i>Arabidopsis thaliana</i> revealed that it is a regulatory factor in the cross-talk between vi theSA/JA pathways as it is able to suppress expression of PDF1.2, a marker for the JA defense pathway, as determined by qRT-PCR. The â-hydroxy ethyl disulfide (HED) assay was utilized to determine if the CC-type of Grx-like proteins have oxidoreductase activity <i>in vitro</i>. These studies revealed that that the Grx-like proteins do not exhibit oxidoreductase activity in this assay.

Heparan sulfate proteoglycan (HSPG) or heparan sulfate (HS) degradation may contribute to endothelial cell (EC) dysfunction in diabetes. HSPGs, syndecan and perlecan, contain a protein core with mainly HS glycosaminoglycans (GAGs) attached. HSPGs modulate growth factors and function in membrane filtering. Heparanase induction is likely responsible for diabetic HS degradation. Heparin protects endothelium and insulin regulates glucose metabolism. Our objectives were to observe HSPG changes by studying EC GAG content and gene expression of syndecan, perlecan and heparanase under hyperglycemic conditions with insulin and/or heparin treatment.<p> GAGs, including HS, were determined by the carbazole assay and visualized by agarose gel electrophoresis in porcine aortic EC cultures treated with high glucose (30 mM) and/or insulin (0.01 U/ml) for 24, 48 and 72 hours and/or heparin (0.5 µg/ml) for 72 hours. High glucose decreased cell GAGs and increased medium GAGs. GAGs increased with time in control cultures and in high glucose plus insulin treated medium. GAGs were decreased with insulin but increased with insulin or heparin plus high glucose.<p> Confluent cultured human aortic ECs were incubated with control medium, high glucose and/or insulin and/or heparin for 24 hours. Real time PCR determination showed that: high glucose increased heparanase, decreased syndecan and had no effect on perlecan mRNA; insulin or heparin with/without high glucose decreased and insulin and heparin with high glucose increased heparanase mRNA; heparin and insulin with high glucose increased but insulin decreased syndecan mRNA. Actinomycin D (10 µg/ml) inhibited heparanase and syndecan mRNA with high glucose plus insulin plus heparin and inhibited heparanase mRNA with high glucose compared to time 0 but not â-actin after addition for 0, 2, 4, 8 and 24 hours. Bioinformatic studies revealed that transcription factor Sp1 activates heparanase promoter by high glucose and may play a role in regulation of perlecan and syndecan promoters.<p> Insulin or heparin inhibited the reduction in EC GAGs and syndecan mRNA and induction in heparanase by high glucose, indicating their protective effect. Decreased GAGs by insulin may relate to the pathology of hyperinsulinemia. Transcriptional regulation by heparin and/or insulin may cause variation in gene expression of heparanase, syndecan and perlecan.

Winter wheat (<i>Triticum aestivum</i> L.), seeded in the fall, cold acclimates when exposed to low fall temperatures. Growth resumes in spring, culminating in early summer harvest. Winter wheat yield is generally 20-25% higher than spring wheat. However, winter damage/kill can reduce its yield. A better understanding of the cold acclimation/tolerance process could help in the development of improved breeding strategies for winter wheat hardiness. Transcriptional activators and specific cold regulated (COR) genes are induced as a result of exposure to low temperatures. Thus, the objective of this study was to determine the quantitative expression of three COR genes (Wcs120, Wcor410 and Wcor14b) and one transcriptional activator (WCBF1) in field-grown wheat using real-time PCR and to establish any association with LT50 (temperature at which 50% of plants are killed). Winter Norstar (vrn-A1/vrn-A1), spring Manitou (Vrn-A1/Vrn-A1) and two near-isogenic lines (Spring Norstar (Vrn-A1/vrn-A1) and Winter Manitou (vrn-A1/vrn-A1), respectively) were used in these studies. Plants were sampled on three dates (Sept. 29, Oct. 12 and Oct. 26) in the fall of 2004. Accumulation of WCBF1 transcripts was highest in Norstar, but in all four genotypes there was an increase in transcripts by the second sampling date, followed by a decline on the third sampling date. Wcs120 transcripts increased from the first to the third sampling date in Norstar, Spring Norstar and Winter Manitou, but increased to the second sampling date and decreased by the third in Manitou. For Wcor14b, generally there was an increase to the second sampling date, followed by a decrease or steady levels on the third. Wcor410 showed a similar pattern, except for Spring Norstar wherein transcript levels increased by the third sampling date. With the exception of Wcor410 in Manitou, the Vrn-A1 locus affected gene expression in all genotypes. However, only Wcs120 expression followed the low-temperature tolerance pattern in these genotypes.

Transporters dynamically expressed at the mammary gland transport critical nutrients into the breast milk of nursing mothers to meet the nutritional demands of the suckling infant. However, xenobiotics may interact with these transporters to potentially alter the nutrient composition of milk and compromise neonatal nutrition. The aim of the present study was to quantitatively evaluate the constitutive expression of various nutrient transporters in whole mammary gland tissue and mammary epithelial organoids (MEO) isolated from female Sprague-Dawley rats at various stages of pregnancy, lactation, and involution. Furthermore, the studys aim was to determine if appropriately cultured mammary epithelial organoids (MEO) maintain in vivo transporter expression to lay down critical groundwork for the development of an in vitro screening tool assessing xenobiotic-nutrient transporter interactions. The following transporters were evaluated using quantitative real-time reverse transcription polymerase chain reaction (QRT-PCR): multidrug resistance protein (Mdr) 1a, 1b; multidrug resistance-like protein (Mrp) 1; organic cation transporter (Oct) 1; organic cation/carnitine transporter (Octn) 1, 2, and 3; concentrative nucleoside transporter (Cnt) 1, 2, and 3; equilibrative nucleoside transporter (Ent) 1, 2, and 3; nucleobase transporter (Ncbt) 1 and 2; oligopeptide transporter (Pept) 1 and 2; methotrexate carrier (Mtx) 1; divalent metal transporter (Dmt) 1; and the milk protein ?-casein. Transporter expression patterns in MEO differed from whole tissue for ?-actin, Mdr1a, Mdr1b, Oct1, Octn3, Ent3, Cnt1, Cnt3, Ncbt1, Pept2, Mtx1, and ?-casein. This brings into question whether whole mammary gland tissue is truly appropriate for an understanding of transporter expression in the mammary epithelium. Nevertheless, four general transporter expression patterns emerged in isolated MEO: decline throughout lactation (Mdr1a, Mdr1b, Mrp1 & Dmt1), increase throughout lactation (Cnt1 & Octn3), increase in early lactation (Oct1, Octn2, Ent1, Cnt2, Cnt3, Pept2 & Mtx1) and constant expression throughout lactation (Octn1, Ent2, Ent3, Ncbt1, Ncbt2 & Pept1). These expression patterns will provide insight into the critical windows of nutrient delivery to the breast milk to provide adequate nutritional stimuli to the suckling infant. Furthermore, MEO cultured in an extracellular matrix-rich environment maintained transporter expression at the mRNA level, which underscores the potential of the primary MEO in vitro model system as a screening tool for xenobiotic-transporter interactions at the mammary gland. Transporter expression patterns in MEO were unique for each transporter evaluated. This information accompanied by an in vitro screening tool may allow for predictions of xenobiotic interference with breast milk composition to help safeguard infant health.

Heparan sulfate proteoglycan (HSPG) or heparan sulfate (HS) degradation may contribute to endothelial cell (EC) dysfunction in diabetes. HSPGs, syndecan and perlecan, contain a protein core with mainly HS glycosaminoglycans (GAGs) attached. HSPGs modulate growth factors and function in membrane filtering. Heparanase induction is likely responsible for diabetic HS degradation. Heparin protects endothelium and insulin regulates glucose metabolism. Our objectives were to observe HSPG changes by studying EC GAG content and gene expression of syndecan, perlecan and heparanase under hyperglycemic conditions with insulin and/or heparin treatment.<p> GAGs, including HS, were determined by the carbazole assay and visualized by agarose gel electrophoresis in porcine aortic EC cultures treated with high glucose (30 mM) and/or insulin (0.01 U/ml) for 24, 48 and 72 hours and/or heparin (0.5 µg/ml) for 72 hours. High glucose decreased cell GAGs and increased medium GAGs. GAGs increased with time in control cultures and in high glucose plus insulin treated medium. GAGs were decreased with insulin but increased with insulin or heparin plus high glucose.<p> Confluent cultured human aortic ECs were incubated with control medium, high glucose and/or insulin and/or heparin for 24 hours. Real time PCR determination showed that: high glucose increased heparanase, decreased syndecan and had no effect on perlecan mRNA; insulin or heparin with/without high glucose decreased and insulin and heparin with high glucose increased heparanase mRNA; heparin and insulin with high glucose increased but insulin decreased syndecan mRNA. Actinomycin D (10 µg/ml) inhibited heparanase and syndecan mRNA with high glucose plus insulin plus heparin and inhibited heparanase mRNA with high glucose compared to time 0 but not â-actin after addition for 0, 2, 4, 8 and 24 hours. Bioinformatic studies revealed that transcription factor Sp1 activates heparanase promoter by high glucose and may play a role in regulation of perlecan and syndecan promoters.<p> Insulin or heparin inhibited the reduction in EC GAGs and syndecan mRNA and induction in heparanase by high glucose, indicating their protective effect. Decreased GAGs by insulin may relate to the pathology of hyperinsulinemia. Transcriptional regulation by heparin and/or insulin may cause variation in gene expression of heparanase, syndecan and perlecan.

Plants respond to and defend themselves against a wide range of disease-causing microbes. In order to do so, massive reprogramming of cellular protein expression patterns, which underpin various defense pathways, must occur. A family of basic leucine zipper transcription factors, called TGA factors, has been implicated in mediating this response. The TGA factors themselves are subject to complex regulation; of note, TGA1 and TGA4 are regulated via a reduction of conserved cysteines after treatment with the phenolic signaling molecular salicylic acid, which accumulates following pathogen challenge. Previous studies indicate that TGA factors physically interact in the yeast two-hybrid system with the plant-specific CC-type of glutaredoxin (Grx)-like proteins. Grx are a family of oxidoreductases that are important for maintaining the cellular redox status and often are required to modulate protein activity. The goal of this study was to ascertain the role of these Grx-like proteins in regulating TGA1 redox state. To this end, the expression patterns of several Grx genes were analyzed.<p> Quantitative-reverse-transcriptase PCR (q-RT-PCR) experiments indicated that TGA1 and TGA4 may be involved in down-regulating levels Grx-like gene transcripts after exposure to pathogens or salicylic acid (SA). Furthermore, qRT-PCR experiments also indicated that expression of some Grx-like genes is induced by SA, jasmonic acid (JA), and <i>Pseudomonas syringae</i>. Overexpression of the Grx-like protein, CXXC9, in <i>Arabidopsis thaliana</i> revealed that it is a regulatory factor in the cross-talk between vi theSA/JA pathways as it is able to suppress expression of PDF1.2, a marker for the JA defense pathway, as determined by qRT-PCR. The â-hydroxy ethyl disulfide (HED) assay was utilized to determine if the CC-type of Grx-like proteins have oxidoreductase activity <i>in vitro</i>. These studies revealed that that the Grx-like proteins do not exhibit oxidoreductase activity in this assay.

Equine infectious anemia virus (EIAV) is an important animal model to study the contribution of macrophages in viral persistence during lentiviral infections. EIAV is unique amongst the lentiviruses in that it causes a rapid, rather than the very slow disease progression, characteristic of other lentiviral infections. The accessory gene, S2, unique to EIAV, is an important determinant in viral pathogenesis. A functional S2 gene is required to achieve high-titer viremia and the development of disease in infected horses. Despite its essential role, the mechanisms by which S2 influences EIAV pathogenesis remain elusive. The goal of this research was to gain insight into the role of S2 in pathogenesis. To accomplish this goal we: (i) Examined the effects of EIAV and its S2 protein in the regulation of the cytokine and chemokine responses in macrophages, (ii) Assessed the influence of EIAV infection and the effect of S2 on global gene expression in macrophages and (iii) Identified host cellular proteins that interact with S2 as a starting point for the identification of host factors implicated in S2 function. The results from this study provide evidence for a role of S2 in enhancing a proinflammatory cytokine and chemokine response in infected macrophages. Specifically, S2 enhances the expression of IL-1 alpha, IL-1 beta IL-8, MCP-2, MIP-1 beta, IP-10 and a newly discovered cytokine, IL-34. Involvement of S2 in cytokine and chemokine dysregulation may contribute to disease development by optimizing the host cell environment to promote viral dissemination and replication. Microarray analyses revealed an interesting set of differentially expressed genes upon EIAV infection. Genes affected by EIAV were involved in the immune response, transcription, translation, cell cycle and cell survival. Finally, we used the yeast two-hybrid system to identify S2 host cellular interacting proteins. We identified osteosarcoma amplified 9 (OS-9) and proteasome 26S ATPase subunit 3 (PSMC3) proteins as interacting partners of S2. Additional evidence is needed to demonstrate the physiological relevance of these interactions in vivo. In summary, the results from this study contribute towards our understanding of the role S2 in disease expression and allow the formulation of new hypotheses as to the potential mechanisms of action of S2 during EIAV infection.

RNA-binding proteins (RBP) shuttle between cellular compartments either constitutively or in response to stress and regulate localization, translation and turn over of mRNAs. In our laboratory, cytosolic proteome map of Phanerochaete chrysosporium was established and upon Pb exposure, the changes in cytosolic protein expressions were determined. The identified RBPs were a newly induced polyadenylate-binding protein (RRM superfamily) as well as two up-regulated proteins, namely splicing factor RNPS1 and ATP-dependent RNA helicase, all being very important candidates of post-transcriptional control in response to stress. This finding inspired us to conduct Real Time PCR studies in order to have a better understanding of the changes in the expression of corresponding genes at mRNA level in response to Pb exposure, thus the present study aims at examining the effect of lead exposure on the transcript levels of the genes coding for ATP-dependent RNA helicase, splicing factor RNPS1 and polyadenylate binding protein. As shown via expression analysis based on Real Time PCR, the mRNA level of splicing factor RNPS1 showed 2.68, 2.62 and 4.86 fold increases in a dose-dependent manner when the cells were grown for 40 h in the presence of 25, 50 and 100 &micro / M Pb, repectively. ATP-dependent RNA helicase mRNA level showed no significant increase in response to 25 &micro / M Pb exposure while increased 2 and 1.84 fold in response to 50 and 100 &micro / M Pb, respectively. Polyadenylate binding protein mRNA levels revealed no significant increase when exposed to 25, 50 and 100 &micro / M Pb. As to the mRNA dynamics as a function of duration of lead exposure, the mRNA level of this protein showed 2.54-fold increase upon 1 h exposure to 100 &micro / M Pb. Splicing factor RNPS1 mRNA level showed a significant increase of 19.22 fold at 2nd h of 50 &micro / M Pb exposure. Expression level of ATP-dependent RNA helicase was not affected by the time of exposure to Pb.

In the present investigation, microarray analysis was used to identify potential TCDD gene targets. Three microarray experiments were performed to study the effect of TCDD in an established chicken B-cell line (DT40), in a chicken macrophage cell line (HD11), and in the bursa of Fabricius from embryos exposed in ovo at 6 days of incubation. From the DT40 microarray analyses, clones with sequence similarity to the apoptotic genes caspase 8 and caspase 9, and the transcription factor NF&#924;B, among others, were identified. Real-time quantitative polymerase chain reaction (RT-PCR) revealed that TCDD elicits aryl hydrocarbon receptor (AhR)-mediated apoptosis in the avian DT40 pre-B-cell line through activation of caspases 9 and 3 (see chapter III). During the course of the HD11 microarray analyses, a consistent down-regulation of the matrix metalloprotease MMP-2 was observed. This finding was the basis for the hypothesis that TCDD has an effect on the gene expression of the MMP-2 and MMP-9 in macrophages. Then, gene expression analysis and functional zymography showed that TCDD impairs the MMP-2 and MMP-9 response to LPS stimulation in HD11 chicken macrophages (see chapter V). The microarray analyses of the embryonic bursa of Fabricius provided the basis to further study of the effect of TCDD in the chicken embryo. The shifted genes were classified according to their function. The down-regulated genes included: precursor of matrix metalloprotease-inhibitor, histone acyl-transferase 1, homeobox protein CUX-2, Death Associated Protein Kinase, and UDPglucosyl transferase, among others. The up-regulated genes included: phosphoinositidespecific phospholipase, acyl Co-A oxidase, and protein effector of Cdc42, among others. Together, these microarray analyses produced a database of genes of interest that will provide sufficient hypotheses to inspire multiple investigations aimed at confirming and refining the gene expression alterations as a consequence of TCDD exposure.

Microbial water quality is generally assessed using fecal indictor organisms; however host-specific microbial source tracking (MST) methodologies can be employed to differentiate sources of fecal pollution. The central goal of this research was to develop and validate a QPCR assay for the quantification of two human-specific polyomaviruses (HPyVs) in environmental water samples. These viruses are prevalent worldwide and produce lifelong, asymptomatic viruria in immunocompetent individuals. A Taqman® quantitative PCR (QPCR) assay based on the conserved T-antigen of two HPyVs (JCV and BKV) was developed and optimized (Chapter 2). HPyVs were detected in a high proportion of human-associated waste samples (e.g. sewage) and were not detected in animal excrement samples (Chapter 2). The effects of ultraviolet radiation, temperature, and salinity on the persistence of HPyVs in water were reported in Chapter 3. Laboratory studies analyzing the effects of various UV doses, temperatures, and/or salinities demonstrated high doses of UV were required to significantly decrease the detection of HPyVs DNA and salinity stabilized pure cultures of HPyVs virus particles at high temperatures (25°C and 35°C). Solar radiation as well as potential predation from microorganisms in sewage significantly reduced the persistence of HPyVs DNA in outdoor mesocosm studies (Chapter 3). An improved method to extract human polyomavirus (HPyVs) DNA from environmental water samples was developed, and the recoveries were larger and more consistent over a range of DNA concentrations as compared to the standard protocol (Chapter 4). In the California beaches study (Chapter 4), the presence of HPyVs by either QPCR or PCR had a high degree of matching results with the adenoviruses (83-91%), Methanobrevibacter smithii marker (82-92%) and moderate degree of matching results with the human-associated Bacteroidales spp. marker (57-80%) (Chapter 4). HPyVs were detected in the presence of various pathogens including: Giardia spp., Cryptosporidium spp., Vibrio spp., enteroviruses, and noroviruses (Chapter 5). The presence of HPyVs in relatively high concentrations of sewage and the specificity of HPyVs combined with the relatively conservative persistence of HPyVs when exposed to environmental conditions and the correlation of HPyVs with pathogens demonstrates that this assay is a useful MST method to detect human sewage.