Detection of pancreatic cancer using antibody microarray-based serum protein profiling

The driving force behind oncoproteomics is to identify protein signatures that are associated with a particular malignancy. Here, we have used a recombinant scFv antibody microarray in an attempt to classify sera derived from pancreatic adenocarcinoma patients versus healthy subjects. Based on analysis of nonfractionated, directly labeled, whole human serum proteomes we have identified a protein signature based on 19 nonredundant analytes, that discriminates between cancer patients and healthy subjects. Furthermore, a potential protein signature, consisting of 21 protein analytes, could be defined that was shown to be associated with cancer patients having a life expectancy of <12 months. Taken together, the data suggest that antibody microarray analysis of complex proteomes will be a useful tool to define disease associated protein signatures.     

Long-term follow-up in primary Sjögren’s syndrome reveals differences in clinical presentation between female and male patients

Background

Despite men being less prone to develop autoimmune diseases, male sex has been associated with a more severe disease course in several systemic autoimmune diseases. In the present study, we aimed to investigate differences in the clinical presentation of primary Sjögren’s syndrome (pSS) between the sexes and establish whether male sex is associated with a more severe form of long-term pSS.

Methods

Our study population included 967 patients with pSS (899 females and 68 males) from Scandinavian clinical centers. The mean follow-up time (years) was 8.8 ± 7.6 for women and 8.5 ± 6.2 for men (ns). Clinical data including serological and hematological parameters and glandular and extraglandular manifestations were compared between men and women.

Results

Male patient serology was characterized by more frequent positivity for anti-Ro/SSA and anti-La/SSB (p = 0.02), and ANA (p = 0.02). Further, men with pSS were more frequently diagnosed with interstitial lung disease (p = 0.008), lymphadenopathy (p = 0.04) and lymphoma (p = 0.007). Conversely, concomitant hypothyroidism was more common among female patients (p = 0.009).

Conclusions

We observe enhanced serological responses and higher frequencies of lymphoma-related extraglandular manifestations in men with pSS. Notably, lymphoma itself was also significantly more common in men. These observations may reflect an aggravated immune activation and a more severe pathophysiological state in male patients with pSS and indicate a personalized managing of the disease due to the influence of the sex of patients with pSS.

     

Cell Density Modulates Acid Adaptation in Streptococcus mutans: Implications for Survival in Biofilms

Streptococcus mutans normally colonizes dental biofilms and is regularly exposed to continual cycles of acidic pH during ingestion of fermentable dietary carbohydrates. The ability of S. mutans to survive at low pH is an important virulence factor in the pathogenesis of dental caries. Despite a few studies of the acid adaptation mechanism of this organism, little work has focused on the acid tolerance of S. mutans growing in high-cell-density biofilms. It is unknown whether biofilm growth mode or high cell density affects acid adaptation by S. mutans. This study was initiated to examine the acid tolerance response (ATR) of S. mutans biofilm cells and to determine the effect of cell density on the induction of acid adaptation. S. mutans BM71 cells were first grown in broth cultures to examine acid adaptation associated with growth phase, cell density, carbon starvation, and induction by culture filtrates. The cells were also grown in a chemostat-based biofilm fermentor for biofilm formation. Adaptation of biofilm cells to low pH was established in the chemostat by the acid generated from excess glucose metabolism, followed by a pH 3.5 acid shock for 3 h. Both biofilm and planktonic cells were removed to assay percentages of survival. The results showed that S. mutans BM71 exhibited a log-phase ATR induced by low pH and a stationary-phase acid resistance induced by carbon starvation. Cell density was found to modulate acid adaptation in S. mutans log-phase cells, since pre-adapted cells at a higher cell density or from a dense biofilm displayed significantly higher resistance to the killing pH than the cells at a lower cell density. The log-phase ATR could also be induced by a neutralized culture filtrate collected from a low-pH culture, suggesting that the culture filtrate contained an extracellular induction component(s) involved in acid adaptation in S. mutans. Heat or proteinase treatment abolished the induction by the culture filtrate. The results also showed that mutants defective in the comC, -D, or -E genes, which encode a quorum sensing system essential for cell density-dependent induction of genetic competence, had a diminished log-phase ATR. Addition of synthetic competence stimulating peptide (CSP) to the comC mutant restored the ATR. This study demonstrated that cell density and biofilm growth mode modulated acid adaptation in S. mutans, suggesting that optimal development of acid adaptation in this organism involves both low pH induction and cell-cell communication.     

Immunohistochemical distribution of leucocyte antigens in lymphoid tissues of cynomolgus monkeys (Macaca fascicularis)

Crossreactivity of antibodies to human leucocyte antigens with lymphoid tissues of cynomolgus monkeys was studied by immunohistochemistry and immunoblotting. Of a total of 54 clusters of differentiation (CD) antigens, 39 were expressed essentially with the same immunostaining patterns in the monkey as in human lymphoid tissues. By immunoblotting L26 (CD20) detected a 35 Kd molecule in the monkey lymph node. Our observations indicated that most of the CD antigens are expressed and can be studied in lymphoid tissues of cynomolgus monkeys.     

Estimating Bacterioplankton Production by Measuring [3H]thymidine Incorporation in a Eutrophic Swedish Lake

Bacterioplankton abundance, [³H]thymidine incorporation, ¹⁴CO₂ uptake in the dark, and fractionated primary production were measured on several occasions between June and August 1982 in eutrophic Lake Norrviken, Sweden. Bacterioplankton abundance and carbon biomass ranged from 0.5 × 10⁹ to 2.4 × 10⁹ cells liter⁻¹ and 7 to 47 μg of C liter⁻¹, respectively. The average bacterial cell volume was 0.185 μm³. [³H]thymidine incorporation into cold-trichloroacetic acid-insoluble material ranged from 12 × 10⁻¹² to 200 × 10⁻¹² mol liter⁻¹ h⁻¹. Bacterial carbon production rates were estimated to be 0.2 to 7.1 μg of C liter⁻¹ h⁻¹. Bacterial production estimates from [³H]thymidine incorporation and ¹⁴CO₂ uptake in the dark agreed when activity was high but diverged when activity was low and when blue-green algae (cyanobacteria) dominated the phytoplankton. Size fractionation indicated negligible uptake of [³H]thymidine in the >3-μm fraction during a chrysophycean bloom in early June. We found that >50% of the ³H activity was in the >3-μm fraction in late August; this phenomenon was most likely due to Microcystis spp., their associated bacteria, or both. Over 60% of the ¹⁴CO₂ uptake in the dark was attributed to algae on each sampling occasion. Algal exudate was an important carbon source for planktonic bacteria. Bacterial production was roughly 50% of primary production.     

Genetic heterogeneity of the porphobilinogen deaminase gene in Swedish families with acute intermittent porphyria

Summary Acute intermittent porphyria (AIP) is an autosomal dominant metabolic disorder affecting the enzyme porphobilinogen (PBG) deaminase in the heme biosynthetic pathway. The highest prevalence of the disorder has been observed in Scandinavia, especially in northern Sweden (Lappland) where it occurs with a prevalence of 1 in 1500. Biochemical assays of the activity and concentration of PBG deaminase in red blood cells, haplotyping with 4 intragenic restriction fragment length polymorphisms (RFLPs) (MspI, PstI, BstNI, ApaLI) using the polymerase chain reaction (PCR) and screening for known base substitutions by oligonucleotide probes was performed in 28 Swedish AIP families. There was no close relationship between haplotype, biochemical findings (PBG deaminase activity, enzyme-linked immuno-sorbent assay [ELISA], and excess urinary excretion of delta-aminolevulinic acid or PBG), and a specific mutation. Three different haplotypes were identified. The haplotype 2/1/1/2 (MspI/PstI/BstNI/ApaLI; +/-/-/+) was found to be the most frequent among gene carriers (P < 0.001). The disease segregated with the haplotype 2/1/1/2 in the 10 families originating from northern Sweden. All 28 families were screened for three known point mutations. Only one was found to carry one of these mutations. Thus, the genetic background of AIP is heterogeneous in Sweden.     

Aflatoxin formation and the dual phenomenon in Aspergillus flavus link

Trials were performed with three aflatoxin-forming isolates of Aspergillus flavus from formic acid-treated materials containing aflatoxin, one A. flavus strain isolated from mouldy barley kept for two months in an anaerobic jar and one non-toxic A. flavus strain from the culture collection at our Department. The nontoxic strain and one aflatoxin producer were cultured in salts-sugar-asparagine substrate (SLM) for aflatoxin production and in a specially prepared grass substrate (GS). Formic acid and ammonium formate were added to both substrates, and sucrose in a low amount was added to the grass substrate. The aflatoxin-forming isolate segregated on the grass substrate into two different lines, one with high aflatoxin production and one with very low aflatoxin-forming ability, higher growth rate and reduced sporulation, on the SLM substrate. When exposed to sucrose in grass substrate and ammonium formate in SLM, one toxic and one non-toxic strain were provoked to increased aflatoxin formation. The A. flavus isolate from the anaerobic jar also segregated on the grass substrate, and these segregants were more sensitive to a high dose of formic acid. In these A. flavus strains there seems to be a continuous variation between different lines, depending on cultivation conditions. In the two aflatoxin-forming isolates left, such segregation tendencies were not very marked on any substrate.     

Vegetational changes on two eroding banks of a short-term regulated river reservoir in northern Sweden

This study deals with the vegetational changes and the course of erosion on two types of river banks bordering a river reservoir, in northern Sweden. The water-level has been short-term regulated since 1961, with an amplitude of about 3 m in the uppermost reaches of the reservoir and about 1 m furthest downstream. The pattern of regulation includes both a weekly and a daily rhythm. The banks of the river reservoir have been cut in fine-grained sediments. The two sites selected for study were (1) a formerly littoral area (2) a formerly dry-land area. Percentage cover and number of shoots were determined annually within belt transects subdivided into 10 times 10 cm quadrats, during the period 1977–1981.
The course of bank erosion was initiated and mainly continued by water movements. In the formerly littoral area, erosion proceeded only slowly, whereas in the formerly dry-land area erosion was rapid and the bank was continuously being undercut, leading to the formation of an overhanging mat of vegetation. As erosion progressed, this overhanging mat split up and slumped down into the reservoir. The vegetational changes on the overhang were considerable, while the terrace maintained a more stable vegetation cover. In the long-term, the composition of the vegetation on the former littoral river-bank remained more stable than on that cut into the former dry-land area. The break-up of the vegetation cover on the overhang also initiated secondary vegetational successions on the exposed soil. Considerable differences in the vegetation cover were also recorded from one year to the next. These differences were considered to be mainly due to differences in the rate and local course of erosion. Annual differences in the rhythm and/or amplitude of the fluctuations in water-level were considered to be less important in this respect.     

NITROGEN LIMITATION EFFECTS OF DIFFERENT NITROGEN SOURCES ON NUTRITIONAL QUALITY OF TWO FRESHWATER ORGANISMS, SCENEDESMUS QUADRICAUDA (CHLOROPHYCEAE) AND SYNECHOCOCCUS SP. (CYANOPHYCEAE)

Food quality for grazers has been related to mineral (nitrogen, phosphorus) and biochemical (amino acids, fatty acids) constituents. The aim of the study was to examine the influence of different nitrogen sources on these constituents in two organisms, the green alga Scenedesmus quadricauda Turp. and the cyanobacterium Synechococcus sp., commonly used in feeding experiments. The two organisms were grown in continuous cultures at different growth rates. Nitrate or ammonium salts were used as nitrogen sources under both replete and limited conditions. Carbon content (mg·g⁻¹ dry weight) was stable in both organisms independent of nitrogen source, nitrogen limitation, and growth rate. Nitrogen content decreased with limitation and growth rate in Scenedesmus and to a lesser degree in Synechococcus , whereas changes in phosphorus content were not statistically significant. The relative proportions of amino acids (% of total amino acids) were relatively stable in both organisms, whereas the proportions of fatty acids varied with growth rate and limitation. Fatty acid content was much lower in Synechococcus than in Scenedesmus . At N limitation, polyunsaturated fatty acids (PUFAs) showed lower levels in both organisms. The change occurred in the ω3 PUFA (linolenic acid) of the green alga and in the ω6 PUFA (linoleic acid) of the cyanobacterium. The difference in the response of N limitation in the two organisms may be traced to the different composition of the chloroplast membranes (the prokaryotic way) and the microsomal membranes (the eukaryotic way) where the desaturation takes place.     

Universal Single-Probe RT-PCR Assay for Diagnosis of Dengue Virus Infections

Background

Dengue is a mosquito-borne viral disease that has become more prevalent in the last few decades. Most patients are viremic when they present with symptoms, and early diagnosis of dengue is important in preventing severe clinical complications associated with this disease and also represents a key factor in differential diagnosis. Here, we designed and validated a hydrolysis-probe-based one-step real-time RT-PCR assay that targets the genomes of dengue virus serotypes 1–4.

Methodology/Principal Findings

The primers and probe used in our RT-PCR assay were designed to target the 3′ untranslated region of all complete genome sequences of dengue virus available in GenBank (n = 3,305). Performance of the assay was evaluated using in vitro transcribed RNA, laboratory-adapted virus strains, external control panels, and clinical specimens. The linear dynamic range was found to be 10⁴–10¹¹ GCE/mL, and the detection limit was between 6.0×10² and 1.1×10³ GCE/mL depending on target sequence. The assay did not cross-react with human RNA, nor did it produce false-positive results for other human pathogenic flaviviruses or clinically important etiological agents of febrile illnesses. We used clinical serum samples obtained from returning travelers with dengue-compatible symptomatology (n = 163) to evaluate the diagnostic relevance of our assay, and laboratory diagnosis performed by the RT-PCR assay had 100% positive agreement with diagnosis performed by NS1 antigen detection. In a retrospective evaluation including 60 archived serum samples collected from confirmed dengue cases 1–9 days after disease onset, the RT-PCR assay detected viral RNA up to 9 days after appearance of symptoms.

Conclusions/Significance

The validation of the RT-PCR assay presented here indicates that this technique can be a reliable diagnostic tool, and hence we suggest that it be introduced as the method of choice during the first 5 days of dengue symptoms.