Survey of Subterranean Termite (Isoptera: Rhinotermitidae) Utilization of Temperate Forests

Both native and invasive subterranean termites (Isoptera: Rhinotermitidae), including the Formosan subterranean termite, are well known pests of urban areas, but little is known about their distribution or impact in forest ecosystems of the southeastern United States. Recently harvested timber stumps were mechanically inspected for the presence of subterranean termites in multiple locations across southern Mississippi and eastern Louisiana. A systematic line plot cruise with 100 x 200m spacing and1/20thha plots was implemented, and all stumps with a diameter greater than 7.6cm were inspected. In total, 7,413 stumps were inspected for the presence of subterranean termites, and 406 of those contained native subterranean termite (Reticulitermes spp) infestations. Light traps were also placed at 8 sites to detect the presence of subterranean termite alates. While no invasive Formosan subterranean termites were found during mechanical inspection of tree stumps, alates were captured in light traps at three sites. The proportion of stumps infested with subterranean termites was negatively correlated with the number of stumps in each plot. Although 6.27% of pine stumps and 1.86% of hardwood stumps were infested, no correlation was found between subterranean termite presence and type of stump (pine or hardwood). Infestations of stumps by subterranean termites ranged from 0.94% to 14.97% depending on site

Surface Free Energy of Blue-Stained Southern Pine Sapwood from Bark Beetle-Attacked Trees

Blue-stained wood cut from bark beetle-attacked southern pine has a lower economic value than unstained wood. Wood composite products containing blue-stained wood may offer an opportunity to recover some lost timber value. This study investigated the surface-free energy of blue-stained wood. Southern pine sapwood samples with and without blue stain from both green and kiln-dried sources were obtained. Dynamic contact angle analyses were performed using three probe liquids: ethylene glycol, formamide, and deionized water. Surface-free energy was determined by applying the geometric mean model using two-liquid pairs with deionized water. The polar forces were higher across all wood types and in water-ethylene glycol vs water-formamide. Surface-free energy of air-dried blue-stained sapwood was lower than all other wood types. However, kiln-dried blue-stained sapwood had a higher surface-free energy than all other wood types. These results were indicative of a tree's wound response to bark beetle attack, the volatilization of naturally occurring hydrocarbons in southern pine sapwood, and the resulting increase in wood permeability caused by blue-stained fungal colonization across the sapwood. However, improvements in wetting observed for kiln-dried blue-stained sapwood may lead to cost and quality issues in wood composite manufacturing associated with overdrying and overpenetration of an adhesive

Generation of a non-small cell lung cancer transcriptome microarray

<p>Abstract</p> <p>Background</p> <p>Non-small cell lung cancer (NSCLC) is the leading cause of cancer mortality worldwide. At present no reliable biomarkers are available to guide the management of this condition. Microarray technology may allow appropriate biomarkers to be identified but present platforms are lacking disease focus and are thus likely to miss potentially vital information contained in patient tissue samples.</p> <p>Methods</p> <p>A combination of large-scale in-house sequencing, gene expression profiling and public sequence and gene expression data mining were used to characterise the transcriptome of NSCLC and the data used to generate a disease-focused microarray – the Lung Cancer DSA research tool.</p> <p>Results</p> <p>Built on the Affymetrix GeneChip platform, the Lung Cancer DSA research tool allows for interrogation of ~60,000 transcripts relevant to Lung Cancer, tens of thousands of which are unavailable on leading commercial microarrays.</p> <p>Conclusion</p> <p>We have developed the first high-density disease specific transcriptome microarray. We present the array design process and the results of experiments carried out to demonstrate the array's utility. This approach serves as a template for the development of other disease transcriptome microarrays, including non-neoplastic diseases.</p

Identification of germline alterations of the mad homology 2 domain of SMAD3 and SMAD4 from the Ontario site of the breast cancer family registry (CFR)

Abstract Introduction A common feature of neoplastic cells is that mutations in SMADs can contribute to the loss of sensitivity to the anti-tumor effects of transforming growth factor-β (TGF-β). However, germline mutation analysis of SMAD3 and SMAD4, the principle substrates of the TGF-β signaling pathway, has not yet been conducted in breast cancer. Thus, it is currently unknown whether germline SMAD3 and SMAD4 mutations are involved in breast cancer predisposition. Methods We performed mutation analysis of the highly conserved mad-homology 2 (MH2) domains for both genes in genomic DNA from 408 non-BRCA1/BRCA2 breast cancer cases and 710 population controls recruited by the Ontario site of the breast cancer family registry (CFR) using denaturing high-performance liquid chromatography (DHPLC) and direct DNA sequencing. The results were interpreted in several ways. First, we adapted nucleotide diversity analysis to quantitatively assess whether the frequency of alterations differ between the two genes. Next, in silico tools were used to predict variants' effect on domain function and mRNA splicing. Finally, 37 cases or controls harboring alterations were tested for aberrant splicing using reverse-transcription polymerase chain reaction (PCR) and real-time PCR statistical comparison of germline expressions by non-parametric Mann-Whitney test of independent samples. Results We identified 27 variants including 2 novel SMAD4 coding variants c.1350G > A (p.Gln450Gln), and c.1701A > G (p.Ile525Val). There were no inactivating mutations even though c.1350G > A was predicted to affect exonic splicing enhancers. However, several additional findings were of note: 1) nucleotide diversity estimate for SMAD3 but not SMAD4 indicated that coding variants of the MH2 domain were more infrequent than expected; 2) in breast cancer cases SMAD3 was significantly over-expressed relative to controls (P A was associated with elevated germline expression (> 5-fold); 3) separate analysis using tissue expression data showed statistically significant over-expression of SMAD3 and SMAD4 in breast carcinomas. Conclusions This study shows that inactivating germline alterations in SMAD3 and SMAD4 are rare, suggesting a limited role in driving tumorigenesis. Nevertheless, aberrant germline expressions of SMAD3 and SMAD4 may be more common in breast cancer than previously suspected and offer novel insight into their roles in predisposition and/or progression of breast cancer

Gene Expression Profiles of the NCI-60 Human Tumor Cell Lines Define Molecular Interaction Networks Governing Cell Migration Processes

Although there is extensive information on gene expression and molecular interactions in various cell types, integrating those data in a functionally coherent manner remains challenging. This study explores the premise that genes whose expression at the mRNA level is correlated over diverse cell lines are likely to function together in a network of molecular interactions. We previously derived expression-correlated gene clusters from the database of the NCI-60 human tumor cell lines and associated each cluster with function categories of the Gene Ontology (GO) database. From a cluster rich in genes associated with GO categories related to cell migration, we extracted 15 genes that were highly cross-correlated; prominent among them were RRAS, AXL, ADAM9, FN14, and integrin-beta1. We then used those 15 genes as bait to identify other correlated genes in the NCI-60 database. A survey of current literature disclosed, not only that many of the expression-correlated genes engaged in molecular interactions related to migration, invasion, and metastasis, but that highly cross-correlated subsets of those genes engaged in specific cell migration processes. We assembled this information in molecular interaction maps (MIMs) that depict networks governing 3 cell migration processes: degradation of extracellular matrix, production of transient focal complexes at the leading edge of the cell, and retraction of the rear part of the cell. Also depicted are interactions controlling the release and effects of calcium ions, which may regulate migration in a spaciotemporal manner in the cell. The MIMs and associated text comprise a detailed and integrated summary of what is currently known or surmised about the role of the expression cross-correlated genes in molecular networks governing those processes