The genetics of cutaneous melanoma

Although germline mutations in CDKN2A are present in approximately 25% of large multicase melanoma families, germline mutations are much rarer in the smaller melanoma families that make up most individuals reporting a family history of this disease. In addition, only three families worldwide have been reported with germline mutations in a gene other than CDKN2A (i.e., CDK4). Accordingly, current genomewide scans underway at the National Human Genome Research Institute hope to reveal linkage to one or more chromosomal regions, and ultimately lead to the identification of novel genes involved in melanoma predisposition. Both CDKN2A and PTEN have been identified as genes involved in sporadic melanoma development; however, mutations are more common in cell lines than uncultured tumors. A combination of cytogenetic, molecular, and functional studies suggests that additional genes involved in melanoma development are located to chromosomal regions 1p, 6q, 7p, 11q, and possibly also 9p and 10q. With the near completion of the human genome sequencing effort, combined with the advent of high throughput mutation analyses and new techniques including cDNA and tissue microarrays, the identification and characterization of additional genes involved in melanoma pathogenesis seem likely in the near future.

The null allele of GSTM1 does not affect susceptibility to solar keratoses in the Australian white population

Solar keratoses (SKs) are induced by exposure to UV radiation and are capable of undergoing transformation to squamous cell carcinoma (SCC).1 The two main factors influencing the occurrence of SK are the sensitivity of the skin to sunlight and the total duration of solar exposure. These factors are responsible for the high incidence of SK in Australia. Although the influence of genetic factors is not defined, there is evidence that the gene encoding the enzyme, glutathione S-transferase, may be implicated in cancer predisposition and therefore SK. Glutathione S-transferase Mu-1 (GSTM1) is an isoenzyme involved in the detoxification of carcinogens. The GSTM1 protein is completely absent in approximately 50% of white persons. This absence is caused by a homozygous gene deletion on chromosome 1p resulting in a null genotype.2 Katoh3 showed that the frequency of the GSTM1 null genotype was significantly higher in 85 patients with urothelial cancer (61.2%; p < 0.05), suggesting that the null genotype may increase cancer susceptibility. This finding was supported by Lafuente et al.4 who found evidence that persons who lack the GSTM1 gene have approximately twice the chance of experiencing malignant melanoma. Further research in the United Kingdom found that patients with two or more skin tumors of different types, basal cell carcinoma (BCC) and SCC, had a significantly higher frequency of GSTM1 null genotypes than controls (71%; p = 0.033). However the GSTM1 genotype in patients with only SCC was not excessive in this population.5 Persons residing in northern Australia have the highest incidence of nonmelanoma skin cancer (SCC and BCC) in the world6 and receive far greater solar exposure than persons residing in the United Kingdom. It is possible that the GSTM1 null genotype may affect susceptibility to SK, which may act as SCC precursors, in Australians exposed to these high levels of solar radiation.

Whole-genome screening in ankylosing spondylitis: Evidence of non-MHC genetic-susceptibility loci

Ankylosing spondylitis (AS) is a common inflammatory arthritis predominantly affecting the axial skeleton. Susceptibility to the disease is thought to be oligogenic. To identify the genes involved, we have performed a genomewide scan in 185 families containing 255 affected sibling pairs. Two-point and multipoint nonparametric linkage analysis was performed. Regions were identified showing "suggestive" or stronger linkage with the disease on chromosomes 1p, 2q, 6p, 9q, 10q, 16q, and 19q. The MHC locus was identified as encoding the greatest component of susceptibility, with an overall LOD score of 15.6. The strongest non-MHC linkage lies on chromosome 16q (overall LOD score 4.7). These results strongly support the presence of non-MHC genetic-susceptibility factors in AS and point to their likely locations.

Suggestive linkage of 2p22-25 and 11q12-13 with low bone mineral density at the lumbar spine in the Irish population

Osteoporosis is a disease characterized by low bone mineral density (BMD) and poor bone quality. Peak bone density is achieved by the third decade of life, after which bone is maintained by a balanced cycle of bone resorption and synthesis. Age-related bone loss occurs as the bone resorption phase outweighs the bone synthesis phase of bone metabolism. Heritability accounts for up to 90% of the variability in BMD. Chromosomal loci including 1p36, 2p22-25, 11q12-13, parathyroid hormone receptor type 1 (PTHR1), interleukin-6 (IL-6), interleukin 1 alpha (IL-1α) and type II collagen A1/vitamin D receptor (COL11A1/VDR) have been linked or shown suggestive linkage with BMD in other populations. To determine whether these loci predispose to low BMD in the Irish population, we investigated 24 microsatellite markers at 7 chromosomal loci by linkage studies in 175 Irish families of probands with primary low BMD (T-score ≤ -1.5). Nonparametric analysis was performed using the maximum likelihood variance estimation and traditional Haseman-Elston tests on the Mapmaker/Sibs program. Suggestive evidence of linkage was observed with lumbar spine BMD at 2p22-25 (maximum LOD score 2.76) and 11q12-13 (MLS 2.55). One region, 1p36, approached suggestive linkage with femoral neck BMD (MLS 2.17). In addition, seven markers achieved LOD scores > 1.0, D2S149, D11S1313, D11S987, D11S1314 including those encompassing the PTHR1 (D3S3559, D3S1289) for lumbar spine BMD and D2S149 for femoral neck BMD. Our data suggest that genes within a these chromosomal regions are contributing to a predisposition to low BMD in the Irish population.

Photoelastic parametric studies of mode I stress intensity factors

Results of photoelastic investigations on single edge-notch tension specimens of varying notch angle and crack length are reported. The experimental results of Mode I stress intensity factors are compared with analytical results.

Molecular profiling of malignant pleural mesothelioma and pulmonary fibrosis

Malignant mesothelioma (MM) is a rare, usually incurable, disease mainly caused by former exposure to asbestos. Even though MM has a strong etiological link, genetic factors may play a role, since not all cases can be linked to former asbestos exposure. This thesis focuses on lung diseases, mainly malignant mesothelioma (MM), and idiopathic pulmonary fibrosis (IPF), which resembles asbestosis. The specific asbestos-related pathways associated with malignant as well as non-malignant lung diseases, still need to be clarified. Since most patients diagnosed with MM or asbestosis/fibrosis have a dismal prognosis and few therapeutic options are available, early diagnosis and better understanding of the disease pathogenesis are of the utmost importance. The first objective of this thesis was to identify asbestos specific differentially expressed genes. This was approached by using high-resolution gene expression arrays, and three different human lung cell lines, as well as with three different bioinformatics approaches. Since the first study aimed to elucidate potential early changes, the second study was used to screen DNA copy number changes in MM tumour samples. This was performed using genome wide microarrays for identification of DNA copy number changes characterstic for MM. Study III focused on the role of gremlin in the regulation of bone morphogenetic protein (BMPs) in IPF. Further studies were conducted in asbestos-exposed cell cultures as well as in an asbestos-induced mouse model. Furthermore, GATA-6 was studied in MM and metastatic pleural adenocarcinoma. The GATA transcription factors are important during embryonic development, but their role in cancer is still unclear. GATA-6 is a co-factor/target of thyroid transcription factor 1 (TTF-1), which is used in differential diagnostics of pleural MM and adenocarcinoma. Bioinformatics probed the genes and biological processes ordered in terms of significance, clusters, and highly enriched chromosomal regions. The study revealed several already identified targets, produced new ideas about genes which are central for asbestos exposure, as well as provided supplementary data for researchers to check their own novel findings or ideas. The analysis revealed DNA copy number changes characteristic for MM tumors. The most common regions of loss were detected in 1p, 3p, 6q, 9p, 13, 14, and 22, and gains at 17q. The histological features in asbestosis and IPF are very similar, wherefore IPF can be studied in asbestos models. The BMP antagonist gremlin was up-regulated by asbestos exposure in human epithelial cell lines, which was also observed in Study I. The transforming growth factor (TGF) -β and BMP expression and signaling activities were measured from murine and human fibrotic lungs. BMP-7 signaling was down-regulated in response to up-regulation of gremlin, and restoration of BMP-7 signaling prevented progression of fibrosis in mice. Therefore, the study suggests that the restoration of BMP-7 signaling in fibrotic lung could potentially aid in the treatment of IPF patients. Study IV revealed that GATA-6 was strongly expressed in the majority of the MM cases, and correlated statistically significant with longer survival in subgroups of MM.

Threshold photoproduction of charged pions on14N

Pion photoproduction processes14Ngs(gamma, pgr +)14C and14Ngs(gamma, pgr –)14O have been studied in the threshold region. These processes provide an excellent tool to study the corrections to soft pion theorems and Kroll-Ruderman limit as applied to nuclear processes. The agreement with the available experimental data for these processes is better with the empirical wave functions while the shell-model wave functions predict a much higher value. Detailed experimental studies of these reactions at threshold, it is shown, are expected to lead to a better understanding of the shell-model inputs and radial distributions in the 1p state. We thank Dr. S.C.K. Nair for a helpful discussion during the initial stages of this work. One of us (MVN) thanks Dr. J.M. Laget for sending some unpublished data on pion photoproduction. He is also thankful to Dr. J. Pasupathy and Dr. R. Rajaraman for their interest and encouragement.

Further characterization of the saccharide specificity of peanut (Arachis hypogaea) agglutinin

2-Dansylamino-2-deoxy-D-galactose (GalNDns) has been shown to bind to peanut (Arachis hypogaea) agglutinin (PNA) in a saccharide-specific manner. This binding was accompanied by a five-fold increase in the fluorescence of GalNDns. The interaction was characterized by an association constant of 0.15 mM at 15° and ΔH and ΔS values of -57.04 kJ·mol-1 and -118.1 J·mol-1.K-1, respectively. Binding of a variety of other mono-, di- and oligo-saccharides to PNA, studied by monitoring their ability to dissociate the PNA-GalNDns complex, revealed that PNA interacts with several T-antigen-related structures, such as β-d-Galp-(1→3)-D-GalNAc, β-D-Galp-(1→3)-α-D-GalpNAcOMe, and β-D-Galp-(1→3)-α-D-GalpNAc(1→3)-Ser, as well as the asialo-G(M1) tetrasaccharide, with comparable affinity, thus showing that this lectin does not discriminate between saccharides in which the penultimate sugar of the β-D-Galp-(1→3)-D-GalNAc unit is the α or β anomer, in contrast to jacalin (Artocarpus integrifolia agglutinin), another anti T-lectin which preferentially binds to β-D-Galp-(1→3)-α-D-GalNAc and does not recognize β-D-Galp-(1→3)-β-D-GalNAc or the related asialo-G(M1) oligosaccharide. These studies also indicated that, in the extended combining region of PNA which accommodates a disaccharide, the primary subsite (subsite A) is highly specific for D-galactose, whereas the secondary subsite (subsite B) is less specific and can accommodate various structures, such as D-galactose, 2-acetamido-2-deoxy-D-galactose, D-glucose, and 2-acetamido-2-deoxy-D-glucose.

Tendency toward crossover of the effective susceptibility exponent from its doubled Ising value to its doubled mean-field value near a double critical point

The critical behavior of osmotic susceptibility in an aqueous electrolyte mixture 1-propanol (1P)+water (W)+potassium chloride is reported. This mixture exhibits re-entrant phase transitions and has a nearly parabolic critical line with its apex representing a double critical point (DCP). The behavior of the susceptibility exponent is deduced from static light-scattering measurements, on approaching the lower critical solution temperatures (TL’s) along different experimental paths (by varying t) in the one-phase region. The light-scattering data analysis substantiates the existence of a nonmonotonic crossover behavior of the susceptibility exponent in this mixture. For the TL far away from the DCP, the effective susceptibility exponent γeff as a function of t displays a nonmonotonic crossover from its single limit three-dimensional (3D)-Ising value ( ∼ 1.24) toward its mean-field value with increase in t. While for that closest to the DCP, γeff displays a sharp, nonmonotonic crossover from its nearly doubled 3D-Ising value toward its nearly doubled mean-field value with increase in t. The renormalized Ising regime extends over a relatively larger t range for the TL closest to the DCP, and a trend toward shrinkage in the renormalized Ising regime is observed as TL shifts away from the DCP. Nevertheless, the crossover to the mean-field limit extends well beyond t>10−2 for the TL’s studied. The observed crossover behavior is attributed to the presence of strong ion-induced clustering in this mixture, as revealed by various structure probing techniques. As far as the critical behavior in complex or associating mixtures with special critical points (like the DCP) is concerned, our results indicate that the influence of the DCP on the critical behavior must be taken into account not only on the renormalization of the critical exponent but also on the range of the Ising regime, which can shrink with decrease in the influence of the DCP and with the extent of structuring in the system. The utility of the field variable tUL in analyzing re-entrant phase transitions is demonstrated. The effective susceptibility exponent as a function of tUL displays a nonmonotonic crossover from its asymptotic 3D-Ising value toward a value slightly lower than its nonasymptotic mean-field value of 1. This behavior in the nonasymptotic, high tUL region is interpreted in terms of the possibility of a nonmonotonic crossover to the mean-field value from lower values, as foreseen earlier in micellar systems.

Preparation and properties of peroxy titanium malonate

The method of preparation and physicochemical properties of peroxy titanium malonate, TiO2(OOC)2CH2·3H2O are given. The reasons for the poor complexing tendency of malonic acid are discussed. The nature of the bonds between titanium and the peroxy as well as malonate groups is assigned from spectrophotometric and infra-red absorption studies.

Molecular profile of oligodendrogliomas in young patients

Several studies on molecular profiling of oligodendrogliomas (OGs) in adults have shown a distinctive genetic pattern characterized by combined deletions of chromosome arms 1 p and 19q, O6-methylguanine-methyltransferase (MGMT) methylation, and isocitrate dehydrogenase 1 (IDH1) mutation, which have potential diagnostic, prognostic, and even therapeutic relevance. OGs in pediatric and young adult patients are rare and have been poorly characterized on a molecular and biological basis, and it remains uncertain whether markers with prognostic significance in adults also have predictive value in these patients. Fourteen cases of OGs in young patients (age, <= 25 years) who received a diagnosis over 7 years were selected (7 pediatric patients age <= 18 years and 7 young adults aged 19-25 years). The cases were evaluated for 1p/19q status, MGMT promoter methylation, p53 mutation, and IDH1 mutation. None of the pediatric cases showed 1p/19q deletion. In young adults, combined 1p/19q loss was observed in 57% and isolated 1p loss in 14% of cases. The majority of cases in both subgroups (71% in each) harbored MGMT gene promoter methylation. TP53 and IDH1 mutations were not seen in any of the cases in both the groups. To our knowledge, this is the first study to show that molecular profile of OGs in pediatric and young adult patients is distinct. Further large-scale studies are required to identify additional clinically relevant genetic alterations in this group of patients.

Bounds on the spacelike pion electromagnetic form factor from analyticity and unitarity

We use the recently measured accurate BaBaR data on the modulus of the pion electromagnetic form factor,Fπ(t), up to an energy of 3 GeV, the I=1P-wave phase of the π π scattering ampli-tude up to the ω−π threshold, the pion charge radius known from Chiral Perturbation Theory,and the recently measured JLAB value of Fπ in the spacelike region at t=−2.45GeV2 as inputs in a formalism that leads to bounds on Fπ in the intermediate spacelike region. We compare our constraints with experimental data and with perturbative QCD along with the results of several theoretical models for the non-perturbative contribution s proposed in the literature.

Estudio epidemiológico de la prevalencia e identificación de parásitos gastrointestinales en terneros de 2 a 6 meses de edad del municipio de San Pedro de Lóvago - Chontales

El presente estudio se realizó con el objetivo determinar la prevalencia e identificación de los principales parásitos gastrointestinales en terneros de 2 a 6 meses de edad en las fincas del Municipio de San Pedro de Lóvago – Chontales, El municipio se localiza entre las coordenadas 12º 07 ́ latitud norte y 85º07 ́ latitud oeste. La altitud promedio es de 340 msnm. La temperatura promedio anual oscila entre los 25 y 26ºC; su precipitación pluvial varía entre los 1,200 y 1,400mm al año. Para determinar el tamaño de la muestra se utilizó la formula de Martinet al.(1987) y Trusfield, (1995) donde plantean que N = 1,962* p *q / L 2, donde p es la prevalencia, q = 1–p y L especifica el límite deseado de error de la prevalencia. Se espera que la prevalencia (p) de 50% sea usada en combinación con él límite deseado de error de 14%, si la prevalencia en la población entera es desconocida. El tamaño requerido de la muestra de éste trabajo, fue de 84 fincas examinando el 20% de los terneros de cada población de toda la zona en estudio. Los resultados obtenidos, se identificaron dos géneros de parásitos. De los cuales 1 es de La Clase Protozoario y 1 de La Clase Nematodo, entre ellos se encontró al género Strongyloides spp y Coccideas spp, por orden de importancia y presentación. De un total de 84 fincas estudiadas, se examinaron 646 animales, obteniéndose 183 animales positivos representando el 28.3 % de prevalencia y 463 negativos para un 71.7% respectivamente. De los 183 animales que resultaron positivos se encontró que 27 animales presentaban el género Coccideas spp representando un nivel medio de infestacion 405 hpg y 156 animales con el género Strongyloides spp representando un nivel medio de infestacion de 385hpg.

Estudio de observación de ciento doce líneas de arroz (Oryza sativa L.) VIOAL-92, bajo ecosistema de riego en la localidad de Malacatoya

Con el objetivo de evaluar 112 líneas de Arroz de porte semienano, procedentes en su mayoría de Colombia, Vivero IRRI (IIRON), Argentina, Cuba y Perú, y utilizando como testigos internacionales las variedades CICA-8 y ORYZICA-1 y como testigos locales las variedades ALTAM1RA-9, ALTAM1RA-10 y CICA-8 también considerada como testigo local, se llevó a cabo un estudio en la "Finca Venllano", ubicada en Malacatoya, municipio del departamento de Granada, bajo el agroecosistema de riego. A cada línea se le evalúo las características agronómicas (floración, altura, desgrane, senescencia, exerción, acame y aceptabilidad fenotípica) y los componentes del rendimiento ( long de panícula, número de granos por panícula, porcentaje de fertilidad, peso de 1000 granos, rendimiento y rendimiento industrial ( % de arroz integral, % de arroz pulido y % de arroz oro). Se seleccionaron 15 líneas por sus características agronómicas y su potencial de rendimiento, lo que da un 13% de selección del material evaluado. La línea de mejor rendimiento fue la 113 (ECIA 561 con 5980 Kg/ha y la de menor rendimiento fue la línea 30 (CT9508-48-1-1P-2PT) con 3195 Kg/ha. El material de mejor calidad industrial fue la línea 10 (CT8837-1-17-1P-4) con 58.5 % de Arroz Oro y la línea más baja fue la 41 (CT7B05-17-4A-M-4P) con 48.0 % de Arroz Oro.

Evaluación preliminar de rendimiento de siete lineas de arroz (Oryza sativa L.) en comparación con la variedad Oryzica llanos 4

En el período comprendido del23 de Septiembre de 1996 al 8 de enero de 1997, en los terrenos de la Empresa Agropecuaria Guadalupe, ubicada en el municipio de Malacatoya, Departamento de Granada, se realizó el presente ensayo con el propósito de evaluar los componentes de crecimiento, rendimiento (kg/ha) y calidad industrial de 7 líneas promisorias de arroz (Oryza sativa L) en el sistema de inundación. Los tratamientos en estudios se establecieron en un diseño Unifactorial de Bloques Completo al azar (B.C.A), con cuatro repeticiones. La evaluación de los datos obtenidos de las variables en estudios se efectúo mediante el sistema de evaluación estándar para arroz, Análisis de Varianza (ANDEVA) y separación de medios rangos múltiples de Duncan al 95 % de confiabilidad. Los resultados obtenidos muestran que la línea CT 9841-5-2-1p-21-21-M presentó la floración más temprana; en la aplicación de la escala de evaluación de exerción de la panícula los tratamientos que presentaron buena excersion fueron las Líneas CT 9882-2-M-14-1-M-1-3p-M-1, CT 10166-16-1-2p-1-3 y la línea CT 10175-4-6- 2p-2-2; la mayor resistencia al desgrane la obtuvieron las Líneas CT 10308-27-3-3p-3-3 CT 9682-2-M-14-1-M-1-3p-M-1 y variedad testigo; las líneas que presentaron tallos fuertes y sin volcamiento fueron: CT 10175-4-6-2p-2-2 y CT 9841-5-2-1p-21-21-M y la variedad testigo Oryzica llanos 4; los tratamientos CT 9682-2-M-14-1-M-1-3p-M-1, CT 10175-4-6-2p-2-2 y CT 9841-5-2-1p-21-21-M, la línea CT 10184-2-1-M-1-MI y la variedad Oryzica Llanos 4 presentaron buena aceptabilidad fenotípica. El mayor rendimiento de grano se obtuvo con la línea CT 10184-2-1-M-1-MI, con 4,034.14 kglha, y la menor producción se alcanzó con el tratamiento CT 9841-5-2-1p-21-21-M y sin diferencias significativas con la variedad testigo Oryzica llanos 4 (2,393.76 y 2,444.66 kglha respectivamente). En cuanto a rendimiento y calidad industrial todas las líneas se comportaron de manera similar destacándose la línea (IR-44624-127-1-2-2-3) y la variedad testigo Oryzica Llanos-4