Miracle-dz/UniFAR-FTUs huggingface dataset:
TPTE "Cancer/Testis" antigen is a candidate target for immunotherapy in epithelial ovarian carcinoma

2583 Background: Cancer/testis (CTA) antigens expression is highly tissue-restricted, immunogenic in cancer patients, and are novel targets for cancer vaccine.These CTA are expressed in different tumors and normal testes, but not in other normal tissues. Transmembrane phosphatase with tensin homology (TPTE) is a novel, 2761 bp long CTA located on chromosome 21p11 and shares significant homology with tumor suppressor protein PTEN. Our study goals were to determine TPTE expression in epithelial ovarian carcinoma (EOC) and examine for correlation with clinical outcome. Methods: Frozen specimens were obtained from 100 patients with EOC treated between 1995 and 2003. Following isolation of total RNA, one-step reverse transcriptase PCR (RT-PCR) was performed on the EOC tissues, 8 cancer cell lines (IOSE, HOSE, OVCA-3, OV-2774, SKOV-6, OVCA-429 and SKOV-3) and 16 normal tissues. A 433 bp TPTE specific PCR product was amplified using TPTE specific sense 5’TTTATTCGATTCCTCGTTATGTACG3’ and antisense 5’ACATAATTCTTTCC.
DEFECTIVE TORQUE GENERATION IN THE SUBUNIT SER-174 TO PHE MUTANT AND ITS SUPPRESSION BY SECOND MUTATIONS*

Summary of the properties of engineered mutant F 1 The ATPase activities were assayed at 25 and 37 °C under the same conditions as the observation of rotation (9) and expressed as relative values.The wild-type values for ATPase were 22 and 50 units/mg of protein, respectively, assayed at 25 and 37 °C in the presence of 100 n M subunit.These values became 50 and 90 units/mg when assayed without . The same relative values were obtained regardless of the presence of the . Proton gradient formation was assayed at 25 °C and expressed as relative values. The growth of strains harboring mutant plasmids was tested at25 °C on the solid minimal medium containing 0.2% succinate as the sole carbon source. MutationATPase activityProton gradientGrowth throughoxidative25 °C37°C phosphorylation %% None (wild-type) 100 100 100 S174F 10 10 10 S174L 10 10 100 G149A/ S174F 220 130 95 G149A 40 100 14 I163A/ S174F 30 15 14 I163A 130 70 25 I166A/ S174F 5 5 14 I166A 10 10 51 L238A/ S174F 1 1 10 Torque Generation by ATP Synthase F
The evolution of 5s RNA secondary structures

We have applied the Pipas–McMahon algorithm based on free energy calculations to the search for a 5S RNA base-pair structure common to all known sequences. We find that a 'Y'-shaped model is consistently among the structures having the lowest free energy using 5S RNA sequences from either eukaryotic or prokaryotic sources. Comparison of this 'Y' structure with models which have recently been proposed show these models to be remarkably similar, and the minor differences are explicable based on the technique used to obtain the model. That prokaryotic and eukaryotic 5S RNA can adopt a similar secondary structure is strong support for its resistance to change during evolution.
Intra–Cardiopulmonary Resuscitation Hypothermia With and Without Volume Loading in an Ischemic Model of Cardiac Arrest

Background— We investigated the effects of intra–cardiopulmonary resuscitation (CPR) hypothermia with and without volume loading on return to spontaneous circulation and infarction size in an ischemic model of cardiac arrest. Methods and Results— Using a distal left anterior descending artery occlusion model of cardiac arrest followed by resuscitation with a total of 120 minutes of occlusion and 90 minutes of reperfusion, we randomized 46 pigs into 5 groups and used myocardial staining to define area at risk and myocardial necrosis. Group A had no intervention. Immediately after return of spontaneous circulation, group B received surface cooling with cooling blankets and ice. Group C received intra-CPR 680±23 mL of 28°C 0.9% normal saline via a central venous catheter. Group D received intra-CPR 673±26 mL of 4°C normal saline followed by surface cooling after return of spontaneous circulation. Group E received intra-CPR and hypothermia after return of spontaneous circulation with an endovascular therapeutic hypothermia system placed in the right atrium and set at a target of 32°C. Intra-CPR volume loading with room temperature (group C) or iced saline (group D) significantly (P<0.05) decreased coronary perfusion pressure (group C, 12.8±4.78 mm Hg; group D, 14.6±9.9 mm Hg) compared with groups A, B, and E (20.6±8.2, 20.1±7.8, and 21.3±12.4 mm Hg). Return of spontaneous circulation was significantly improved in group E (9 of 9) compared with groups A plus B and C (10 of 18 and 1 of 8). The percent infarction to the area at risk was significantly reduced with intra-CPR hypothermia in groups D (24.3±4.2%) and E (4±3.4%) compared with groups A (72±5.1%) and B (67.3±4.2%). Conclusions— Intra-CPR hypothermia significantly reduces myocardial infarction size. Elimination of volume loading further improves outcomes.
Environmental Studies

• Environment, Policy and Society Graduate Certificate (catalog.colorado.edu/graduate/colleges-schools/arts-sciences/ programs-study/environmental-studies/environment-policy-societygraduate-certificate) • Renewable and Sustainable Energy Graduate Certificate (catalog.colorado.edu/graduate/colleges-schools/arts-sciences/ programs-study/environmental-studies/renewable-sustainableenergy-graduate-certificate) • Science and Technology Policy Graduate Certificate (catalog.colorado.edu/graduate/colleges-schools/arts-sciences/ programs-study/environmental-studies/science-technology-policygraduate-certificate) Faculty
A review of subspecies recognition in polydesmidan millipedes (Diplopoda) with a revision of the subspecies of Euryuridae (Xystodesmoidea)

Jorgensen, M. C. , Sierwald, P. & Mason‐Gamer, R. J. (2012). A review of subspecies recognition in polydesmidan millipedes (Diplopoda) with a revision of the subspecies of Euryuridae (Xystodesmoidea). —Zoologica Scripta, 42, 317–326.
Low-Salinity Acclimation of Juvenile Marine Goliath Grouper Epinephelus itajara

The ability of marine goliath grouper to survive in waters of low salinity was investigated by collecting juvenile individuals from the wild in full-strength seawater and either transferring them directly to fresh water or acclimating them over a 96-h period to fresh water. Juvenile goliath grouper (n = 49; mean 23.4 cm SL; SD 4.1; mean 339.1 g; SD 89.3) tolerated transfers from seawater (30 ppt) to freshwater (<1 ppt), and survived thereafter for a period of 28 d in strictly fresh water, with no observed adverse effects. However, the salinity tolerance was influenced by rate of exposure, as no deaths were observed when the fish were given a gradual decrease in salinity, but 60% of the individuals died when transferred abruptly from seawater into fresh water.
Anatomical Response of St. Augustinegrass to Aminocyclopyrachlor Treatment

Aminocyclopyrachlor (AMCP) is a synthetic auxin herbicide that controls primarily broadleaf (eudicotyledonous) weeds. Previous research indicates that St. Augustinegrass is unacceptably injured by AMCP. In light of the fact that synthetic auxin herbicides usually are safe when applied to monocotyledons, the mechanism for this injury is not fully understood. Anatomical response of St. Augustinegrass to AMCP was investigated using light microscopy. Apical meristem node tissue responded with callus tissue proliferation, abnormal location and development of the apical meristem, necrosis of the developing vascular tissue, vascular parenchyma proliferation, and xylem gum blockages. Node tissues away from the apical meristem responded with xylem gum blockages and the stimulation of lateral meristems and adventitious root formation. Root tip response to AMCP treatment was characterized by a loss of organization. Root tip apical meristem and vascular tissue maturation was disorganized. Additionally, lateral root generation occurred abnormally close to the root tip. These responses impair affected tissue functionality. Mature tissue was unaffected by AMCP treatment. All of these responses are characteristic of synthetic auxin herbicide treatment to other susceptible species. This research indicates that AMCP treatment results in St. Augustinegrass injury and subsequent death through deleterious growth stimulation and concomitant vascular inhibition. Nomenclature: Aminocyclopyrachlor, DPX-KJM44, DPX-MAT28; St. Augustinegrass, Stenotaphrum secundatum (Walter) Kuntz ‘Palmetto’®, STPSE
Listeria ivanovii sp. nov.

Listeria ivanovii sp. nov. HEINZ P. R. SEELIGER, JOCELYNE ROCOURT, ANGELIKA SCHRETTENBRUNNER, PATRICK A. D. GRIMONT, AND DOROTHY JONES Institut fur Hygiene und Mikrobiologie, 0-8700 Wurzburg, German Federal Republic; UnitP d’Ecologie Bacterienne, and UnitP des EntProbactPries, UnitP TNSERM 199, Institut Pasteur, F-75724 Paris Cedex 15, France; and Department of Microbiology, School of Medicine and School of Biological Sciences, University of Leicester, Leicester LEI 7RH, England
Dynamic Phenotypic Plasticity in Photosynthesis and Biomass Patterns in Douglas-Fir Seedlings

As climate changes, understanding the mechanisms long-lived conifers use to adapt becomes more important. Light gradients within a forest stand vary constantly with the changes in climate, and the minimum light required for survival plays a major role in plant community dynamics. This study focuses on the dynamic plasticity of Douglas-fir (Pseudotsuga menziesii var. glauca [Beissn.] Franco) seedlings grown in contrasting light environments. Plasticity in Douglas-fir seedlings was primarily achieved by a combination of the physiological processes: maximum photosynthesis, quantum yield, Fv/Fm, Km (the light constant), light compensation point, and the ratio of needle area to needle weight (specific leaf area). Specific leaf area was the most plastic of the biomass parameters measured.
Multicenter Spine Fracture Study

This study consisted of 1,019 spinal fracture patients followed prospectively for 2 years. Sixty-foru physicians from 12 countries participated. The purpose of the study was to determine:1) the relationship between neurologic deficit and fracture type, level, and spinal canal compromise; 2) the neurologic outcome comparing surgical versus nonsurgicaltreatment and anterior versus posterior surgery; and 3) the relationship of pain to both kyphotic deformity and to surgical and nonsurgical treatment. The main findings of this study are as follows; 1) seat belts reduced the incidence of severe neurologic injury; 2) there was a higher incidence of neurologic deficit with fracture-dislocations and a higher incidence of neurologically intact patients with compression and flexion-distraction injuries; 3) there was a greater incidence of complete neurologic deficits caused by fractures at the spinal cord level, and a diminished incidence at the cauda equine level, and a diminished incidence at the cauda equine level; 4) for burst fractures there was a weakly positive relationship between canal compromise and neurologic deficit, including bladder function; 5) surgical intervention led to a greater percentage of improved neurologic function than nonoperative treatment, but the rate of improvement was not statistically different; 6) anterior surgery was not more effective than posterior surgery in improving the neurologic function when function was assessed using the Frankel or Motor Index scales, but it was statistically significant when compared to the Manabe scale; 7) in patients who deteriorated before surgery and underwent surgery, there was a greater improvement neurologically, particularly for anterior surgery, compared to those patients treated nonoperatively or to the overall surgically treated group; 8) There was a statistically significant relationship between bladder function and fracture type, with an increased incidence of absent function seen with fracture-dislocations, of impaired function with burstfractures, and of intact bladder function with compression and flexion-distraction injuries; 9) anterior surgery was more beneficial in improving complete bladder impairment to partial impairment compared to posterior surgery; 10) a kyphotic deformity of greater than 30° at 2-year follow-up was associated with an increased incidence of significant back pain; 11) patients who had surgery complained less of severe pain than those who were treated without surgery.
Distribution and Migration of Immature Germ Cells in the Pearl Oyster Pinctada fucata with the Expression Pattern of the Vasa Ortholog by In situ Hybridization

ABSTRACT The vasa orthologs have been used as a specific germ line molecular marker in many animal species. In this study, the expression of the vasa ortholog (povlg1) in adult and juvenile pearl oysters (Pinctada fucata) was observed by in situ hybridization. The in situ hybridization with povlg1 made it possible to detect the immature germ cells, which could not be detected by hematoxylin and eosin staining. During the reproductive season (May to July), spermatogonia, spermatocytes, oogonia, and oocytes showed povlg1 expression in the gonads of mature adult pearl oysters. By contrast, in spent pearl oysters in the nonreproductive season (September and October), only small ovoid (8.9×5.2 mm) povlg1-positive cells were observed in the base of acini. In juvenile (1 mo old) pearl oysters, a clump of germ cells first formed from several cells that were distributed symmetrically and lateral to the visceral mass. These cells then migrated to the ventrolateral periphery of the visceral mass in 2-mo-old oysters. The cells then migrated posteriorly along the periphery of the visceral mass with increasing cell numbers and size in 4-mo-old oysters. This observation of immature germ cell distribution and migration provides useful information for the control of gametogenesis and about pearl quality.
Nutritive value, in vitro fermentation and methane production of perennial pastures as affected by botanical composition over a growing season in the south of Chile

Permanent pastures have been shown to produce similar herbage masses and nutrient contents to perennial ryegrass pastures. To the best of our knowledge, little research has been conducted on the ruminal fermentation of permanent pastures. Our objective was to evaluate the effect of botanical composition of four perennial pastures during a growing season in the south of Chile [winter, September 2010 ‘S1’; spring, November 2010 ‘S2’; and summer, January 2011 ‘S3’]: on in vitro fermentation products using a batch culture system. The perennial pastures studied included: permanent (PP), permanent fertilised (PFP) and renovated pastures (Lolium perenne and Trifolium repens pasture ‘RGWC’; Bromus valdivianus, Dactylis glomerata, Holcus lanatus, L. perenne and T. repens ‘MIXED’). There were strong interactions between pasture type and regrowth period for true organic matter, nitrogen (N) and neutral detergent fibre digestibility; total gas and volatile fatty acid (VFA) production; ammonia and microbial N. In general, all pasture treatments showed a high true organic matter digestibility (>800 g/kg), and tended to decrease in S3. In vitro fermentation of PFP and RGWC produced the highest total VFA concentration during S1 and S2, and no differences among pastures were observed in summer. Propionate proportion of total VFA was affected by pasture type and regrowth period, being higher for RGWC and S1, respectively. In vitro microbial N was higher for MIXED in S1, and PFP in S2 and S3. No pasture and regrowth period effects were observed for methane production and its proportion of total gas production. These results indicate that the in vitro fermentation products of a permanent fertilised pasture reach similar levels to those obtained from a sown pasture, and thus may be considered as a sustainable alternative for grazing livestock systems.
Microbial Responses to the Biostimulation of Subarctic Hydrocarbon-Contaminated Soils under Seasonal Freeze-Thaw Conditions

translation; Roli Wilhelm for assisting with the submission process. Thank you to Lou Spagnuolo from Indian and Northern Affairs Canada (INAC) Contaminated Sites Program and Philippe Simon from Qikiqtaaluk Environmental for funding this project. Dr. Brian Driscoll and Dr. Don Niven offered valuable input during class and seminars. I was grateful to Dr. Don Niven and Dr. Gary Dunphy for teaching assistantship opportunities in Introduction to Microbiology and General Biology. I would like to thank Blaire Steven, Chin-Ying Lay, Kris Radke, Thomas Niederberger, Olga Onyshchenko, Ophelia Ferreira-Rodriguez, Roli Wilhelm and Sara Sheibani from the Whyte lab for their assistance in daily lab matters. Branislav Babic, Dave Meek, Michelle Poilly, Oli Trottier and Rateb Nabil Youseff from the Driscoll lab, and Ghitanjali Arya from the Niven lab also provided their assistance. I wanted to thank people who made Happy Hour a weekly treat. I was grateful to Candice, Christina, Jen, people from Emerge, St. James Anglican and St. James United for support while in Montréal; Mom, Dad, Erika, Silver and family for their love; Chris, Dor, Jen, Jose, Nina and Phil for being there throughout the years.
Kinetics of Lead and bio-concentration factor (BCF) in different tissues of Clarias batrachus during experimental Plumbism

A Common Indian cat fish, Clarias batrachus Linneaus was treated with Lead Acetate for sub-acute and chronic exposure to the xenobiotic. The sub acute study included 3 days and 7 days exposure to different concentrations of lead acetate, while chronic study included exposure to 15 ppm lead acetate for 105 days. In all the cases tissues from Gills, Bones, Liver, Blood, Kidneys, Muscles, Skin and GI tract were removed and analyzed by AAS to find lead accumulation. The Bio-Concentration Factor (BCF) was calculated . The BCF varies from organ to organ. Additionally , X-rays photography was made on the chronic treated fishes from time to time, to see whether skeletal tissue is a target of the heavy metal or not. The Co-relation Co-efficient ( r') in these tissues between Lead treatment and Lead accumulation was found to be highly significant suggesting it both as a dose-dependent and time-dependent process.
High quality DNA from human papillomavirus (HPV) for PCR/RFLPs

A deteccao de DNA em amostras clinicas visando um diagnostico mais seguro vem se tornando uma pratica comum em laboratorios de analise clinica. Metodologias que objetivem o isolamento de DNA de alto peso molecular de HPV podem levar a uma amplificacao precisa e diagnose precoce do DNA do virus por PCR (reacao de polimerase em cadeia). Nos descrevemos um metodo para o isolamento do DNA do virus do papiloma humano de amostras cervicais utilizando o detergente guanidina (solucao DNAzol). O metodo foi rapido, nao-toxico e eficiente. Uma banda de DNA de 450 pb correspondente a regiao tardia (L1) do genoma viral foi detectada por PCR, mostrando que a extracao com DNAzol gerou quantidade suficiente de DNA para analise. O padrao eletroforetico, apos digestao com endonucleases de restricao (RFLPs/PCR), revelou predominância de HPV 16 e HPV-33 nas amostras no Estado de Alagoas, Brasil.
LIVER TRANSPLANTATION IN HIV-INFECTED INDIVIDUALS: RESULTS OF THE ITALIAN NATIONAL PROGRAM.

1125 LIVER TRANSPLANTATION IN HIV-INFECTED INDIVIDUALS: RESULTS OF THE ITALIAN NATIONAL PROGRAM. Paolo A Grossi, Fabio Tumietto, Paolo Costigliola, Francesco Gabbrielli, Lucia Rizzato, Sante Venettoni, Alessandro Nanni Costa. Infectious Diseases Department, University of Insubria, Varese, Italy; Infectious Diseases Department, University of Bologna, Bologna, Italy; National Center for Transplantation, Istituto Superiore di Sanità, Rome, Italy. Several recent reports have shown that end-stage liver disease is the leading cause of death among HIV-infected persons in the highly active antiretroviral therapy (HAART) era. Until a few years ago, HIV infection was an exclusion criteria for organ transplantation. However, more recently, because of the significant increase in life expectancy of HIV-infected persons with HAART, liver transplantation (OLTX) has been introduced in this patients’ population in several centers around the world. To evaluate the possible extension of the indications of OLTX to HIV-infected individuals, the Italian National Centre for Transplantation has nominated a committee of experts with the aim of designing a protocol to be applied on a national basis. This pilot program specifies strict inclusion criteria for OLTX recipients namely: having a CD4 count >200/mm and undetectable HIV viral load for at least 3 months for patients on antiretroviral therapy. For patients with a previously documented response to HAART but unable to tolerate HAART because of decompensated liver disease the CD4 count must be >100/mm. The program was voluntarily adopted by 4 italian liver transplant centres and from September 2002 to February 2006, 32 HIV infected cirrhotic patients (27 male and 5 female, mean age 45.1 years, range 36-58) underwent cadaveric OLTX (1 split liver) after a median waiting time of 99 days (range 2-734). Indication for OLTX was liver cirrhosis secondary to HCV in 21, to HBV in 4, to HBV and HCV in 3, and to HBV, HCV and HDV coinfection in 2 patients; 1 patient had cryptogenetic hepatocellular carcinoma (HCC) and 1 was affected by a Rendu-Osler syndrome. Thirteen (40.6%) patients had a concurrent HCC. Median CD4 cells count at the time of transplantation was 411 (range 119-977) and the HIV-RNA was undetectable in 28/32 (87.5%) recipients. Overall survival was 75% (24/ 32) at a median follow-up of 218 days after transplantation (range 01092). All HCV infected recipients had recurrent HCV infection after OLTX. Despite the limited number of patients and the shortness of the follow-up of a great number of them, the short term results of OLTX in HIV-infected individuals are comparable with those observed in HCV or HBV mono-infected OLTX recipients.
Distribution, Abundance and Volume of Xestospongia muta at Selected Sites in the Florida Keys National Marine Sanctuary

In 1994, the Florida Keys Coral Reef Evaluation and Monitoring Project (CREMP) was initiated to provide status and trends data for the benthic reef resources of the Florida Keys National Marine Sanctuary (FKNMS). Forty sampling sites were selected within the FKNMS. Permanent station markers were installed in 1995 and annual sampling began in 1996. In 2007, an ongoing clionid sponge survey was expanded to include the barrel sponge, Xestospongia muta, at all CREMP monitoring stations. The Xestospongia muta sampling method was developed based on existing CREMP project station layout with three 1-meter-wide belt transects providing the maximum spatial coverage within each station. The distribution, abundance and volume of X. muta were analyzed sanctuary-wide, regionally and by habitat type for 103 sampling stations. Sanctuary-wide, 89% of abundance and 93% of volume were observed at offshore deep sites. At offshore shallow and patch sites 6% and 5% of total abundance and 5% and 2% of total volume were recorded respectively. Xestospongia muta was not observed at any hardbottom site sanctuary- wide. At the regional level, while sponges the Middle Keys had the greatest abundance and volume, the largest individual sponges were recorded in the Upper Keys.