Miracle-dz/UniFAR-FTUs huggingface dataset:
The TPR Motif as a Protein Interaction Module - A Discussion of Structure and Function

Many biological functions involve the formation of protein-protein complexes. Indeed, protein–protein interactions are considered to be the center of all functional living cells. Proteins can interact with each other by various structural, chemical and physical means. Some of these interactions can be highly specific, accompanied by high affinity, while some proteins are more flexible and bind diverse proteins as ligands. A common group of proteins that participate in protein-protein interactions and serve as multi-protein complex mediators are the tetra-trico-peptide repeat (TPR) proteins. TPR-containing proteins were found to be involved in many diverse processes in eukaryotic cells, including synaptic vesicle fusion (Young et al. 2003), peroxisomal targeting and import (Brocard et al. 2006; Fransen et al. 2008) and mitochondrial and chloroplast import (Baker et al. 2007; Mirus et al. 2009). In addition, TRPs are required for many bacterial pathways, such as outer membrane assembly (Gatsos et al. 2008), bio-mineralization of iron oxides in magnetotactic bacteria (Zeytuni et al. 2011) and pathogenesis ( Edqvist et al. 2006; Tiwari et al. 2009). In addition, mutations in TPR-containing proteins have been linked to a variety of human diseases, such as chronic granulomatous disease and Leber’s congenital amaurosis (D'Andrea & Regan 2003).
Title: UCBT Without Antithymocyte Globulin Results in Similar Survival but Better Quality of Life Compared with UPBSCT for the Treatment of Acute Leukemia

While previous studies have demonstrated improved outcomes in umbilical cord blood transplantation (UCBT) by omitting antithymocyte globulin (ATG) in the conditioning regimen, this approach has not been comparatively studied in unrelated peripheral blood stem cell transplantation (UPBSCT). To compare the risks and benefits between UCBT without ATG and UPBSCT in patients with acute leukemia (AL). This was a multicenter retrospective study of 79 patients who underwent UCBT (myeloablative conditioning without ATG) and 96 patients who underwent UPBSCT (myeloablative conditioning with ATG). The outcomes were graft failure, neutrophil engraftment, platelet engraftment, acute graft-versus-host disease (aGVHD), chronic graft-versus-host disease (cGVHD), transplantation-related mortality (TRM), relapse, overall survival (OS), and leukemia-free survival (LFS). Follow-up was censored on October 31 st , 2016. The engraftment was similar between the two groups but the granulocyte and platelet recovery was slower in the UCBT group (both P<0.001). The
NILE TILAPIA FED ENZYME COMPLEX ADDED AT DIFFERENT LEVELS AND PROCESSING STEPS 1

Enzyme activity in solid-state fermentation complex added to diets before and after extrusion process and its influence on Nile tilapia (Oreochromis niloticus) performance were evaluated. The following enzymes were analyzed: b-glucosidase, pectinase, xylanase, endoglucanase, amylase, protease, and phytase. The fish were fed five experimental diets: a control diet (without enzyme), two test diets supplemented before extrusion (400 and 800 ppm SSF), and two test diets after extrusion or “on top” (400 and 800 ppm SSF). The experiment had a completely randomized design with four replicates and seven fish per tank. Average initial weight was 10.37 ± 0.95 g, and fish were fed four times a day to satiation for 56 days. The following performance parameters were evaluated: final weight, weight gain, feed conversion, survival, specific growth rate, and body composition. The results were compared using ANOVA and Tukey’s test at p<0.05. All the enzymes showed partial or total losses of activity when subjected to the extrusion process, except phytase. No differences were observed for survival, water quality parameters, and body composition. On-top inclusion provided a better performance, which is observed through increases in final weight, weight gain, and feed conversion. As a result, 800 ppm of enzyme complex SSF should be added "on top", that is after extrusion, to improve tilapia performance and, consequently, contribute to the fish farming financial efficiency.
Development of tea waste/kapok fiber composite paper

An awareness to sustain world’s green environment have triggered many efforts to use agricultural wastes as sources of fibres in pulp and paper making industries. In this research, tea waste/kapok fibre composite papers at various amounts of kapok contents were prepared. Tea waste, a by-product from tea industry, was treated with sodium hydroxide (NaOH) solution to remove non-cellulosic substances such as lignin, wax and hemicellulose. It was found that the tea waste papers treated with 15 wt% - 25 wt% NaOH solutions exhibited good tear indexes. Addition of kapok fibre into the tea waste had reduced the tear indexes of the composite papers. Higher kapok contents caused the entanglement of their long fibres, resulting in agglomeration of the fibres throughout the tea waste matrix. This was proven by the images of scanning electron microscopy. However, the water repellent properties of the composite papers were improved at an average of 52.3 % with respect to that of pure tea waste paper. The hydrophobic nature of the kapok fibre was responsible for the results. Overall, tea waste/kapok fibre composite has offered an improved paper property, where each fibre compensated the weakness of its counterpart. This indicates with agrowastes can be manipulated in such way to meet the requirements for pulp and paper making industries.
PRESERVATION OF MICROBIAL SPOILAGE OF FOOD BY BIOSURFACTANT-BASED COATING

Objectives: Microbial spoilage of food is one of the leading causes of food scarcity worldwide, which could have devastating effect on the socioeconomic of any country. Along with classical food preservation methods, various innovative approaches can significantly increase the food safety. Biosurfactants are the amphiphilic microbial metabolites, while many of them have potential antimicrobial properties and therefore can be used for food preservation. Methods: During this study, three biosurfactants obtained from Bacillus subtilis (two of them) and Pseudomonas sp. (rhamnolipid) were screened for their antifungal activity against Aspergillus oryzae (MTCC 1846), Fusarium solani (MTCC 350), and Curvularia sp. by various in vitro and in vivo methods. Results: During this study, among three surfactants only Pseudomonas sp. biosurfactant (rhamnolipid) exhibited significant antifungal activity against A. oryzae, F. solani, and Curvularia sp. Further, the rhamnolipid coating (1 mg/ml) on lemon, potato and tomato protected them from fungal spoilage up to 15 days at room temperature in contrast to untreated samples which started spoiling in 6–7 days. Discussion: Above findings emphasis on the potential use of biosurfactants for the preservation of food items, however, a detailed study to ensure the safety of biosurfactant is of prerequisite.
Use of sensory cues by fish crows Corvus ossifragus preying on artificial bird nests

Santisteban, L. , Sieving, K. E. and Avery, M. L. 2002. Use of sensory cues by fish crows Corus ossifragus preying on artificial bird nests. ‐ J. Avian Biol. 33: 245‐252. How predators locate avian nests is poorly understood and has been subjected to little experimental inquiry. We examined which sensory stimuli were important in the nest-finding behavior of fish crows Corus ossifragus, a common nest predator in the southeastern United States. Using an array of potted trees in a large enclosure, we presented artificial nests to captive crows and quantified responses to visual, auditory, and olfactory nest cues, and nest position. Partial ranks of nest-treatment preferences were analyzed using log-linear models. Nest visibility significantly increased the likelihood of predation by fish crows and increasing nest height was a marginally significant influence on nest vulnerability; no responses were apparent to auditory or olfactory stimuli. Our findings demonstrate that fish crows are visually-oriented nest predators that may preferentially prey on, or more readily encounter, above-ground nests. Moreover, the experimental design provides a new method for evaluating predator-prey interactions between nests and their predators. This study also illustrates how sensory capabilities of predators can interact with nest types to determine nest predation patterns.
Sugar beet production in the European Union and their future trends

The main aim of this paper is to analyze the yield (t/ha) and the production costs of white (polarized) sugar and sugar beet in the main European producer countries in order to identify main development trends. The partial objectives of this study are: to analyse the production costs (variable costs) of sugar and sugar beet of the main European producers (France, Germany, Poland, United Kingdom, Czech Republic), to compare sugar beet yield of Tereos France and Tereos TTD a.s. , to analyse sugar beet yield potential and their trends. The used methods are chain and basic indexes and regression analysis of time series/trend data - for predicting on next tree years. The main producers of sugar beet in the European Union (i.e. France, Germany, Poland, United Kingdom, and Czech Republic) can not achieve goal of sugar yield 15t/ha while maintaining the amount of variable (direct) costs at 15 EUR/tone of sugar beet in the business year 2015/2016. Pieces of knowledge introduced in this paper resulted from solution of an institutional research intention MSM 6046070906 â€žEconomics of resources of Czech agriculture and their efficient use in frame of multifunctional agri-food systemsâ€œ.
Functional Defect of Variants in the ATP-binding Sites of ABCB 4 and their Rescue by the CFTR Potentiator , Ivacaftor ( VX-770 )

Jean-Louis Delaunay(jean-louis.delaunay@inserm.fr) Alix Bruneau(alix.bruneau@inserm.fr) Brice Hoffmann (brice.hoffmann@impmc.upmc.fr) Anne-Marie Durand-Schneider (anne-marie.durand-schneider@inserm.fr) Véronique Barbu (veronique.barbu@inserm.fr) Emmanuel Jacquemin(emmanuel.jacquemin@aphp.fr) Michèle Maurice(michele.maurice@inserm.fr) Chantal Housset(chantal.housset@inserm.fr) Isabelle Callebaut(isabelle.callebaut@impmc.upmc.fr) Tounsia Aït-Slimane (tounsia.ait-slimane@inserm.fr)
Phytocompounds Targeting Cancer Angiogenesis Using the Chorioallantoic Membrane Assay

Cancer is the second cause of mortality worldwide. Angiogenesis is an important process involved in the growth of primary tumors and metastasis. New approaches for controlling the cancer progression and invasiveness can be addressed by limiting the angiogenesis process. An increasingly large number of natural compounds are evaluated as angiogenesis inhibitors. The chorioallantoic membrane (CAM) assay represents an in vivo attractive experimental model for cancer and angiogenesis studies as prescreening to the murine models. Since the discovery of tumor angiogenesis, the CAM has been intensively used in cancer research. The advantages of this in vivo technique are in terms of low time-consuming, costs, and a lower number of sacrificed animals. Currently, a great number of natural compounds are being investigated for their effectiveness in controlling tumor angiogenesis. Potential reducing of angiogenesis has been investigated by our group for pentacyclic triterpenes, in various formulations, and differences in their mechanism were registered. This chapter aims to give an overview on a number of phytocompounds investigated using in vitro, murine models and the chorioallantoic membrane assay as well as to emphasize the use of CAM assay in the study of natural compounds with potential effects in malignancies.
For consideration of publication in Hepatology Cholangiocyte Autophagy Contributes to Hepatic Cystogenesis in Polycystic Liver Disease and Represents a Potential Therapeutic Target Short title : Autophagy in PLD

Polycystic liver disease (PLD) is a group of genetic disorders with limited treatment and significant morbidity. Hepatic cysts arise from cholangiocytes exhibiting a hyperproliferative phenotype. Considering that hyperproliferation of many cell types is associated with alterations in autophagy, we hypothesized that autophagy is altered in PLD cholangiocytes, contributes to hepatic cystogenesis, and might represent a potential therapeutic target. We employed Functional Pathway Cluster Analysis (FPCA) and NextGen Sequencing (NGS), transmission electron microscopy, immunofluorescence confocal microscopy, and western blotting to assess autophagy in human and rodent PLD cholangiocytes. A 3-D culture model was utilized to study the effects of molecular and pharmacologic inhibition of autophagy on hepatic cystogenesis in vitro, and the PCK rat, an animal model of PLD, to study the effects of hydroxychloroquine (HCQ), a drug that interferes with the autophagy pathway, on disease progression in vivo. Assessment of the transcriptome of PLD cholangiocytes followed by FPCA revealed that the autophagy-lysosomal pathway is one of the most altered pathways in PLD. Direct evaluation of autophagy in PLD cholangiocytes both in vitro and in vivo showed increased number and size of autophagosomes, lysosomes and autolysosomes, overexpression of autophagy-related proteins (Atg5, Beclin1, Atg7, and LC3), and enhanced autophagic flux associated with activation of the cAMP-PKACREB signaling pathway. Molecular and pharmacologic intervention in autophagy with ATG7 siRNA, Bafilomycin A1 and HCQ reduced proliferation of PLD cholangiocytes in vitro and growth of hepatic cysts in 3-D cultures. HCQ also efficiently inhibited hepatic cystogenesis in the PCK rat. Conclusion: Autophagy is increased in PLD cholangiocytes, contributes to hepatic cystogenesis, and represents a potential therapeutic target for disease treatment. Page 3 of 47 Hepatology Hepatology This article is protected by copyright. All rights reserved.
The graphite mineralization in the Aracoiába-Baturité District (CE): geotectonic and metallogenetic implications

Na regiao de Aracoiaba-Baturite, a subunidade Baturite (Grupo Ceara) foi dividida em dominios Baturite I e II. O Dominio Baturite I compreende uma sequencia supracrustal paraderivada, formada em ambiente correspondente a zona de talude continental, sobreposta a rochas ortoderivadas paleoproterozoicas do Complexo Gnaissico-Migmatitico. Os gnaisses aluminosos portadores de grafita associados ao Dominio Baturite I foram comparados aos tipos encontrados nos cinturoes khondaliticos de diversas partes do mundo. O Dominio II apresenta ortoanfibolitos e metaturbiditos, tendo estas rochas sido formadas em zona de sope de talude-planicie abissal em facies de mar profundo. As ocorrencias de grafita dispoem-se desde Aracoiaba ate a regiao de Caninde, acompanhando a Subunidade Baturite, que representa um importante metalotecto regional. Os depositos de grafita sao do tipo grafita disseminada e macica, as quais estao, respectivamente, associadas a gnaisse grafitoso (tipo disseminado) e a veios (tipo macico) e apresentam diferentes origens geneticas (singenetica e epigenetica). Valores de δ 13C entre -30 e -20% indicam que a grafita e derivada de materia orgânica. As mineralizacoes epigeneticas sao encontradas no entorno do pluton de Pedra Aguda (Complexo Gabro-Dioritico Anelar de Pedra Aguda) a uma distância maxima do corpo de 2,5 km. A faixa grafitosa do Distrito de Aracoiaba-Baturite foi considerada como um remanescente de uma zona de subduccao/zona de sutura derivada do processo de fechamento de um antigo oceano com a consequente colagem continental de dois microcratons (bloco Baturite a norte e bloco Caio Prado a sul) durante a orogenia Brasiliana.
Effects of soaking, steaming and vacuum microwave heating on structure and physical property of quick cooking Job’s Tear

Job’s Tears is one of the most fruitful nutritional foods. However, it consumes a lot of cooking time prior to consumption. If the cooking time of Job’s Tears could be reasonably reduced, it would be more convenient and an incentive to consumers to eat more Job’s Tears. The main objective of this study is to reduce cooking time of Job’s Tears by reducing its moisture with vacuum microwave heating. The experiments were conducted by soaking (6 and 7 h) and steaming (at 100 o C for 20 and 30 min), after which the grains were dehydrated by vacuum microwave (60, 80 and 100% power). It was found that increased soaking and steaming times decreased percentages of water uptake and cooking time, whereas increasing the microwave power levels did not. The lightness (L*) changed significantly with increased soaking-, steaming- and power conditions. Scanning electron micrographs (SEM) showed the absolute change in starch granules, becoming more honeycomb-like in structure and formed fractures after strong treatment. Based on these results, the optimal treatment for precooked Job’s Tears grains consisted of soaking for 7 h, steaming for 30 min and drying at 80% microwave power. By using these combining parameters, the reduction of the cooking time by about 53.3% while still maintaining good sensory qualities (data not shown), was achieved.
Characterization of plasmids from multiple antibiotic resistant Vibrios isolated from molluscan and crustacean of Kerala.

The present study was aimed to investigate the occurrence of multiple antibiotic resistance, the role of plasmids and their relationship with the multiple antibiotic resistance in 30 Vibrios isolated from selected seafoods of Kerala, India. The isolated Vibrios were screened for plasmid DNA and were tested for transformation and conjugation efficiencies. Antibiotic resistance studies revealed that the levels of Multiple Antibiotic Resistance of Vibrio strains to various antibiotics differed considerably and were found to be varied in the expression of their resistance pattern. All studied Vibrio strains were found to be resistant to antibiotics; amoxycillin, ampicillin and carbeniciliin. 87 % were resistant to rifampicin; 74% to cefuroxime; 67 to streptomycin; 53% to norfloxacin and ciprofloxacin and 47% to furazolidone and nalidixic acid. The nine strains isolated from crustaceans and from molluscans have been found to harbor 1-3 plasmids with size varies from 5.98 kb to 19.36 kb. The average transformation efficiency is about 5x10 –8 and the conjugation efficiency is varied from 2.1x 10 -3 to 10 -9 . The study of antibiotic resistance pattern could be useful to test the extent of drug resistance in seafoods and help to devise a nationwide antibiotic policy.
Different time trends by gender for the incidence of Hodgkin ’ s lymphoma among young adults in the USA : a birth cohort phenomenon

Objectives—Hodgkin’s lymphoma (HL) is one of the most common cancers among young adults. We investigated the time trends for HL among the 20–44 age group in the USA by gender to identify the potential factors accounting for the incidence trends. Methods—Using data from the National Cancer Institute’s Surveillance, Epidemiology, and End Results program for 1973–2010, we conducted age–period–cohort modeling to evaluate birth cohort patterns on incidence trends of HL over time. Results—For all races combined, the age-adjusted incidence patterns were similar to that of whites. The birth cohort patterns for whites and all races were similar, but the patterns differed according to gender. Specifically, except for the 1970–1975 birth cohort, all other birth cohorts tongzhang.zheng@yale.edu. Conflict of interest The authors declare that they have no conflict of interest. HHS Public Access Author manuscript Cancer Causes Control. Author manuscript; available in PMC 2016 April 25. Published in final edited form as: Cancer Causes Control. 2014 August ; 25(8): 923–931. doi:10.1007/s10552-014-0391-5. A uhor M anscript
Human MutationMUTATION UPDATE Update on SLC 26 A 3 Mutations in Congenital Chloride Diarrhea

Congenital chloride diarrhea (CLD) is an autosomal recessive disorder with around 250 cases reported so far. Life-long secretory diarrhea is caused by mutations in the solute carrier family 26 member 3 (SLC26A3) gene disrupting the epithelial Cl /HCO3 transport in the ileum and colon. Although salt substitution allows favorable outcome, possible manifestations include renal impairment, intestinal inflammation, and male infertility. At least 55 mutations, of which 21 (38%) novel are reported here, cause CLD. Majority of the mutations are single nucleotide substitutions (n 5 30; 55%) with 18 missense, 7 nonsense, and 5 splice-site mutations. Additional mutations are minor deletions/insertions or their combinations (n 5 21; 38%), major deletions (n 5 3; 5%), and a major insertion (n 5 1; 2%). Distinct founder mutations appear in Finland, Poland, and Arab countries, whereas patients from other countries carry rare homozygous or compound heterozygous mutations. None of the studied SLC26A3 mutants shows significant Cl /HCO3 exchange activity in vitro, and accordingly, evidence of genotype–phenotype differencies remain nonexistent. The domain interaction between SLC26A3 and the cystic fibrosis transmembrane conductance regulator (CFTR) raises a possibility of CFTR modulation in the pathogenesis of CLD. This review summarizes the current knowledge of SLC26A3 mutations and polymorphisms, and their biological and clinical relevance. Hum Mutat 32:715–722, 2011. & 2011 Wiley-Liss, Inc.
Elementary Engineering Student Interests and Attitudes: A Comparison across Treatments

Students were asked to rate their interest and attitudes after participating in a school-year engineering curriculum unit, as compared to their remembered interest and attitudes of the summer before. The survey was developed from earlier research by the authors, as well as from surveys of science attitudes reported in the literature (Germann, 1988; Lichtenstein et al., 2008; Owen et al., 2008; Weinburgh & Steele, 2000). We report on the development and testing of the survey. We also report on our methods of analysis and results, looking at differences between the treatment groups as well as the moderating effect of student demographics.
Myogenin , AP 2 b , NOS-1 , and HMGA 2 Are Surrogate Markers of Fusion Status in Rhabdomyosarcoma

Pediatric rhabdomyosarcoma (RMS) is traditionally classified on the basis of the histologic appearance into alveolar (ARMS) and embryonal (ERMS) subtypes. The majority of ARMS contain a PAX3-FOXO1 or PAX7-FOXO1 gene fusion, but about 20% do not. Intergroup Rhabdomyosarcoma Study stage-matched and group-matched ARMS typically behaves more aggressively than ERMS, but recent studies have shown that it is, in fact, the fusion status that drives the outcome for RMS. Gene expression microarray data indicate that several genes discriminate between fusion-positive and fusion-negative RMS with high specificity. Using tissue microarrays containing a series of both ARMS and ERMS, we identified a panel of 4 immunohistochemical markers—myogenin, AP2b, NOS-1, and HMGA2—which can be used as surrogate markers of fusion status in RMS. These antibodies provide an alternative to molecular methods for identification of fusion-positive RMS, particularly in cases in which there is scant or poor-quality material. In addition, these antibodies may be useful in fusion-negative ARMS as an indicator that a variant gene fusion may be present.
Entrepreneurial cognitions: Linking willingness and ability expert scripts to self-efficacy and new venture creation decisions

In bringing the concept of expert scripts to bear upon the venture creation decision and following a script-scenario construction model the existence and degree of mastery of scripts are inferred from a selection of items consisting of paired script recognition and distracter cues. These cognition cues are then linked to motivation, operationalised with the general self-effcacy construct. Individuals with varying demographics who met qualifying criteria from an unrestricted range of businesses and industries (n = 161) were surveyed. Moderate support was found to consistently recognise and select statements that evidence expert entrepreneurial scripts. Associations with self-effcacy were modest, suggesting weak links between entrepreneurial cognition and motivation.