bluuebunny/crossref_metadata_2025 huggingface dataset:
Sexual size dimorphism in relation to age and growth based on skeletochronological analysis in a Tibetan frog
Authors: Lu Xin , Ma Xiaoyan
Published: July 2009

The number of lines of arrested growth (LAGs) in diaphyseal cross-sections of phalanges or femora was used to assess individual age and growth of 612 Nanorana parkeri, including 363 males, 143 females, 70 juveniles, and 36 tadpoles, in a population from central Tibet, China. The oldest immature frogs had an age of 6 years; both the youngest sexually mature males and females were 3 years old. However, the majority of individuals bred for the first time at 5 years in males and 6 years in females. Females had greater average age (6.27 years) and lifespan (11 years) than males (5.72 and 10 years). At the population level, females, on average, were significantly larger in body length (40.3 mm) than males (37.0 mm). However, the significant size difference only occurred when both sexes were over 6 years old, at which most frogs attained maturity. Growth curve and growth rate estimated for each sex based on a von Bertalanffy model showed that females had a larger asymptotic size (54.2 mm) but smaller growth coefficient k (0.16) than males (40.0 mm, 0.37), and that females had greater growth rate than males in all age classes, except at metamorphosis. According to these results, we concluded that the sexual difference of growth between pre- and post-maturation periods contributed to the age-specific sexual size dimorphism of N. parkeri.
The effect of preservation on lizard morphometrics – an experimental study
Authors: Vervust Bart , Van Dongen Stefan , Van Damme Raoul
Published: July 2009

The millions of conserved biological specimens that are stored upon the shelves of Natural History Museums across the world constitute a capital of biological information that is becoming increasingly accessible to students of various disciplines. Most students have taken measures of body size and shape of preserved museum specimens to test various elements of ecological and evolutionary theory. One possible hazard of using morphological measurements of museum specimens is that fixation and preservation may deform bodies or body parts, but most researchers implicitely assume that the magnitude of conservation-induced distortions are insufficient to jeopardize their analyses. However, no study to our knowledge has clearly quantified those possible distortions. In this study, we have measured 17 morphological variables on a set of 65 green iguanas (Iguana iguana), starting shortly after their death and then repeatedly over a two month period, a period during which they were fixated and preserved. Our aims were (1) to quantify and compare the deformation in different morphometrics frequently used in evolutionary studies; (2) to determine the amount of temporal variation that can be attributed to reader variability; and (3) to build conversion equations that should improve the reliability of morphological comparisons of life and conserved specimens. Conserved lizards revealed major reduction in snout vent length and body weight. Changes in other measured traits are more subtle, but persistent. These facts disturb analyses when using relative measurements, especially when comparing (often small) intraspecific differences or even morphological differences within populations in a temporal frame. We urge caution in using museum specimens as direct proxies for living organisms in ecological and taxonomic studies.
Institutional Misconduct, Delinquent Background, and Rearrest Frequency Among Serious and Violent Delinquent Offenders
Authors: Trulson Chad R. , DeLisi Matt , Marquart James W.
Published: July 2009

This study examines the relationship of institutional misconduct to postrelease rearrest, controlling for a battery of preincarceration variables typically found to influence recidivism among institutionalized delinquent offenders. Based on data from 1,804 serious and violent male delinquents released from a large southern juvenile correctional system, this research found limited support for institutional misconduct as a determinant of recidivism. Of all measures of misconduct, only the rate of total misconduct infractions was related to postrelease rearrest, and this effect was generally small and found only in the rearrest frequency model, not the dichotomous rearrest model. Implications for research and practice are explored.
Making Sense of a Barrier: U.S. News Discourses on Israel’s Dividing Wall
Authors: Ismail Amani
Published: July 2009

This study investigates mainstream U.S. newspaper discourses concerning the dividing wall that Israel built as a separation barrier from the West Bank. In so doing, it ultimately seeks to further explore news media’s role as agents of social control and influence. Findings indicate that in invoking the nationalism dimension, the news did not handle the primordial element adequately, and that emphasis on violence and revenge as well as the tragedy of child victimization was particularly prominent. The study argues that while the media’s role in social control and influence may be significant, the adequacy with which they perform this role is questionable.
Lessons Learned in Antifibrinolytic Therapy: The BART Trial
Authors: Murkin John M.
Published: July 2009

Despite nearly 2 decades of published reports and clinical trials demonstrating the relative safety and efficacy of aprotinin in adult cardiac surgical patients at increased risk of bleeding—culminating in an official endorsement of the usage of aprotinin in such patients from both cardiac surgery and anesthesiology subspecialty committees—several more recent studies have raised profound concerns regarding the safety of aprotinin in these same patients. These studies and the implications thereof have ultimately resulted in the withdrawal of aprotinin from clinical usage internationally. This article will briefly review these developments with the hope of understanding how this abrupt turnabout took place and will attempt to understand how such events can be avoided in the future.
Online campaigning: an opening for the outsiders? An analysis of Finnish parliamentary candidates' websites in the 2003 election campaign
Authors: Strandberg Kim
Published: July 2009

This article examines the campaign websites of the 2003 Finnish parliamentary candidates. By examining candidate-level online competition in the candidate-centred Finnish context, individual-level variables are brought to attention in explaining website uptake and how campaign sites are used by candidates in terms of functions and sophistication. The findings show that the distribution of the candidates' web presence was skewed towards an over-representation of major party candidates. Moreover, in predicting candidate website functions and sophistication, belonging to a major party was a strong predictor. Candidate competitiveness and incumbency were also found to be significant predictors. Nevertheless, the findings in the article indicate that the relevance of these political factors may be less significant than other factors, for example genre effects, in explaining candidate website content and presentation.
Wikinomics and its discontents: a critical analysis of Web 2.0 business manifestos
Authors: Van Dijck José , Nieborg David
Published: July 2009

'Collaborative culture', 'mass creativity' and 'co-creation' appear to be contagious buzzwords that are rapidly infecting economic and cultural discourse on Web 2.0. Allegedly, peer production models will replace opaque, top-down business models, yielding to transparent, democratic structures where power is in the shared hands of responsible companies and skilled, qualified users. Manifestos such as Wikinomics (Tapscott and Williams, 2006) and 'We-Think' (Leadbeater, 2007) argue collective culture to be the basis for digital commerce. This article analyzes the assumptions behind this Web 2.0 newspeak and unravels how business gurus try to argue the universal benefits of a democratized and collectivist digital space. They implicitly endorse a notion of public collectivism that functions entirely inside commodity culture. The logic of Wikinomics and 'We-Think' urgently begs for deconstruction, especially since it is increasingly steering mainstream cultural theory on digital culture.
The Physician’s Role in Reducing SIDS
Authors: Eron Nancy B. , Dygert Karen M. , Squillace Cynthia , Webster Noah J. , Andrianos Anne , Crockett Elizabeth G. , Consenstein Larry
Published: July 2009

Despite a sustained public education campaign aimed at reducing the risks of sudden infant death syndrome (SIDS), it remains one of the leading causes of infant death. This study aims to determine physicians’ knowledge of SIDS and whether physicians are discussing how to reduce the risk of SIDS with parents. A cross-sectional survey is sent to 912 pediatricians, family practitioners, and obstetrician-gynecologists in Central New York State. The response rate is 23.5%. Almost all respondents (99.5%) agree that certain measures can be taken to reduce the risks of SIDS, but 30.3% incorrectly state that the safest sleep position is something other than on the back. Although 97.6% agree that it is important to discuss SIDS with parents, 30% admit to not discussing this information. To continue to decrease the SIDS rate, physicians must take responsibility for educating themselves and parents about safe sleep practices and other SIDS risk factors.
Soft Body Dynamics After 9/11
Authors: Warren-Crow Heather
Published: July 2009

Endowing buildings with the capacity for movement and transformation, animated architecture represents the expansion of animation from cinematic and televisual space to real-space environments. A key example of animation in architecture is Oosterhuis.nl's proposal for a new World Trade Center. In line with similar work by fellow Dutch firm NOX, Oosterhuis.nl's Ground Zero embraces animation through references to mobility, liveliness and metamorphosis. It points to the prominence of animated form in contemporary design practice and the ubiquitous use of animation software in the process of architectural design. At the same time, Ground Zero reveals post-9/11 anxieties surrounding the soft and tender flesh of the object world. The author's analysis of Ground Zero's discursive production of life maps crucial changes in our spatial imagination and the politics of form.
Beowulf: The Digital Monster Movie
Authors: Brown William
Published: July 2009

Robert Zemeckis' Beowulf (2007) is the latest film made using motion capture technology, a film that tells the story of a hero's quest to defeat a series of monsters.This article examines not only the thematic role of monstrosity in the film, but also the way in which the film's very construction, through motion capture and CGI, can be understood as monstrous. That is, after Deleuze's Cinema 2: The Time Image (1989[1985]), Beowulf can be understood as typifying a cinema that has seen a shift from montage to montrage, a cinema that shows. Analysing the aesthetics of monstrosity in Beowulf, the author also considers how the film's motion capture synthespian performances can be understood as comic through Henri Bergson's (1912[1900]) theory of laughter, which suggests that humans laugh at mechanized human beings.
New trends in arthroscopic management of type 1-B TFCC injuries with DRUJ instability
Authors: ATZEI A.
Published: July 2009

Advances in radiocarpal and distal radioulnar joint (DRUJ) diagnostic arthroscopy permits a treatment-oriented classification of triangular fibrocartilage complex (TFCC) peripheral tears: 1) repairable distal tears; 2) repairable complete tears; 3) repairable proximal tears; 4) non-repairable tears; and 5) tears associated with DRUJ arthritis. Class 1 tears should be sutured; Class 2 and 3 are associated with DRUJ instability and require TFCC reattachment to the fovea; Class 4 tears need reconstruction using a tendon graft and Class 5 tears require an arthroplasty. Arthroscopic assisted TFCC foveal reattachment is possible through the direct foveal portal, a dedicated DRUJ working portal. Arthroscopic TFCC reconstruction using a tendon graft showed promising results.
Lunate trabecular structure: a cadaveric radiograph study of risk factors for Kienböck's disease
Authors: Owers K. L. , Scougall P. , Dabirrahmani D. , Wernecke G. , Jhamb A. , Walsh W. R.
Published: July 2009

The aetiology of Kienböck's disease is unknown. Ulnar variance and lunate shape are possible mechanical risk factors. This study assessed the trabecular structure in 29 cadaveric lunates using microCT and correlated this with ulnar variance and lunate shape on plain radiographs and with bone density assessed using conventional CT. The bony trabeculae within the lunate were shown to run almost perpendicular to the proximal and distal joint surfaces in the coronal plane; these trabeculae met the subchondral bone at an angle between 72–102°. In lunates whose proximal and distal articular surfaces are not parallel, the trabecular orientation may be less able to resist compressive forces and more susceptible to fracture.
Joint formation in dissimilar Al alloy/steel and Mg alloy/steel friction stir spot welds
Authors: Liyanage T. , Kilbourne J. , Gerlich A. P. , North T. H.
Published: July 2009

The microstructural features and overlap shear strength properties of friction stir spot welds made between Al 6111 and low carbon steel, and between Mg alloy AM60 and DP600 dual phase steel, are investigated. When Al 6111 is the upper sheet in the dissimilar sandwich, completed spot welds show evidence of intermetallic layer formation and cracking. Increasing tool pin penetration into the lower sheet provided increased mechanical interlocking of the sheets due to clinching. However, increasing penetration also promoted intermetallic formation and cracking in completed welds. However, dissimilar AM60/DP600 steel friction stir spot welds produced with AM60 as the upper sheet in the dissimilar sandwich do not show evidence of intermetallic formation and cracking may be avoided by removing the zinc coating on the DP600 steel before the friction stir spot welding operation.
Semi-automated curation of protein subcellular localization: a text mining-based approach to Gene Ontology (GO) Cellular Component curation
Authors: Van Auken Kimberly , Jaffery Joshua , Chan Juancarlos , Müller Hans-Michael , Sternberg Paul W
Published: July 2009

Background

Manual curation of experimental data from the biomedical literature is an expensive and time-consuming endeavor. Nevertheless, most biological knowledge bases still rely heavily on manual curation for data extraction and entry. Text mining software that can semi- or fully automate information retrieval from the literature would thus provide a significant boost to manual curation efforts.

Results

We employ the Textpresso category-based information retrieval and extraction system http://www.textpresso.org, developed by WormBase to explore how Textpresso might improve the efficiency with which we manually curate C. elegans proteins to the Gene Ontology's Cellular Component Ontology. Using a training set of sentences that describe results of localization experiments in the published literature, we generated three new curation task-specific categories (Cellular Components, Assay Terms, and Verbs) containing words and phrases associated with reports of experimentally determined subcellular localization. We compared the results of manual curation to that of Textpresso queries that searched the full text of articles for sentences containing terms from each of the three new categories plus the name of a previously uncurated C. elegans protein, and found that Textpresso searches identified curatable papers with recall and precision rates of 79.1% and 61.8%, respectively (F-score of 69.5%), when compared to manual curation. Within those documents, Textpresso identified relevant sentences with recall and precision rates of 30.3% and 80.1% (F-score of 44.0%). From returned sentences, curators were able to make 66.2% of all possible experimentally supported GO Cellular Component annotations with 97.3% precision (F-score of 78.8%). Measuring the relative efficiencies of Textpresso-based versus manual curation we find that Textpresso has the potential to increase curation efficiency by at least 8-fold, and perhaps as much as 15-fold, given differences in individual curatorial speed.

Conclusion

Textpresso is an effective tool for improving the efficiency of manual, experimentally based curation. Incorporating a Textpresso-based Cellular Component curation pipeline at WormBase has allowed us to transition from strictly manual curation of this data type to a more efficient pipeline of computer-assisted validation. Continued development of curation task-specific Textpresso categories will provide an invaluable resource for genomics databases that rely heavily on manual curation.
Zebrafish RNase T2 genes and the evolution of secretory ribonucleases in animals
Authors: Hillwig Melissa S , Rizhsky Ludmila , Wang Ying , Umanskaya Alisa , Essner Jeffrey J , MacIntosh Gustavo C
Published: July 2009

Background

Members of the Ribonuclease (RNase) T2 family are common models for enzymological studies, and their evolution has been well characterized in plants. This family of acidic RNases is widespread, with members in almost all organisms including plants, animals, fungi, bacteria and even some viruses. While several biological functions have been proposed for these enzymes in plants, their role in animals is unknown. Interestingly, in vertebrates most of the biological roles of plant RNase T2 proteins are carried out by members of a different family, RNase A. Still, RNase T2 proteins are conserved in these animals

Results

As a first step to shed light on the role of animal RNase T2 enzymes, and to understand the evolution of these proteins while co-existing with the RNase A family, we characterized RNase Dre1 and RNase Dre2, the two RNase T2 genes present in the zebrafish (Danio rerio) genome. These genes are expressed in most tissues examined, including high expression in all stages of embryonic development, and their expression corresponds well with the presence of acidic RNase activities in every tissue analyzed. Embryo expression seems to be a conserved characteristic of members of this family, as other plant and animal RNase T2 genes show similar high expression during embryo development. While plant RNase T2 proteins and the vertebrate RNase A family show evidences of radiation and gene sorting, vertebrate RNase T2 proteins form a monophyletic group, but there is also another monophyletic group defining a fish-specific RNase T2 clade.

Conclusion

Based on gene expression and phylogenetic analyses we propose that RNase T2 enzymes carry out a housekeeping function. This conserved biological role probably kept RNase T2 enzymes in animal genomes in spite of the presence of RNases A. A hypothetical role during embryo development is also discussed.
Screening of variants for lactase persistence/non-persistence in populations from South Africa and Ghana
Authors: Torniainen Suvi , Parker M Iqbal , Holmberg Ville , Lahtela Elisa , Dandara Collet , Jarvela Irma
Published: July 2009

Background

Lactase non-persistence is a condition where lactase activity is decreased in the intestinal wall after weaning. In European derived populations a single nucleotide polymorphism (SNP) C/T-13910 residing 13.9 kb upstream from the lactase gene has been shown to define lactase activity, and several other single nucleotide polymorphisms (G/C-14010 T/G-13915, C/G-13907 and T/C-13913) in the same region have been identified in African and Middle East populations.

Results

The T-13910 allele most common in European populations was present in 21.8% mixed ancestry (N = 62) individuals and it was absent in the Xhosa (N = 109) and Ghana (N = 196) subjects. Five other substitutions were also found in the region covering the previously reported variants in African and Middle East populations. These included the G/C-14010 variant common in Kenyan and Tanzanian populations, which was present in 12.8% of Xhosa population and in 8.1% of mixed ancestry subjects. Two novel substitutions (C/T-14091 and A/C-14176) and one previously reported substitution G/A-13937 (rs4988234) were less common and present only in the Xhosa population. One novel substitution G/A-14107 was present in the Xhosa and Ghanaian populations. None of the other previously reported variants were identified.

Conclusion

Identification of the G/C-14010 variant in the Xhosa population, further confirms their genetic relatedness to other nomadic populations members that belong to the Bantu linguistic group in Tanzania and Kenya. Further studies are needed to confirm the possible relationship of the novel substitutions to the lactase persistence trait.
Transcriptional profiling in response to terminal drought stress reveals differential responses along the wheat genome
Authors: Aprile Alessio , Mastrangelo Anna M , De Leonardis Anna M , Galiba Gabor , Roncaglia Enrica , Ferrari Francesco , De Bellis Luigi , Turchi Luana , Giuliano Giovanni , Cattivelli Luigi
Published: July 2009

Background

Water stress during grain filling has a marked effect on grain yield, leading to a reduced endosperm cell number and thus sink capacity to accumulate dry matter. The bread wheat cultivar Chinese Spring (CS), a Chinese Spring terminal deletion line (CS_5AL-10) and the durum wheat cultivar Creso were subjected to transcriptional profiling after exposure to mild and severe drought stress at the grain filling stage to find evidences of differential stress responses associated to different wheat genome regions.

Results

The transcriptome analysis of Creso, CS and its deletion line revealed 8,552 non redundant probe sets with different expression levels, mainly due to the comparisons between the two species. The drought treatments modified the expression of 3,056 probe sets. Besides a set of genes showing a similar drought response in Creso and CS, cluster analysis revealed several drought response features that can be associated to the different genomic structure of Creso, CS and CS_5AL-10. Some drought-related genes were expressed at lower level (or not expressed) in Creso (which lacks the D genome) or in the CS_5AL-10 deletion line compared to CS. The chromosome location of a set of these genes was confirmed by PCR-based mapping on the D genome (or the 5AL-10 region). Many clusters were characterized by different level of expression in Creso, CS and CS_AL-10, suggesting that the different genome organization of the three genotypes may affect plant adaptation to stress. Clusters with similar expression trend were grouped and functional classified to mine the biological mean of their activation or repression. Genes involved in ABA, proline, glycine-betaine and sorbitol pathways were found up-regulated by drought stress. Furthermore, the enhanced expression of a set of transposons and retrotransposons was detected in CS_5AL-10.

Conclusion

Bread and durum wheat genotypes were characterized by a different physiological reaction to water stress and by a substantially different molecular response. The genome organization accounted for differences in the expression level of hundreds of genes located on the D genome or controlled by regulators located on the D genome. When a genomic stress (deletion of a chromosomal region) was combined with low water availability, a molecular response based on the activation of transposons and retrotransposons was observed.
Exploring transcriptional signalling mediated by OsWRKY13, a potential regulator of multiple physiological processes in rice
Authors: Qiu Deyun , Xiao Jun , Xie Weibo , Cheng Hongtao , Li Xianghua , Wang Shiping
Published: July 2009

Background

Rice transcription regulator OsWRKY13 influences the functioning of more than 500 genes in multiple signalling pathways, with roles in disease resistance, redox homeostasis, abiotic stress responses, and development.

Results

To determine the putative transcriptional regulation mechanism of OsWRKY13, the putative cis-acting elements of OsWRKY13-influenced genes were analyzed using the whole genome expression profiling of OsWRKY13-activated plants generated with the Affymetrix GeneChip Rice Genome Array. At least 39 transcription factor genes were influenced by OsWRKY13, and 30 of them were downregulated. The promoters of OsWRKY13-upregulated genes were overrepresented with W-boxes for WRKY protein binding, whereas the promoters of OsWRKY13-downregulated genes were enriched with cis-elements putatively for binding of MYB and AP2/EREBP types of transcription factors. Consistent with the distinctive distribution of these cis-elements in up- and downregulated genes, nine WRKY genes were influenced by OsWRKY13 and the promoters of five of them were bound by OsWRKY13 in vitro; all seven differentially expressed AP2/EREBP genes and six of the seven differentially expressed MYB genes were suppressed by in OsWRKY13-activated plants. A subset of OsWRKY13-influenced WRKY genes were involved in host-pathogen interactions.

Conclusion

These results suggest that OsWRKY13-mediated signalling pathways are partitioned by different transcription factors. WRKY proteins may play important roles in the monitoring of OsWRKY13-upregulated genes and genes involved in pathogen-induced defence responses, whereas MYB and AP2/EREBP proteins may contribute most to the control of OsWRKY13-downregulated genes.
Visceral obesity and the risk of Barrett's esophagus in Japanese patients with non-alcoholic fatty liver disease
Authors: Akiyama Tomoyuki , Yoneda Masato , Inamori Masahiko , Iida Hiroshi , Endo Hiroki , Hosono Kunihiro , Yoneda Kyoko , Fujita Koji , Koide Tomoko , Tokoro Chikako , Takahashi Hirokazu , Goto Ayumu , Abe Yasunobu , Kirikoshi Hiroyuki , Kobayashi Noritoshi , Kubota Kensuke , Saito Satoru , Nakajima Atsushi
Published: July 2009

Background

The association between obesity and the risk of Barrett's esophagus (BE) is unclear. Furthermore, the association between visceral obesity and the risk of BE is entirely unknown.

Methods

We conducted a retrospective study in 163 patients with non-alcoholic fatty liver disease (NAFLD) who underwent both endoscopy and abdominal CT at an interval of less than a year at our institution. BE was endoscopically diagnosed based on the Prague C & M Criteria. The surface areas of visceral adipose tissue (VAT) and subcutaneous adipose tissue (SAT) were calculated from CT images at the level of the umbilicus. The correlations between the BMI, VAT, and SAT and the risk of BE were examined by univariate and multivariate analyses.

Results

Sixty-nine of the 163 study participants (42.3%) were diagnosed to have endoscopic BE, which was classified as short-segment BE (SSBE) in almost all of the cases. There were no significant differences in the age or gender distribution between the groups with and without BE. According to the results of the univariate analysis, VAT was significantly associated with the risk of BE; the BMI tended to be higher in the group with BE than in the group without BE, but this relation did not reach statistical significance. VAT was independently associated with the risk of BE even after adjustment for the BMI.

Conclusion

In Japanese patients with NAFLD, obesity tended to be associated with the risk of BE, and this risk appeared to be mediated for the most part by abdominal visceral adiposity.
Does acute maternal stress in pregnancy affect infant health outcomes? Examination of a large cohort of infants born after the terrorist attacks of September 11, 2001
Authors: Endara Skye M , Ryan Margaret AK , Sevick Carter J , Conlin Ava Marie S , Macera Caroline A , Smith Tyler C
Published: July 2009

Background

Infants in utero during the terrorist attacks of September 11, 2001 may have been negatively affected by maternal stress. Studies to date have produced contradictory results.

Methods

Data for this retrospective cohort study were obtained from the Department of Defense Birth and Infant Health Registry and included up to 164,743 infants born to active-duty military families. Infants were considered exposed if they were in utero on September 11, 2001, while the referent group included infants gestating in the same period in the preceding and following year (2000 and 2002). We investigated the association of this acute stress during pregnancy with the infant health outcomes of male:female sex ratio, birth defects, preterm birth, and growth deficiencies in utero and in infancy.

Results

No difference in sex ratio was observed between infants in utero in the first trimester of pregnancy on September 11, 2001 and infants in the referent population. Examination of the relationship between first-trimester exposure and birth defects also revealed no significant associations. In adjusted multivariable models, neither preterm birth nor growth deficiencies were significantly associated with the maternal exposure to the stress of September 11 during pregnancy.

Conclusion

The findings from this large population-based study suggest that women who were pregnant during the terrorist attacks of September 11, 2001 had no increased risk of adverse infant health outcomes.
Bacillus subtilis as potential producer for polyhydroxyalkanoates
Authors: Singh Mamtesh , Patel Sanjay KS , Kalia Vipin C
Published: July 2009

Polyhydroxyalkanoates (PHAs) are biodegradable polymers produced by microbes to overcome environmental stress. Commercial production of PHAs is limited by the high cost of production compared to conventional plastics. Another hindrance is the brittle nature and low strength of polyhydroxybutyrate (PHB), the most widely studied PHA. The needs are to produce PHAs, which have better elastomeric properties suitable for biomedical applications, preferably from inexpensive renewable sources to reduce cost. Certain unique properties of Bacillus subtilis such as lack of the toxic lipo-polysaccharides, expression of self-lysing genes on completion of PHA biosynthetic process – for easy and timely recovery, usage of biowastes as feed enable it to compete as potential candidate for commercial production of PHA.
Highly focused anopheline breeding sites and malaria transmission in Dakar
Authors: Machault Vanessa , Gadiaga Libasse , Vignolles Cécile , Jarjaval Fanny , Bouzid Samia , Sokhna Cheikh , Lacaux Jean-Pierre , Trape Jean-François , Rogier Christophe , Pagès Frédéric
Published: July 2009

Background

Urbanization has a great impact on the composition of the vector system and malaria transmission dynamics. In Dakar, some malaria cases are autochthonous but parasite rates and incidences of clinical malaria attacks have been recorded at low levels. Ecological heterogeneity of malaria transmission was investigated in Dakar, in order to characterize the Anopheles breeding sites in the city and to study the dynamics of larval density and adult aggressiveness in ten characteristically different urban areas.

Methods

Ten study areas were sampled in Dakar and Pikine. Mosquitoes were collected by human landing collection during four nights in each area (120 person-nights). The Plasmodium falciparum circumsporozoite (CSP) index was measured by ELISA and the entomological inoculation rates (EIR) were calculated. Open water collections in the study areas were monitored weekly for physico-chemical characterization and the presence of anopheline larvae. Adult mosquitoes and hatched larvae were identified morphologically and by molecular methods.

Results

In September-October 2007, 19,451 adult mosquitoes were caught among which, 1,101 were Anopheles gambiae s.l. The Human Biting Rate ranged from 0.1 bites per person per night in Yoff Village to 43.7 in Almadies. Seven out of 1,101 An. gambiae s.l. were found to be positive for P. falciparum (CSP index = 0.64%). EIR ranged from 0 infected bites per person per year in Yoff Village to 16.8 in Almadies. The An. gambiae complex population was composed of Anopheles arabiensis (94.8%) and Anopheles melas (5.2%). None of the An. melas were infected with P. falciparum. Of the 54 water collection sites monitored, 33 (61.1%) served as anopheline breeding sites on at least one observation. No An. melas was identified among the larval samples. Some physico-chemical characteristics of water bodies were associated with the presence/absence of anopheline larvae and with larval density. A very close parallel between larval and adult densities was found in six of the ten study areas.

Conclusion

The results provide evidence of malaria transmission in downtown Dakar and its surrounding suburbs. Spatial heterogeneity of human biting rates was very marked and malaria transmission was highly focal. In Dakar, mean figures for transmission would not provide a comprehensive picture of the entomological situation; risk evaluation should therefore be undertaken on a small scale.
Inhibition of p70S6K2 down-regulates Hedgehog/GLI pathway in non-small cell lung cancer cell lines
Authors: Mizuarai Shinji , Kawagishi Aki , Kotani Hidehito
Published: July 2009

Background

The Hedgehog (HH) pathway promotes tumorigenesis in a diversity of cancers. Activation of the HH signaling pathway is caused by overexpression of HH ligands or mutations in the components of the HH/GLI1 cascade, which lead to increased transactivation of GLI transcription factors. Although negative kinase regulators that antagonize the activity of GLI transcription factors have been reported, including GSK3β, PKA and CK1s, little is known regarding positive kinase regulators that are suitable for use on cancer therapeutic targets. The present study attempted to identify kinases whose silencing inhibits HH/GLI signalling in non-small cell lung cancer (NSCLC).

Results

To find positive kinase regulators in the HH pathway, kinome-wide siRNA screening was performed in a NSCLC cell line, A549, harboring the GLI regulatory reporter gene. This showed that p70S6K2-silencing remarkably reduced GLI reporter gene activity. The decrease in the activity of the HH pathway caused by p70S6K2-inhibition was accompanied by significant reduction in cell viability. We next investigated the mechanism for p70S6K2-mediated inhibition of GLI1 transcription by hypothesizing that GSK3β, a negative regulator of the HH pathway, is activated upon p70S6K2-silencing. We found that phosphorylated-GSK3β (Ser9) was reduced by p70S6K2-silencing, causing a decreased level of GLI1 protein. Finally, to further confirm the involvement of p70S6K2 in GLI1 signaling, down-regulation in GLI-mediated transcription by PI3KCA-inhibition was confirmed, establishing the pivotal role of the PI3K/p70S6K2 pathway in GLI1 cascade regulation.

Conclusion

We report herein that inhibition of p70S6K2, known as a downstream effector of the PI3K pathway, remarkably decreases GLI-mediated transactivation in NSCLC by reducing phosphorylated-GSK3β followed by GLI1 degradation. These results infer that p70S6K2 is a potential therapeutic target for NSCLC with hyperactivated HH/GLI pathway.
Ontogeny and phylogeny: molecular signatures of selection, constraint, and temporal pleiotropy in the development of Drosophila
Authors: Artieri Carlo G , Haerty Wilfried , Singh Rama S
Published: July 2009

Background

Karl Ernst Von Baer noted that species tend to show greater morphological divergence in later stages of development when compared to earlier stages. Darwin originally interpreted these observations via a selectionist framework, suggesting that divergence should be greatest during ontogenic stages in which organisms experienced varying 'conditions of existence' and opportunity for differential selection. Modern hypotheses have focused on the notion that genes and structures involved in early development will be under stronger purifying selection due to the deleterious pleiotropic effects of mutations propagating over the course of ontogeny, also known as the developmental constraint hypothesis.

Results

Using developmental stage-specific expressed sequence tag (EST) libraries, we tested the 2 hypotheses by comparing the rates of evolution of 7,180 genes obtained from 6 species of theDrosophila melanogastergroup with respect to ontogeny, and sex and reproduction-related functions in gonadal tissues. Supporting morphological observations, we found evidence of a pattern of increasing mean evolutionary rate in genes that are expressed in subsequent stages of development. Furthermore, supporting expectations that early expressed genes are constrained in divergence, we found that embryo stage genes are involved in a higher mean number of interactions as compared to later stages. We noted that the accelerated divergence of genes in the adult stage is explained by those expressed specifically in the male gonads, whose divergence is driven by positive selection. In addition, accelerated gonadal gene divergence occurs only in the adult stage, suggesting that the effects of selection are observed primarily at the stages during which they are expected occur. Finally, we also found a significant correlation between temporal specificity of gene expression and evolutionary rate, supporting expectations that genes with ubiquitous expression are under stronger constraint.

Conclusion

Taken together, these results support both the developmental constraint hypothesis limiting the divergence of early expressed developmentally important genes, leading to a gradient of divergence rates over ontogeny (embryonic < larval/pupal < adult), as well as Darwin's 'selection opportunity' hypothesis leading to increased divergence in adults, particularly in the case of reproductive tissues. We suggest that a constraint early/opportunity late model best explains divergence over ontogeny.
Translocation of Neuronal Nitric Oxide Synthase to the Plasma Membrane by ATP is Mediated by P2X and P2Y Receptors
Authors: Ohnishi Takayuki , Matsumura Shinji , Ito Seiji
Published: July 2009

Background

The translocation of neuronal nitric oxide synthase (nNOS) from the cytosol to the membrane is functionally coupled to the activation of N-methyl-D-aspartate (NMDA) receptors at synapses. Whereas there is abundant evidence indicating that ATP and nitric oxide are involved in nociceptive transmission, whether nNOS is activated by ATP remains unknown. We recently established a fluorescence imaging system for examining nNOS translocation in PC12 cells expressing a yellow fluorescence protein-tagged nNOS N-terminal mutant, nNOSNT-YFP, and examined the effect of ATP on nNOS translocation using the system.

Results

The translocation of nNOS was induced by ATP in the presence of NMDA and forskolin, an adenylate cyclase activator. The purinergic P2X receptor agonist 2-MeSATP and the P2Y agonist UTP significantly enhanced nNOS translocation; and simultaneous stimulation with 2-MeSATP and UTP exhibited the same concentration-response curve for the translocation as obtained with ATP. ATP, 2-MeSATP, and UTP increased the intracellular Ca2+ concentration ([Ca2+]i) in PC12 cells. Conversely, whereas the P2X receptor antagonist PPADS and the P2Y antagonist reactive blue-2 partially inhibited increases in the translocation of nNOS and [Ca2+]i by ATP, the non-selective P2 receptor antagonist suramin completely blocked them. In addition, the increase in the nNOS translocation by ATP was blocked by NMDA receptor antagonists and inhibitors of protein kinase A, protein kinase C, and Src kinase. Consistent with the expression of P2X and P2Y receptors in the spinal cord, ATP and UTP increased the [Ca2+]i in primary cultured spinal neurons. ATP potentiated and prolonged the [Ca2+]i increase produced by NMDA in the dorsal horn of the spinal cord. Furthermore, the selective P2X3/P2X2/3 antagonist A-317491 inhibited nNOS activation assessed by NO formation in spinal slices prepared from neuropathic pain model mice.

Conclusion

ATP is involved in nNOS translocation mediated by protein kinase C via activation of P2X and P2Y receptors and nNOS translocation may be an action mechanism of ATP in nocieptive processing in the spinal cord.
Drug use patterns among Thai illicit drug injectors amidst increased police presence
Authors: Werb Dan , Hayashi Kanna , Fairbairn Nadia , Kaplan Karyn , Suwannawong Paisan , Lai Calvin , Kerr Thomas
Published: July 2009

Thailand has traditionally pursued an aggressive enforcement-based anti-illicit drug policy in an effort to make the country "drug-free." In light of this ongoing approach, we sought to assess impacts of enforcement on drug use behaviors among a cohort of injection drug users (IDU) in Thailand. We examined drug use patterns among IDU participating in a cross-sectional study conducted in Bangkok (n = 252). Participants were asked to provide data regarding patterns of drug use in the previous six months, including types of drugs consumed, method of consumption, frequency of use, and weekly income spent on drugs. We also conducted bivariate analyses to identify a possible effect of a reported increase in police presence on measures of drug use and related risk behaviors among study participants. One hundred fifty-five (61.5%) individuals reported injection heroin use and 132 (52.4%) individuals reported injection midazolam use at least daily in the past six months. Additionally, 86 (34.1%) individuals reported at least daily injection Yaba and Ice (i.e., methamphetamine) use. Participants in our study reported high levels of illicit drug use, including the injection of both illicit and licit drugs. In bivariate analyses, no association between increased police presence and drug use behaviors was observed. These findings demonstrate high ongoing rates of drug injecting in Thailand despite reports of increased levels of strict enforcement and enforcement-related violence, and raise questions regarding the merits of this approach.
Experimental models for the study of neurodegeneration in amyotrophic lateral sclerosis
Authors: Tovar-y-Romo Luis B , Santa-Cruz Luz Diana , Tapia Ricardo
Published: July 2009

Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease of unknown cause, characterized by the selective and progressive death of both upper and lower motoneurons, leading to a progressive paralysis. Experimental animal models of the disease may provide knowledge of the pathophysiological mechanisms and allow the design and testing of therapeutic strategies, provided that they mimic as close as possible the symptoms and temporal progression of the human disease. The principal hypotheses proposed to explain the mechanisms of motoneuron degeneration have been studied mostly in models in vitro, such as primary cultures of fetal motoneurons, organotypic cultures of spinal cord sections from postnatal rodents and the motoneuron-like hybridoma cell line NSC-34. However, these models are flawed in the sense that they do not allow a direct correlation between motoneuron death and its physical consequences like paralysis. In vivo, the most widely used model is the transgenic mouse that bears a human mutant superoxide dismutase 1, the only known cause of ALS. The major disadvantage of this model is that it represents about 2%–3% of human ALS. In addition, there is a growing concern on the accuracy of these transgenic models and the extrapolations of the findings made in these animals to the clinics. Models of spontaneous motoneuron disease, like the wobbler and pmn mice, have been used aiming to understand the basic cellular mechanisms of motoneuron diseases, but these abnormalities are probably different from those occurring in ALS. Therefore, the design and testing of in vivo models of sporadic ALS, which accounts for >90% of the disease, is necessary. The main models of this type are based on the excitotoxic death of spinal motoneurons and might be useful even when there is no definitive demonstration that excitotoxicity is a cause of human ALS. Despite their difficulties, these models offer the best possibility to establish valid correlations between cellular alterations and motor behavior, although improvements are still necessary in order to produce a reliable and integrative model that accurately reproduces the cellular mechanisms of motoneuron degeneration in ALS.
Pharmacokinetics of epinephrine in patients with septic shock: modelization and interaction with endogenous neurohormonal status
Authors: Abboud Imad , Lerolle Nicolas , Urien Saik , Tadié Jean-Marc , Leviel Françoise , Fagon Jean-Yves , Faisy Christophe
Published: July 2009

Introduction

In septic patients, an unpredictable response to epinephrine may be due to pharmacodynamic factors or to non-linear pharmacokinetics. The purpose of this study was to investigate the pharmacokinetics of epinephrine and its determinants in patients with septic shock.

Methods

Thirty-eight consecutive adult patients with septic shock were prospectively recruited immediately before epinephrine infusion. A baseline blood sample (C0) was taken to assess endogenous epinephrine, norepinephrine, renin, aldosterone, and plasma cortisol levels before epinephrine infusion. At a fixed cumulative epinephrine dose adjusted to body weight and under steady-state infusion, a second blood sample (C1) was taken to assess epinephrine and norepinephrine concentrations. Data were analyzed using the nonlinear mixed effect modeling software program NONMEM.

Results

Plasma epinephrine concentrations ranged from 4.4 to 540 nmol/L at steady-state infusion (range 0.1 to 7 mg/hr; 0.026 to 1.67 μg/kg/min). A one-compartment model adequately described the data. Only body weight (BW) and New Simplified Acute Physiologic Score (SAPSII) at intensive care unit admission significantly influenced epinephrine clearance: CL (L/hr) = 127 × (BW/70)0.60× (SAPS II/50)-0.67. The corresponding half-life was 3.5 minutes. Endogenous norepinephrine plasma concentration significantly decreased during epinephrine infusion (median (range) 8.8 (1 – 56.7) at C0vs. 4.5 (0.3 – 38.9) nmol/L at C1,P< 0.001).

Conclusions

Epinephrine pharmacokinetics is linear in septic shock patients, without any saturation at high doses. Basal neurohormonal status does not influence epinephrine pharmacokinetics. Exogenous epinephrine may alter the endogenous norepinephrine metabolism in septic patients.
Generation of a Concise Gene Panel for Outcome Prediction in Urinary Bladder Cancer
Authors: Mitra Anirban P. , Pagliarulo Vincenzo , Yang Dongyun , Waldman Frederic M. , Datar Ram H. , Skinner Donald G. , Groshen Susan , Cote Richard J.
Published: July 2009

Purpose

This study sought to determine if alterations in molecular pathways could supplement TNM staging to more accurately predict clinical outcome in patients with urothelial carcinoma (UC).

Patients and Methods

Expressions of 69 genes involved in known cancer pathways were quantified on bladder specimens from 58 patients with UC (stages Ta-T4) and five normal urothelium controls. All tumor transcript values beyond two standard deviations from the normal mean expression were designated as over- or underexpressed. Univariate and multivariable analyses were conducted to obtain a predictive expression signature. A published external data set was used to confirm the potential of the prognostic gene panels.

Results

In univariate analysis, six genes were significantly associated with time to recurrence, and 10 with overall survival. Recursive partitioning identified three genes as significant determinants for recurrence, and three for overall survival. Of all genes identified by either univariate or partitioning analysis, four were found to significantly predict both recurrence and survival (JUN, MAP2K6, STAT3, and ICAM1); overexpression was associated with worse outcome. Comparing the favorable (low or normal) expression of ≥ three of four versus ≤ two of four of these oncogenes showed 5-year recurrence probability of 41% versus 88%, respectively (P < .001), and 5-year overall survival probability of 61% versus 5%, respectively (P < .001). The prognostic potential of this four-gene panel was confirmed in a large independent external cohort (disease-specific survival, P = .039).

Conclusion

We have documented the generation of a concise, biologically relevant four-gene panel that significantly predicts recurrence and survival and may also identify potential therapeutic targets for UC.