bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sputum Volume Predicts Sputum Mycobacterial Load during the First 2 Weeks of Antituberculosis Treatment
Authors: Karinja Miriam N. , Esterhuizen Tonya M. , Friedrich Sven O. , Diacon Andreas H. 
Published: January 2015

ABSTRACT

Disease severity in patients with pulmonary tuberculosis is associated with mycobacterial sputum load. To ascertain whether reduced sputum production during treatment is a useful clinical sign of improvement, we analyzed the mycobacterial loads of 5,552 sputum samples collected from 439 newly diagnosed sputum smear-positive tuberculosis patients who participated in six 14-day studies of antituberculosis treatment. Sputum volumes were categorized as low (<6 ml), medium (6 to 10 ml), or large (>10 ml), and mycobacterial load was measured by the time to positivity in liquid culture and the CFU counts on solid culture. The association of sputum volume with mycobacterial load was estimated with multiple linear regression models adjusted for repeated measures. The predictor variables were sputum volume category, treatment day, specific study , and the interaction of sputum volume category and treatment day. Mycobacterial load was significantly associated only with the day on treatment and sputum volume, which tended to decrease with ongoing treatment. With the volume held constant, each day on treatment decreased the log CFU by 0.082 (
P
< 0.001) and increased the time to positivity (TTP) by 1.04 h (
P
< 0.001). From low to medium and from medium to large sputum volumes, the log CFU/ml increased by 0.265 (
P
< 0.003) and 0.490 (
P
< 0.001), respectively, and the TTP decreased by 1.17 h (
P
< 0.001) and 1.30 h (
P
< 0.001), respectively, for a given day of treatment. The variability of the sputum load measurements increased with the day of treatment and lower sputum volumes. The significant association of sputum volume and mycobacterial load validates decreasing sputum production as a clinical sign of improvement during early antituberculosis treatment.
Isolation and Characterization of Influenza C Viruses in the Philippines and Japan
Authors: Odagiri Takashi , Matsuzaki Yoko , Okamoto Michiko , Suzuki Akira , Saito Mariko , Tamaki Raita , Lupisan Socorro P. , Sombrero Lydia T. , Hongo Seiji , Oshitani Hitoshi 
Published: January 2015

ABSTRACT
From November 2009 to December 2013 in the Philippines, 15 influenza C viruses were isolated, using MDCK cells, from specimens obtained from children with severe pneumonia and influenza-like illness (ILI). This is the first report of influenza C virus isolation in the Philippines. In addition, from January 2008 to December 2013, 7 influenza C viruses were isolated from specimens that were obtained from children with acute respiratory illness (ARI) in Sendai city, Japan. Antigenic analysis with monoclonal antibodies to the hemagglutinin-esterase (HE) glycoprotein showed that 19 strains (12 from the Philippines and 7 from Japan) were similar to the influenza C virus reference strain C/Sao Paulo/378/82 (SP82). Phylogenetic analysis of the HE gene showed that the strains from the Philippines and Japan formed distinct clusters within an SP82-related lineage. The clusters that included the Philippine and Japanese strains were shown to have diverged from a common ancestor around 1993. In addition, phylogenetic analysis of the internal genes showed that all strains isolated in the Philippines and Japan had emerged through reassortment events. The composition of the internal genes of the Philippine strains was different from that of the Japanese strains, although all strains were classified into an SP82-related lineage by HE gene sequence analysis. These observations suggest that the influenza C viruses analyzed here had emerged through different reassortment events; however, the time and place at which the reassortment events occurred were not determined.
Analysis of Geminivirus AL2 and L2 Proteins Reveals a Novel AL2 Silencing Suppressor Activity
Authors: Jackel Jamie N. , Buchmann R. Cody , Singhal Udit , Bisaro David M. 
Published: January 2015

ABSTRACT

Both posttranscriptional and transcriptional gene silencing (PTGS and TGS, respectively) participate in defense against the DNA-containing geminiviruses. As a countermeasure, members of the genus
Begomovirus
(e.g.,
Cabbage leaf curl virus
) encode an AL2 protein that is both a transcriptional activator and a silencing suppressor. The related L2 protein of
Beet curly top virus
(genus
Curtovirus
) lacks transcription activation activity. Previous studies showed that both AL2 and L2 suppress silencing by a mechanism that correlates with adenosine kinase (ADK) inhibition, while AL2 in addition activates transcription of cellular genes that negatively regulate silencing pathways. The goal of this study was to clarify the general means by which these viral proteins inhibit various aspects of silencing. We confirmed that AL2 inhibits systemic silencing spread by a mechanism that requires transcription activation activity. Surprisingly, we also found that reversal of PTGS and TGS by ADK inactivation depended on whether experiments were conducted in vegetative or reproductive
Nicotiana benthamiana
plants (i.e., before or after the vegetative-to-reproductive transition). While AL2 was able to reverse silencing in both vegetative and reproductive plants, L2 and ADK inhibition were effective only in vegetative plants. This suggests that silencing maintenance mechanisms can change during development or in response to stress. Remarkably, we also observed that AL2 lacking its transcription activation domain could reverse TGS in reproductive plants, revealing a third, previously unsuspected AL2 suppression mechanism that depends on neither ADK inactivation nor transcription activation.

IMPORTANCE
RNA silencing in plants is a multivalent antiviral defense, and viruses respond by elaborating multiple and sometimes multifunctional proteins that inhibit various aspects of silencing. The studies described here add an additional layer of complexity to this interplay. By examining geminivirus AL2 and L2 suppressor activities, we show that L2 is unable to suppress silencing in
Nicotiana benthamiana
plants that have undergone the vegetative-to-reproductive transition. As L2 was previously shown to be effective in mature
Arabidopsis
plants, these results illustrate that silencing mechanisms can change during development or in response to stress in ways that may be species specific. The AL2 and L2 proteins are known to share a suppression mechanism that correlates with the ability of both proteins to inhibit ADK, while AL2 in addition can inhibit silencing by transcriptionally activating cellular genes. Here, we also provide evidence for a third AL2 suppression mechanism that depends on neither transcription activation nor ADK inactivation. In addition to revealing the remarkable versatility of AL2, this work highlights the utility of viral suppressors as probes for the analysis of silencing pathways.
Inhibition of H3K27me3-Specific Histone Demethylases JMJD3 and UTX Blocks Reactivation of Herpes Simplex Virus 1 in Trigeminal Ganglion Neurons
Authors: Messer Harald G. P. , Jacobs Derek , Dhummakupt Adit , Bloom David C. 
Published: January 2015

ABSTRACT

Herpes simplex virus 1 (HSV-1) genomes are associated with the repressive heterochromatic marks H3K9me2/me3 and H3K27me3 during latency. Previous studies have demonstrated that inhibitors of H3K9me2/me3 histone demethylases reduce the ability of HSV-1 to reactivate from latency. Here we demonstrate that GSK-J4, a specific inhibitor of the H3K27me3 histone demethylases UTX and JMJD3, inhibits HSV-1 reactivation from sensory neurons
in vitro
. These results indicate that removal of the H3K27me3 mark plays a key role in HSV-1 reactivation.
Genome-Wide Association Study for Endothelial Growth Factors
Authors: Lieb Wolfgang , Chen Ming-Huei , Larson Martin G. , Safa Radwan , Teumer Alexander , Baumeister Sebastian E. , Lin Honghuang , Smith Holly M. , Koch Manja , Lorbeer Roberto , Völker Uwe , Nauck Matthias , Völzke Henry , Wallaschofski Henri , Sawyer Douglas B. , Vasan Ramachandran S. 
Published: January 2015

Background—
Endothelial growth factors including angiopoietin-2 (Ang-2), its soluble receptor Tie-2 (sTie-2), and hepatocyte growth factor play important roles in angiogenesis, vascular remodeling, local tumor growth, and metastatic potential of various cancers. Circulating levels of these biomarkers have a heritable component (between 13% and 56%), but the underlying genetic variation influencing these biomarker levels is largely unknown.

Methods and Results—

We performed a genome-wide association study for circulating Ang-2, sTie-2, and hepatocyte growth factor in 3571 Framingham Heart Study participants and assessed replication of the top hits for Ang-2 and sTie-2 in 3184 participants of the Study of Health in Pomerania. In multivariable-adjusted models, sTie-2 and hepatocyte growth factor concentrations were associated with single-nucleotide polymorphisms in the genes encoding the respective biomarkers (top
P
=2.40×10
−65
[rs2273720] and 3.64×10
−19
[rs5745687], respectively). Likewise, rs2442517 in the
MCPH1
gene (in which the
Ang-2
gene is embedded) was associated with Ang-2 levels (
P
=5.05×10
−8
in Framingham Heart Study and 8.39×10
−5
in Study of Health in Pomerania). Furthermore, single-nucleotide polymorphisms in the
AB0
gene were associated with sTie-2 (top single-nucleotide polymorphism rs8176693 with
P
=1.84×10
−33
in Framingham Heart Study;
P
=2.53×10
−30
in Study of Health in Pomerania) and Ang-2 (rs8176746 with
P
=2.07×10
−8
in Framingham Heart Study;
P
=0.001 in Study of Health in Pomerania) levels on a genome-wide significant level. The top genetic loci were explained between 1.7% (Ang-2) and 11.2% (sTie-2) of the interindividual variation in biomarker levels.

Conclusions—
Genetic variation contributes to the interindividual variation in growth factor levels and explains a modest proportion of circulating hepatocyte growth factor, Ang-2, and Tie-2. This may potentially contribute to the familial susceptibility to cancer, a premise that warrants further studies.
Control of the T Follicular Helper–Germinal Center B-Cell Axis by CD8
+
Regulatory T Cells Limits Atherosclerosis and Tertiary Lymphoid Organ Development
Authors: Clement Marc , Guedj Kevin , Andreata Francesco , Morvan Marion , Bey Laetitia , Khallou-Laschet Jamila , Gaston Anh-Thu , Delbosc Sandrine , Alsac Jean-Marc , Bruneval Patrick , Deschildre Catherine , Le Borgne Marie , Castier Yves , Kim Hye-Jung , Cantor Harvey , Michel Jean-Baptiste , Caligiuri Giuseppina , Nicoletti Antonino 
Published: January 2015

Background—
The atheromodulating activity of B cells during the development of atherosclerosis is well documented, but the mechanisms by which these cells are regulated have not been investigated.

Methods and Results—

Here, we analyzed the contribution of Qa-1–restricted CD8
+
regulatory T cells to the control of the T follicular helper–germinal center B-cell axis during atherogenesis. Genetic disruption of CD8
+
regulatory T cell function in atherosclerosis-prone apolipoprotein E knockout mice resulted in overactivation of this axis in secondary lymphoid organs, led to the increased development of tertiary lymphoid organs in the aorta, and enhanced disease development. In contrast, restoring control of the T follicular helper–germinal center B-cell axis by blocking the ICOS-ICOSL pathway reduced the development of atherosclerosis and the formation of tertiary lymphoid organs. Moreover, analyses of human atherosclerotic aneurysmal arteries by flow cytometry, gene expression analysis, and immunofluorescence confirmed the presence of T follicular helper cells within tertiary lymphoid organs.

Conclusions—

This study is the first to demonstrate that the T follicular helper–germinal center B-cell axis is proatherogenic and that CD8
+
regulatory T cells control the germinal center reaction in both secondary and tertiary lymphoid organs. Therefore, disrupting this axis represents an innovative therapeutic approach.
Przemoc filosemicka
Authors: Janicka Elżbieta , Żukowski Tomasz 
Published: January 2015

Philo-Semitic abuseThe article analyses Jolanta Dylewska’s documentary film Po-lin (2008). The authors offer new conceptual categories facilitating the description of the manner in which the objectification of Jews takes place in Po-lin – and in the broader context of Polish narrative of Jews and the Holocaust – under the guise of their subjectification; exclusion under the guise of inclusion. The described symbolic practices include:1. Organising a narrative of the Holocaust by means of exteriorisation; universalisation; locating outside the history; considering the Shoah as a natural disaster, and finally as part of the divine plan.2. Constructing the image of “a Jew” by: homogenisation of the group, folklorisation, aesthetisation and separation. Examining the case out of the context allows for omitting the wider sphere of interaction, in which the exclusion as well as symbolic and physical abuse carried out by the majority group came to light.3. Creating a figure of “the good Jew”, which shows gratefulness to the domineering group and full understanding of anti-Semitic discriminatory practices. The function of “the good Jew” is to legitimise the majority story and to discipline or repress anyone who undertakes actions to change the status quo.The above-describe devices produce the effects of eliminating real experiences of real people who suffered the anti-Semitic abuse, blocking afterthoughts while preserving the heartening image of Poland and Poles.
Jak się zostawało komunistką, czyli "Tonia i jej dzieci" Marcela Łozińskiego
Authors: Keff Bożena 
Published: January 2015

How I became a communist. About Marcel Łoziński movie "Tonia and her children"Marcel Łoziński's documentary “Tonia and her children” is a long-form interview with children of Tonia Lechtman – a communist, Jewess, and victim of Stalin's persecutions, born in 1916. Daughter and son of Lechtnam tell about their mother's life from their own perspective. They try to understand her, but they also express their regret, that she spent too much time being envolved in politics, while exposing them to solitude and suffering. Bożena Keff makes a review of Łoziński's movie as a political statement about the stereotype of “Żydokomuna”, and as a psychological portrait of two adult people – their mutual relationship, their expectations for parents, their convictions about gender and family roles. Jak się zostawało komunistką, czyli "Tonia i jej dzieci" Marcela ŁozińskiegoFilm dokumentalny “Tonia i jej dzieci” Marcela Łozińskiego to wywiad-rzeka z dziećmi Toni Lechtman – urodzonej w 1916 roku komunistki, Żydówki, po wojnie ofiary stalinowskich prześladowań. Córka i syn Lechtman opowiadają o życiu matki z własnej perspektywy. Próbują ją zrozumieć, ale także wyrażają wobec niej żal, że zbyt dużo czasu poświęcała politycznemu zaangażowaniu narażając ich na samotność i cierpienie. Bożena Keff recenzuje film Łozińskiego jako polityczną wypowiedź o stereotypie “żydokomuny” oraz jako psychologiczny portret dwójki dojrzałych ludzi – ich wzajemnych relacji, ich oczekiwań wobec rodziców, ich przekonań na temat ról genderowych i rodzinnych.
"Któż tam będzie wisiał?" – Bunt chłopski w miejskiej wyobraźni
Authors: Starnawski Marcin 
Published: January 2015

“Who’s going to dangle there?” – Peasant revolt in urban imagination. On the Gore album by R.U.T.A. and on its receptionThe author presents a review of a recent album “Gore: Songs of Rebellion and Misery from 16th to 20th Century” by a Polish punk rock / hardcore group R.U.T.A. The album, which combines traditional peasant lyrics with modern arrangements and folk instruments, has received acclaim from both fans and critics, while the band declared their commitment to struggles of contemporary progressive social movements. The author analyses the lyrics situating his reflection in sociological-historical framework to discuss realities of peasants’ lives and revolts during the second serfdom in early modern Poland. The author interprets the musical form of the songs as “punk-rock assimilation” of folklore themes. The final section contains critical reflection on the album’s marketing strategy and reception with the key dissected categories being “rebellion” and “authenticity.”
Wojna polsko-polska na terenie Izraela
Authors: Zawadzka Anna 
Published: January 2015

The Polish – Polish war on the territory of IsraelThe text deconstructs a documentary film Betar by Robert Kaczmarek and Piotr Gontarczyk. The author carries out the analysis adopting two approaches. Firstly, she confronts the factographic side of the film against other sources reporting the events presented in the film. The author also proves that although it has pretensions to being a historiographic work, Betar is, in fact, constructed on the founding myths of the Israeli Zionism. Secondly, she analyses the film as the authors’ viewpoint on Polish fascism and Polish anti-Semitism concealed under the guise of objectifying narrative of a documentary. Seen from such a perspective, Betar perfectly fits into the Polish historical politics. Discussing the issue of Jews in Poland in the pre-war and war times, the film disregards the context of dominance and abuse, that is the majority-minority context; and what is more, it neutralises the Polish anti-Semitism presenting it as equal to the right-wing Zionism as well as an answer to Jewish nationalism.
Fantazmat "Sprawiedliwych" i film "W ciemności" Agnieszki Holland
Authors: Żukowski Tomasz 
Published: January 2015

Phantasm of the Righteous and Agnieszka Holland’s film "In Darkness"The text analyses Agnieszka Holland’s film In Darkness against the background of the Polish discourse on the Righteous. The devices of this discourse are reconstructed on the basis of two documentary films: The Righteous by Ryszard Gontarz and Janusz Kidawa (1968) and The Story of the Kowalski by Arkadiusz Gołębiowski and Maciej Pawlicki (2009). The basic devices distinguished in the narrative of the Righteous are the following: 1. a symmetry between the Jewish and Polish suffering 2. lack of Jews’ gratefulness and solidarity (“we demonstrated solidarity as far as the sacrifice of life but they…”); 3. treating the Righteous as pars pro toto of the community (they become the proof of the “national character” of Poles; the motif of “the Righteous-anti-Semite”); 4. a conviction about Polish helplessness; 5. marginalisation of the Polish aggression against Jews (a viewpoint that apparently “the scum is everywhere” and the simultaneously expressed accusations that the victims were involved in the Holocaust themselves).Holland is not aware of the discursive mechanisms accumulating around the undertaken subject or the correlated stakes of the common imagination. Therefore, many fragments of In Darkness easily succumb to being captured by the prevailing, and in fact anti-Semitic, clichés of understanding the history. In effect, the phenomenon of unwanted comeback of phantasms occurs in reference to a narrative developed as an antidote for such.
Przyspieszona nauka konkurencji. Przewodnik dla zbłąkanych w gąszczu reformy
Authors: Szenajch Piotr 
Published: January 2015

Crash course on competition. A guide for the lost in the tangle of reformThe key resolutions of the reform of the Polish system of science and higher education entered into force in the academic year 2011/2012. This essay contains an in-depth reading of the key governmental documents and legal acts that introduced the reform. Additionally, it comprises a description of the intensive critical discussion on the reform that, unfortunately, started only when the legislative process was nearly finished. Drawing from this debate and developing its interpretations, the essay analyses key institutional solutions of the reform; its fundamental assumptions; its rhetoric and, generally, its discursive background. Such solutions as: moving towards a more competition-based system of public funding for institutions and individuals; intensification of supervision based on quantitatively measured achievement, or enforcing a multi-level integration of public universities with the local business sector do not address the most urgent problems of the underfinanced and insecure students, PhD candidates and academics. In their naively individualistic approach, the reformers ignore the reflection on the social reproduction or the collective and structural aspects of scientific fields. Their monolithic vision of science leads them to imposing requirements developed for natural and technical disciplines upon social sciences and humanities. Finally, what they present as objective expert knowledge grounding the reform can be interpreted as based on deeply conservative economical and ethical assumptions as well as detached from a comprehensive empirical diagnosis.
Tematy, których nie da się uśpić. Z Jerzym Jedlickim rozmawia Anna Zawadzka
Authors: Zawadzka Anna , Jedlicki Jerzy 
Published: January 2015

On subjects that cannot be put to sleep. Anna Zawadzka in an interview with Jerzy JedlickiThe conversation with Jerzy Jedlicki is a part of series of interviews starting with the question about the subjects, that the interlocutors during his or her academical career were advised (by different persons and for different reasons) not to pursue. Jedlicki mentions about three such issues: Poles and Jews during II World War period, Israel and Palestine, atheism and faith. He points out that nobody discouraged him from pursuing these subjects – it was himself, who refrained from being vocal on these matters. He clarifies why he used to censor himself, analyses how all the subjects work today in Polish public sphere and explains why he broke the silence several times. Tematy, których nie da się uśpić. Z Jerzym Jedlickim rozmawia Anna ZawadzkaRozmowa z Jerzym Jedlickim przynależy do cyklu wywiadów, które rozpoczynają się pytaniem o tematy, które w toku kariery naukowej były rozmówcy z różnych przyczyn i przez różne osoby odradzane. Jedlicki wymienia trzy takie kwestie: Polacy i Żydzi w okresie okupacji, Izrael i Palestyna oraz ateizm i wiara. Zaznacza, że nikt mu nie odradzał ich podejmowania, a jedynie on sam powstrzymywał się przed zabieraniem publicznie głosu w tych sprawach. Wyjaśnia dlaczego się autocenzurował, analizuje, w jaki sposób wszystkie te trzy tematy funkcjonują dziś w polskiej sferze publicznej oraz tłumaczy, dlaczego kilkakrotnie przerwał jednak milczenie.