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Frantz, Laurent A. F. ; Haile, James ; Lin, Audrey T. ; Scheu, Amelie ; Geörg, Christina ; Benecke, Norbert ; Alexander, Michelle ; Linderholm, Anna ; Mullin, Victoria E. ; Daly, Kevin G. ; Battista, Vincent M. ; Price, Max ; Gron, Kurt J. ; Alexandri, Panoraia ; Arbogast, Rose-Marie ; Arbuckle, Benjamin ; Bălăşescu, Adrian ; Barnett, Ross ; Bartosiewicz, László ; Baryshnikov, Gennady ; Bonsall, Clive ; Borić, Dušan ; Boroneanţ, Adina ; Bulatović, Jelena ; Çakırlar, Canan ; Carretero, José-Miguel ; Chapman, John ; Church, Mike ; Crooijmans, Richard ; DeCupere, Bea ; Detry, Cleia ; Dimitrijević, Vesna ; Dumitraşcu, Valentin ; Du Plessis, Louis ; Edwards, Ceiridwen ; Erek, Cevdet Merih ; Erim Özdoğan, Aslı ; Ervynck, Anton ; Fulgione, Domenico ; Gligor, Mihai ; Götherström, Anders ; Gourichon, Lionel ; Groenen, Martien A. M. ; Helmer, Daniel ; Hongo, Hitomi ; Horwitz, Liora Kolska ; Irving-Pease, Evan K. ; Lebrasseur, Ophélie ; Lesur, Joséphine ; Malone, Caroline ; Manaserya, Ninna ; Marciniak, Arkadiusz ; Martlew, Holley ; Mashkour, Marjan ; Matthews, Roger ; Motuzaitė Matuzevičiūtė, Giedrė ; Maziar, Sepideh ; Meijaard, Erik ; McGovern, Tom ; Megens, Hendrik-Jan ; Miller, Rebecca ; Mohaseb, Azadeh Fatemeh ; Orschiedt, Jörg ; Orton, David ; Papathanasiou, Anastasia ; Parker Pearson, Michael ; Pinhasi, Ron ; Radmanović, Darko ; Ricaut, François-Xavier ; Richards, Mike ; Sabin, Richard ; Sarti, Lucia ; Schier, Wolfram ; Sheikhi, Shiva ; Stephan, Elisabeth ; Stewart, John R. ; Stoddart, Simon ; Tagliacozzo, Antonio ; Tasić, Nenad N. ; Trantalidou, Katerina ; Tresset, Anne ; Valdiosera, Cristina ; Hurk, Youri van den ; Poucke, Sophie van ; Vigne, Jean-Denis ; Yanevich, Alexander ; Zeeb-Lanz, Andrea ; Triantafyllidis, Alexandros ; Gilbert, M. Thomas P. ; Schibler, Jörg ; Rowley-Conwy, Peter ; Zeder, Melinda ; Peters, Joris ; Cucchi, Thomas ; Bradley, Daniel G. ; Dobney, Keith ; Burger, Joachim ; Evin, Allowen ; Girdland-Flink, Linus ; Larson, Greger
Archaeological evidence indicates that pig domestication had begun by ∼10,500 y before the present (BP) in the Near East, and mitochondrial DNA (mtDNA) suggests that pigs arrived in Europe alongside farmers ∼8,500 y BP. A few thousand years after the introduction of Near Eastern pigs into Europe, however, their characteristic mtDNA signature disappeared and was replaced by haplotypes associated with European wild boars. This turnover could be accounted for by substantial gene flow from local European wild boars, although it is also possible that European wild boars were domesticated independently without any genetic contribution from the Near East. To test these hypotheses, we obtained mtDNA sequences from 2,099 modern and ancient pig samples and 63 nuclear ancient genomes from Near Eastern and European pigs. Our analyses revealed that European domestic pigs dating from 7,100 to 6,000 y BP possessed both Near Eastern and European nuclear ancestry, while later pigs possessed no more than 4% Near Eastern ancestry, indicating that gene flow from European wild boars resulted in a near-complete disappearance of Near East ancestry. In addition, we demonstrate that a variant at a locus encoding black coat color likely originated in the Near East and persisted in European pigs. Altogether, our results indicate that while pigs were not independently domesticated in Europe, the vast majority of human-mediated selection over the past 5,000 y focused on the genomic fraction derived from the European wild boars, and not on the fraction that was selected by early Neolithic farmers over the first 2,500 y of the domestication process.
Waard, Antonius A. de ; Verkerk, Tamara ; Jongsma, Marlieke L. M. ; Hoefakker, Kelly ; Sethumadhavan, Sunesh ; Gerke, Carolin ; Bliss, Sophie ; Janssen, George M. C. ; Ru, Arnoud H. de ; Claas, Frans H. J. ; Mulder, Arend ; Tampé, Robert ; Veelen, Peter A. van ; Halenius, Anne ; Spaapen, Robbert M.
With the emergence of immunotherapies, the understanding of functional HLA class I antigen presentation to T cells is more relevant than ever. Current knowledge on antigen presentation is based on decades of research in a wide variety of cell types with varying antigen presentation machinery (APM) expression patterns, proteomes and HLA haplotypes. This diversity complicates the establishment of individual APM contributions to antigen generation, selection and presentation. Therefore, we generated a novel Panel of APM Knockout Cell lines (PAKC) from the same genetic origin. After CRISPR/Cas9 genome-editing of ten individual APM components in a human cell line, we derived clonal cell lines and confirmed their knockout status and phenotype. We then show how PAKC will accelerate research on the functional interplay between APM components and their role in antigen generation and presentation. This will lead to improved understanding of peptide-specific T cell responses in infection, cancer and autoimmunity.
Benz, Peter M. ; Merkel, Carla J. ; Offner, Kristin ; Abeßer, Marco ; Ullrich, Melanie ; Fischer, Tobias ; Bayer, Barbara ; Wagner, Helga ; Gambaryan, Stepan ; Ursitti, Jeanine A. ; Adham, Ibrahim M. ; Linke, Wolfgang A. ; Feller, Stephan M. ; Fleming, Ingrid ; Renné, Thomas ; Frantz, Stefan ; Unger, Andreas ; Schuh, Kai
BACKGROUND: In the heart, cytoplasmic actin networks are thought to have important roles in mechanical support, myofibrillogenesis, and ion channel function. However, subcellular localization of cytoplasmic actin isoforms and proteins involved in the modulation of the cytoplasmic actin networks are elusive. Mena and VASP are important regulators of actin dynamics. Due to the lethal phenotype of mice with combined deficiency in Mena and VASP, however, distinct cardiac roles of the proteins remain speculative. In the present study, we analyzed the physiological functions of Mena and VASP in the heart and also investigated the role of the proteins in the organization of cytoplasmic actin networks.
RESULTS: We generated a mouse model, which simultaneously lacks Mena and VASP in the heart. Mena/VASP double-deficiency induced dilated cardiomyopathy and conduction abnormalities. In wild-type mice, Mena and VASP specifically interacted with a distinct αII-Spectrin splice variant (SH3i), which is in cardiomyocytes exclusively localized at Z- and intercalated discs. At Z- and intercalated discs, Mena and β-actin localized to the edges of the sarcomeres, where the thin filaments are anchored. In Mena/VASP double-deficient mice, β-actin networks were disrupted and the integrity of Z- and intercalated discs was markedly impaired.
CONCLUSIONS: Together, our data suggest that Mena, VASP, and αII-Spectrin assemble cardiac multi-protein complexes, which regulate cytoplasmic actin networks. Conversely, Mena/VASP deficiency results in disrupted β-actin assembly, Z- and intercalated disc malformation, and induces dilated cardiomyopathy and conduction abnormalities.
The Kinase Chemogenomic Set (KCGS): an open science resource for kinase vulnerability identification
(2021)
Wells, Carrow I. ; Al-Ali, Hassan ; Andrews, David M. ; Asquith, Christopher R. M. ; Axtman, Alison D. ; Đikić, Ivan ; Ebner, Daniel ; Ettmayer, Peter ; Fischer, Christian ; Frederiksen, Mathias ; Futrell, Robert E. ; Gray, Nathanael S. ; Hatch, Stephanie B. ; Knapp, Stefan ; Lücking, Ulrich ; Michaelides, Michael ; Mills, Caitlin E. ; Müller, Susanne ; Owen, Dafydd R. ; Picado, Alfredo ; Saikatendu, Kumar S. ; Schröder, Martin ; Stolz, Alexandra ; Tellechea, Mariana ; Turunen, Brandon J. ; Vilar, Santiago ; Wang, Jinhua ; Zuercher, William J. ; Willson, Timothy M. ; Drewry, David H.
We describe the assembly and annotation of a chemogenomic set of protein kinase inhibitors as an open science resource for studying kinase biology. The set only includes inhibitors that show potent kinase inhibition and a narrow spectrum of activity when screened across a large panel of kinase biochemical assays. Currently, the set contains 187 inhibitors that cover 215 human kinases. The kinase chemogenomic set (KCGS), current Version 1.0, is the most highly annotated set of selective kinase inhibitors available to researchers for use in cell-based screens.
Androgen receptor deregulation drives bromodomain-mediated chromatin alterations in prostate cancer
(2017)
Urbanucci, Alfonso ; Barfeld, Stefan J. ; Kytölä, Ville ; Itkonen, Harri M. ; Coleman, Ilsa M. ; Vodák, Daniel ; Sjöblom, Liisa ; Sheng, Xia ; Tolonen, Teemu ; Minner, Sarah ; Burdelski, Christoph ; Kivinummi, Kati K. ; Kohvakka, Annika ; Kregel, Steven ; Takhar, Mandeep ; Alshalalfa, Mohammed ; Davicioni, Elai ; Erho, Nicholas ; Lloyd, Paul ; Karnes, R. Jeffrey ; Ross, Ashley E. ; Schaeffer, Edward M. ; Vander Griend, Donald J. ; Knapp, Stefan ; Corey, Eva ; Feng, Felix Y. ; Nelson, Peter S. ; Saatcioglu, Fahri ; Knudsen, Karen E. ; Tammela, Teuvo L. J. ; Sauter, Guido ; Schlomm, Thorsten ; Nykter, Matti ; Visakorpi, Tapio ; Mills, Ian G.
Global changes in chromatin accessibility may drive cancer progression by reprogramming transcription factor (TF) binding. In addition, histone acetylation readers such as bromodomain-containing protein 4 (BRD4) have been shown to associate with these TFs and contribute to aggressive cancers including prostate cancer (PC). Here, we show that chromatin accessibility defines castration-resistant prostate cancer (CRPC). We show that the deregulation of androgen receptor (AR) expression is a driver of chromatin relaxation and that AR/androgen-regulated bromodomain-containing proteins (BRDs) mediate this effect. We also report that BRDs are overexpressed in CRPCs and that ATAD2 and BRD2 have prognostic value. Finally, we developed gene stratification signature (BROMO-10) for bromodomain response and PC prognostication, to inform current and future trials with drugs targeting these processes. Our findings provide a compelling rational for combination therapy targeting bromodomains in selected patients in which BRD-mediated TF binding is enhanced or modified as cancer progresses.
Waard, Antonius A. de ; Verkerk, Tamara ; Jongsma, Marlieke L. M. ; Hoefakker, Kelly ; Sethumadhavan, Sunesh ; Gerke, Carolin ; Bliss, Sophie ; Kong, Xiangrui ; Janssen, George M. C. ; Ru, Arnoud H. de ; Claas, Frans H. J. ; Mulder, Arend ; Tampé, Robert ; Veelen, Peter A. van ; Halenius, Anne ; Spaapen, Robbert M.
A single model system for integrative studies on multiple facets of antigen presentation is lacking. PAKC is a novel panel of ten cell lines knocked out for individual components of the HLA class I antigen presentation pathway. PAKC will accelerate HLA-I research in the fields of oncology, infectiology, and autoimmunity.
Forstner, Andreas Josef ; Hecker, Julian ; Hofmann, Andrea ; Maaser, Anna ; Reinbold, Céline S. ; Mühleisen, Thomas W. ; Leber, Markus ; Strohmaier, Jana ; Degenhardt, Franziska ; Treutlein, Jens ; Mattheisen, Manuel ; Schumacher, Johannes ; Streit, Fabian ; Meier, Sandra ; Herms, Stefan ; Hoffmann, Per ; Lacour, André ; Witt, Stephanie ; Reif, Andreas ; Müller-Myhsok, Bertram ; Lucae, Susanne ; Maier, Wolfgang ; Schwarz, Markus ; Vedder, Helmut ; Kammerer-Ciernioch, Jutta ; Pfennig, Andrea ; Bauer, Michael ; Hautzinger, Martin ; Moebus, Susanne ; Schenk, Lorena M. ; Fischer, Sascha B. ; Sivalingam, Sugirthan ; Czerski, Piotr M. ; Hauser, Joanna ; Lissowska, Jolanta ; Szeszenia-Dabrowska, Neonila ; Brennan, Paul E. ; McKay, James D. ; Wright, Adam ; Mitchell, Philip B. ; Fullerton, Janice M. ; Schofield, Peter R. ; Montgomery, Grant W. ; Medland, Sarah E. ; Gordon, Scott D. ; Martin, Nicholas Gordon ; Krasnov, Valery ; Chuchalin, Alexander ; Babadjanova, Gulja ; Pantelejeva, Galina ; Abramova, Lilia I. ; Tiganov, Alexander S. ; Polonikov, Alexey ; Khusnutdinova, Elza ; Alda, Martin ; Cruceanu, Cristiana ; Rouleau, Guy A. ; Turecki, Gustavo ; Laprise, Catherine ; Rivas, Fabio ; Mayoral, Fermı́n ; Kogevinas, Manolis ; Grigoroiu-Serbanescu, Maria ; Becker, Tim ; Schulze, Thomas Gerd ; Rietschel, Marcella ; Cichon, Sven ; Fier, Heide ; Nöthen, Markus Maria
Bipolar disorder (BD) is a highly heritable neuropsychiatric disease characterized by recurrent episodes of mania and depression. BD shows substantial clinical and genetic overlap with other psychiatric disorders, in particular schizophrenia (SCZ). The genes underlying this etiological overlap remain largely unknown. A recent SCZ genome wide association study (GWAS) by the Psychiatric Genomics Consortium identified 128 independent genome-wide significant single nucleotide polymorphisms (SNPs). The present study investigated whether these SCZ-associated SNPs also contribute to BD development through the performance of association testing in a large BD GWAS dataset (9747 patients, 14278 controls). After re-imputation and correction for sample overlap, 22 of 107 investigated SCZ SNPs showed nominal association with BD. The number of shared SCZ-BD SNPs was significantly higher than expected (p = 1.46x10-8). This provides further evidence that SCZ-associated loci contribute to the development of BD. Two SNPs remained significant after Bonferroni correction. The most strongly associated SNP was located near TRANK1, which is a reported genome-wide significant risk gene for BD. Pathway analyses for all shared SCZ-BD SNPs revealed 25 nominally enriched gene-sets, which showed partial overlap in terms of the underlying genes. The enriched gene-sets included calcium- and glutamate signaling, neuropathic pain signaling in dorsal horn neurons, and calmodulin binding. The present data provide further insights into shared risk loci and disease-associated pathways for BD and SCZ. This may suggest new research directions for the treatment and prevention of these two major psychiatric disorders.
Abdulhamid, Muhammad Ibrahim ; Aboona, Bassam ; Adam, Jaroslav ; Adams, Joseph ; Agakishiev, Geydar ; Aggarwal, Ishu ; Aggarwal, Madan Mohan ; Ahammed, Zubayer ; Aitbaev, Alisher ; Alekseev, Igor ; Anderson, Derek ; Aparin, Alexey ; Aslam, Sameer ; Atchison, Joseph ; Averichev, Georgy ; Bairathi, Vipul ; Baker, William ; Ball Cap, Jonathan Gonzalo ; Barish, Kenneth ; Bhagat, Pratibha ; Bhasin, Anju ; Bhatta, Somadutta ; Bordyuzhin, Igor G. ; Brandenburg, James ; Brandin, Andrei ; Cai, Xiang-Zhou ; Caines, Helen Louise ; Calderon de la Barca Sanchez, Manuel ; Cebra, Daniel ; Ceska, Jakub ; Chakaberia, Irakli ; Chan, Brian ; Chang, Zilong ; Chatterjee, Arghya ; Chen, Ding ; Chen, J. ; Chen, J.H. ; Chen, Zhenyu ; Cheng, Jianping ; Cheng, Yunshan ; Choudhury, Subikash ; Christie, Bill ; Christie, William ; Chu, Xiaoxuan ; Crawford, Henry J. ; Dale-Gau, Gabriel ; Das, Ayanabha ; Daugherity, Michael ; Dedovich, Tatiana ; Deppner, Ingo Martin ; Derevschikov, Anatoly ; Dhamija, Arushi ; Di Carlo, Launa ; Dixit, Prabhupada ; Dong, Xin ; Drachenberg, James ; Duckworth, Eddie ; Dunlop, James ; Engelage, Jack ; Eppley, Geary ; Esumi, ShinIchi ; Evdokimov, Olga ; Ewigleben, Annika ; Eyser, Kjeld Oleg ; Fatemi, Renee ; Fazio, Salvatore ; Feng, Chan-Jui ; Feng, Yicheng ; Finch, Evan ; Fisyak, Yuri V. ; Flor, Fernando Antonio ; Fu, Chuan ; Gao, Taoya ; Geurts, Frank ; Ghimire, Navagyan ; Gibson, Adam ; Gopal, Krishan ; Gou, Xingrui ; Grosnick, David ; Gupta, Anik ; Hamed, Ahmed ; Han, Yiding ; Harasty, Matthew ; Harris, John W. ; Harrison-Smith, Hannah ; He, Wanbing ; He, Xionghong ; He, Yang ; Hu, Chenlu ; Hu, Qiang ; Hu, Y. ; Huang, H. ; Huang, H.Z. ; Huang, Shengli ; Huang, Te-Chuan ; Huang, Xinjie ; Huang, Y. ; Huang, Y. ; Humanic, Thomas J. ; Isenhower, Donald ; Isshiki, Moe ; Jacobs, William ; Jalotra, Ashish ; Jena, Chitrasen ; Ji, Yuanjing ; Jia, Jiangyong ; Jin, Chenliang ; Ju, Xinyue ; Judd, Eleanor ; Kabana, Sonia ; Kabir, Md Latiful ; Kalinkin, Dmitry ; Kang, Kejun ; Kapukchyan, David ; Kauder, Kolja ; Keane, Declan ; Kechechyan, Armen ; Kelsey, Matthew ; Kimelman, Benjamin ; Kiselev, Alexander ; Knospe, Anders ; Ko, Ho San ; Kochenda, Leonid ; Korobitsin, Artem ; Kravtsov, Petr ; Kumar, Lokesh ; Kumar, Shyam ; Kunnawalkam Elayavalli, Raghav ; Lacey, Roy Alphanso ; Landgraf, Jeffery ; Lebedev, Alexei ; Lednicky, Richard ; Lee, Jeong-Hun ; Leung, Yue-Hang ; Lewis, Nicole ; Li, Changfeng ; Li, Wei ; Li, Xiujun ; Li, Y. ; Li, Y. ; Li, Ziyang ; Liang, Xilin ; Liang, Yue ; Lin, Ting ; Liu, Chengyang ; Liu, Feng ; Liu, Guoming ; Liu, H. ; Liu, H. ; Liu, Li-ke ; Liu, Tong ; Liu, Xiaoyu ; Liu, Yanfang ; Liu, Zuowen ; Ljubicic, Tonko ; Llope, William Joseph ; Lomicky, Ondrej ; Longacre, Ronald S. ; Loyd, E.M. ; Lu, Tan ; Lukow, Nicholas ; Luo, Xiaofeng ; Luong, V.B. ; Ma, Long ; Ma, Rongrong ; Ma, Yu-Gang ; Magdy Abdelwahab Abdelrahman, Niseem ; Mallick, Dukhishyam ; Margetis, Spiros ; Matis, Howard ; Mazer, Joel Anthony ; McNamara, Grant ; Mi, K. ; Minaev, Nikolai ; Mohanty, Bedanga ; Mondal, Mriganka ; Mooney, Isaac A. ; Morozov, Dmitry ; Mudrokh, Aleksandr ; Nagy, Marton ; Nain, Ankita ; Nam, J.D. ; Nasim, M. ; Neff, Dylan ; Nelson, John M. ; Nemes, Daniel ; Nie, Maowu ; Nigmatkulov, Grigory ; Niida, Takafumi ; Nishitani, Risa ; Nogach, Larisa ; Nonaka, Toshihiro ; Odyniec, Grazyna ; Ogawa, Akio ; Oh, Saehanseul ; Okorokov, Vitaly A. ; Okubo, Kosuke ; Page, Brian ; Pak, Robert ; Pan, Jinjin ; Pandav, Ashish ; Pandey, Ashutosh ; Panebratsev, Yuri ; Pani, Tanmay ; Parfenov, Petr ; Paul, Ananya ; Perkins, Chris ; Pokhrel, B.R. ; Posik, Matthew ; Protzman, Tristan ; Pruthi, Navneet Kumar ; Putschke, Joern ; Qin, Zhi ; Qiu, Hao ; Quintero, Amilkar ; Racz, Cameron ; Radhakrishnan, Sooraj ; Raha, Nandita ; Ray, Lanny ; Ritter, Hans Georg ; Robertson, Charles ; Rogachevskiy, Oleg ; Rosales Aguilar, Manuel ; Roy, Diptanil ; Ruan, Lijuan ; Sahoo, Aswini ; Sahoo, Nihar Ranjan ; Sako, Hiroyuki ; Salur, Sevil ; Samigullin, Edward ; Sato, Susumu ; Schmidke, William B. ; Schmitz, Norbert ; Seger, Janet ; Seto, Richard ; Seyboth, Peter ; Shah, Neha ; Shahaliev, Ehtiram ; Shanmuganathan, Prashanth V. ; Shao, Tianhao ; Sharma, Mahima ; Sharma, Natasha ; Sharma, Rishabh ; Sharma, Sharang Rav ; Sheikh, Ashik Ikbal ; Shen, D. ; Shen, D.Y. ; Shen, Kaifeng ; Shi, Shusu ; Shi, Yingying ; Shou, Qi-Ye ; Si, Fan ; Singh, Jagbir ; Singha, Subhash ; Sinha, Priyanshi ; Skoby, Michael ; Soehngen, Yannick ; Song, Youqi ; Srivastava, Brijesh ; Stanislaus, Shirvel ; Stewart, David ; Strikhanov, Mikhail ; Stringfellow, Blair ; Su, Yuan ; Sun, Chuan ; Sun, X. ; Sun, Y. ; Sun, Y. ; Surrow, Bernd ; Svirida, Dmitry ; Sweger, Zachary ; Tamis, Andrew ; Tang, Aihong ; Tang, Zebo ; Taranenko, Arkadiy ; Tarnowsky, Terry ; Thomas, James H. ; Tlusty, David ; Todoroki, Takahito ; Tokarev, Michael ; Tomkiel, Catherine ; Trentalange, Steven ; Tribble, Robert ; Tribedy, Prithwish ; Tsai, Oleg D. ; Tsang, Chun Yuen ; Tu, Zhoudunming ; Tyler, Jace ; Ullrich, Thomas ; Underwood, David G. ; Upsal, Isaac ; Van Buren, Gene ; Vasiliev, Alexander ; Verkest, Veronica ; Videbæk, Flemming ; Vokal, Stanislav ; Voloshin, Sergei ; Wang, Fuqiang ; Wang, Gang ; Wang, J.S. ; Wang, J. ; Wang, Xiaofeng ; Wang, Y. ; Wang, Y. ; Wang, Y. ; Wang, Zhen ; Webb, Jason ; Weidenkaff, Philipp ; Westfall, Gary D. ; Wieman, Howard ; Wilks, Gavin ; Wissink, Scott ; Wu, J. ; Wu, J. ; Wu, X. ; Wu, X. ; Wu, Yang ; Xi, Baoshan ; Xiao, Zhigang ; Xie, Guannan ; Xie, Wei ; Xu, Haojie ; Xu, N. ; Xu, Qinghua ; Xu, Y. ; Xu, Y. ; Xu, Z. ; Xu, Z. ; Yan, Gaoguo ; Yan, Zhengxi ; Yang, Chi ; Yang, Qian ; Yang, Shuai ; Yang, Y. ; Ye, Z. ; Ye, Z. ; Yi, L. ; Yip, Kin ; Yu, Y. ; Zha, Wangmei ; Zhang, ChunJian ; Zhang, Dingwei ; Zhang, Jinlong ; Zhang, Shenghui ; Zhang, Wei ; Zhang, Xin ; Zhang, Y. ; Zhang, Y. ; Zhang, Y. ; Zhang, Y. ; Zhang, Z.J. ; Zhang, Z. ; Zhang, Z. ; Zhao, Fengyi ; Zhao, Jie ; Zhao, Minghui ; Zhou, Chensheng ; Zhou, Jian ; Zhou, Shuai ; Zhou, Yingjie ; Zhu, Xianglei ; Zurek, Maria ; Zyzak, Maksym
The polarization of Λ and Λ¯ hyperons along the beam direction has been measured relative to the second and third harmonic event planes in isobar Ru+Ru and Zr+Zr collisions at √sNN = 200 GeV. This is the first experimental evidence of the hyperon polarization by the triangular flow originating from the initial density fluctuations. The amplitudes of the sine modulation for the second and third harmonic results are comparable in magnitude, increase from central to peripheral collisions, and show a mild pT dependence. The azimuthal angle dependence of the polarization follows the vorticity pattern expected due to elliptic and triangular anisotropic flow, and qualitatively disagree with most hydrodynamic model calculations based on thermal vorticity and shear induced contributions. The model results based on one of existing implementations of the shear contribution lead to a correct azimuthal angle dependence, but predict centrality and pT dependence that still disagree with experimental measurements. Thus, our results provide stringent constraints on the thermal vorticity and shear-induced contributions to hyperon polarization. Comparison to previous measurements at RHIC and the LHC for the second-order harmonic results shows little dependence on the collision system size and collision energy.
Madsen, Karina M. ; Udatha, Gupta D. B. R. K. ; Semba, Saori ; Otero, Jose M. ; Kötter, Peter ; Nielsen, Jens ; Ebizuka, Yutaka ; Kushiro, Tetsuo ; Panagiotou, Gianni
Background: Metabolic engineering is an attractive approach in order to improve the microbial production of drugs. Triterpenes is a chemically diverse class of compounds and many among them are of interest from a human health perspective. A systematic experimental or computational survey of all feasible gene modifications to determine the genotype yielding the optimal triterpene production phenotype is a laborious and time-consuming process. Methodology/Principal Findings: Based on the recent genome-wide sequencing of Saccharomyces cerevisiae CEN.PK 113-7D and its phenotypic differences with the S288C strain, we implemented a strategy for the construction of a beta-amyrin production platform. The genes Erg8, Erg9 and HFA1 contained non-silent SNPs that were computationally analyzed to evaluate the changes that cause in the respective protein structures. Subsequently, Erg8, Erg9 and HFA1 were correlated with the increased levels of ergosterol and fatty acids in CEN.PK 113-7D and single, double, and triple gene over-expression strains were constructed. Conclusions: The six out of seven gene over-expression constructs had a considerable impact on both ergosterol and beta-amyrin production. In the case of beta-amyrin formation the triple over-expression construct exhibited a nearly 500% increase over the control strain making our metabolic engineering strategy the most successful design of triterpene microbial producers.
Coccolini, Federico ; Montori, Giulia ; Catena, Fausto ; Kluger, Yoram ; Biffl, Walter ; Moore, Ernest E. ; Reva, Viktor ; Bing, Camilla ; Bala, Miklosh ; Fugazzola, Paola ; Bahouth, Hany ; Marzi, Ingo ; Velmahos, George C. ; Ivatury, Rao ; Soreide, Kjetil ; Horer, Tal ; Broek, Richard P. G. ten ; Pereira, Bruno M. ; Fraga, Gustavo Pereira ; Inaba, Kenji ; Kashuk, Joseph ; Parry, Neil ; Masiakos, Peter T. ; Mylonas, Konstantinos ; Kirkpatrick, Andrew ; Abu-Zidan, Fikri ; Gomes, Carlos Augusto ; Benatti, Simone Vasilij ; Naidoo, Noel ; Salvetti, Francesco ; Maccatrozzo, Stefano ; Agnoletti, Vanni ; Gamberini, Emiliano ; Solaini, Leonardo ; Costanzo, Antonio ; Celotti, Andrea ; Tomasoni, Matteo ; Khokha, Vladimir ; Arvieux, Catherine ; Napolitano, Lena ; Handolin, Lauri ; Pisano, Michele ; Magnone, Stefano ; Spain, David A. ; De Moya, Marc ; Davis, Kimberly A. ; De Angelis, Nicola ; Leppaniemi, Ari ; Ferrada, Paula ; Latifi, Rifat ; Navarro, David Costa ; Otomo, Yashuiro ; Coimbra, Raul ; Maier, Ronald V. ; Moore, Frederick ; Rizoli, Sandro ; Sakakushev, Boris ; Galante, Joseph M. ; Chiara, Osvaldo ; Cimbanassi, Stefania ; Mefire, Alain Chichom ; Weber, Dieter ; Ceresoli, Marco ; Peitzman, Andrew B. ; Wehlie, Liban ; Sartelli, Massimo ; Di Saverio, Salomone ; Ansaloni, Luca
Spleen injuries are among the most frequent trauma-related injuries. At present, they are classified according to the anatomy of the injury. The optimal treatment strategy, however, should keep into consideration the hemodynamic status, the anatomic derangement, and the associated injuries. The management of splenic trauma patients aims to restore the homeostasis and the normal physiopathology especially considering the modern tools for bleeding management. Thus, the management of splenic trauma should be ultimately multidisciplinary and based on the physiology of the patient, the anatomy of the injury, and the associated lesions. Lastly, as the management of adults and children must be different, children should always be treated in dedicated pediatric trauma centers. In fact, the vast majority of pediatric patients with blunt splenic trauma can be managed non-operatively. This paper presents the World Society of Emergency Surgery (WSES) classification of splenic trauma and the management guidelines.
Duplissy, Jonathan ; DeCarlo, Peter F. ; Dommen, Josef ; Alfarra, M. Rami ; Metzger, Axel ; Barmpadimos, Iakovos ; Prevot, André Stephan Henry ; Weingartner, Ernest ; Tritscher, Torsten ; Gysel, Martin ; Aiken, Allison C. ; Jimenez, Jose Luis ; Canagaratna, Manjula R. ; Worsnop, Douglas R. ; Collins, Donald R. ; Tomlinson, Jason M. ; Baltensperger, Urs
A hygroscopicity tandem differential mobility analyzer (HTDMA) was used to measure the water uptake (hygroscopicity) of secondary organic aerosol (SOA) formed during the chemical and photochemical oxidation of several organic precursors in a smog chamber. Electron ionization mass spectra of the non-refractory submicron aerosol were simultaneously determined with an aerosol mass spectrometer (AMS), and correlations between the two different signals were investigated. SOA hygroscopicity was found to strongly correlate with the relative abundance of the ion signal m/z 44 expressed as a fraction of total organic signal (f44). m/z 44 is due mostly to the ion fragment CO2+ for all types of SOA systems studied, and has been previously shown to strongly correlate with organic O/C for ambient and chamber OA. The analysis was also performed on ambient OA from two field experiments at the remote site Jungfraujoch, and the megacity Mexico City, where similar results were found. A simple empirical linear relation between the hygroscopicity of OA at subsaturated RH, as given by the hygroscopic growth factor (GF) or "ϰorg" parameter, and f44 was determined and is given by ϰorg = 2.2 × f44 − 0.13. This approximation can be further verified and refined as the database for AMS and HTDMA measurements is constantly being expanded around the world. The use of this approximation could introduce an important simplification in the parameterization of hygroscopicity of OA in atmospheric models, since f44 is correlated with the photochemical age of an air mass.
Agakishiev, Geydar ; Álvarez-Pol, Héctor ; Balanda, Andrzej ; Bassini, Roberto ; Böhmer, Michael ; Bokemeyer, Helmut ; Boyard, Jean-Louis ; Cabanelas Eiras, Pablo ; Chernenko, Sergey ; Christ, Tassilo ; Destefanis, Marco Giovanni Maria ; Dohrmann, Frank ; Dybczak, Adrian ; Eberl, Thomas ; Fabbietti, Laura ; Fateev, Oleg ; Finocchiaro, Paolo ; Friese, Jürgen ; Fröhlich, Ingo ; Galatyuk, Tetyana ; Garzón, Juan A. ; Gernhäuser, Roman ; Gilardi, Camilla ; Golubeva, Marina ; González-Díaz, Diégo ; Guber, Fedor ; Gumberidze, Malgorzata ; Hennino, Thierry ; Holzmann, Romain ; Ierusalimov, Alexander P. ; Iori, Ileana ; Ivashkin, Alexander ; Jurkovič, Martin ; Kämpfer, Burkhard ; Kanaki, Kalliopi ; Karavicheva, Tatiana ; Koenig, Ilse ; Koenig, Wolfgang ; Kolb, Burkhard W. ; Kotte, Roland ; Kozuch, Anna ; Krizek, Filip ; Kühn, Wolfgang ; Kugler, Andrej ; Kurepin, Alexei ; Lang, Simon Martin ; Lapidus, Kirill ; Liu, T. ; Maier, Ludwig W. ; Markert, Jochen ; Metag, Volker ; Michalska, Beata ; Morinière, Emilie ; Mousa, Jehad ; Münch, Mathias ; Münch, Christian ; Naumann, Lothar ; Otwinowski, Jacek Tomasz ; Pachmayer, Yvonne C. ; Pechenov, Vladimir ; Pechenova, Olga ; Pérez Cavalcanti, Tiago ; Pietraszko, Jerzy ; Pospısil, Vladimir ; Przygoda, Witold ; Ramstein, Béatrice ; Reshetin, Andrey ; Roy-Stephan, M. ; Rustamov, Anar ; Sadovsky, Alexander ; Sailer, Benjamin ; Salabura, Piotr ; Sánchez, M. ; Schmah, Alexander ; Schwab, Erwin ; Sobolev, Yuri G. ; Spataro, Stefano ; Spruck, Björn ; Ströbele, Herbert ; Stroth, Joachim ; Sturm, Christian Thomas ; Tarantola Peloni, Attilio ; Teilab, Khaled ; Tlustý, Pavel ; Toia, Alberica ; Traxler, Michael ; Trebacz, Radoslaw ; Tsertos, Haralabos ; Wagner, Vladimir ; Wisniowski, Marcin ; Wojcik, Tomasz ; Wüstenfeld, Jörn ; Yurevich, Sergey ; Zanevsky, Yuri V. ; Zumbruch, Peter W.
We present measurements of exclusive ensuremathπ+,0 and η production in pp reactions at 1.25GeV and 2.2GeV beam kinetic energy in hadron and dielectron channels. In the case of π+ and π0 , high-statistics invariant-mass and angular distributions are obtained within the HADES acceptance as well as acceptance-corrected distributions, which are compared to a resonance model. The sensitivity of the data to the yield and production angular distribution of Δ (1232) and higher-lying baryon resonances is shown, and an improved parameterization is proposed. The extracted cross-sections are of special interest in the case of pp → pp η , since controversial data exist at 2.0GeV; we find \ensuremathσ=0.142±0.022 mb. Using the dielectron channels, the π0 and η Dalitz decay signals are reconstructed with yields fully consistent with the hadronic channels. The electron invariant masses and acceptance-corrected helicity angle distributions are found in good agreement with model predictions.
Smolen, Josef S. ; Breedveld, Ferdinand C. ; Burmester, Gerd-Rüdiger ; Bykerk, Vivian ; Dougados, Maxime ; Emery, Paul ; Kvien, Tore K. ; Navarro-Compán, M. Victoria ; Oliver, Susan ; Schoels, Monika ; Scholte-Voshaar, Marieke ; Stamm, Tanja ; Stoffer, Michaela ; Takeuchi, Tsutomu ; Aletaha, Daniel ; Andreu, Jose Louis ; Aringer, Martin ; Bergman, Martin ; Bijlsma, Hans ; Burkhardt, Harald ; Cardiel-Ríos, Mario Humberto ; Combe, Bernard ; Durez, Patrick ; Fonseca, Joao Eurico ; Gibofsky, Alan ; Gomez-Reino, Juan J. ; Graninger, Winfried ; Hannonen, Pekka ; Haraoui, Boulos ; Kouloumas, Marios ; Landewe, Robert ; Martin-Mola, Emilio ; Nash, Peter ; Ostergaard, Mikkel ; Östör, Andrew ; Richards, Pam ; Sokka-Isler, Tuulikki ; Thorne, Carter ; Tzioufas, Athanasios G. ; Vollenhoven, Ronald van ; Wit, Martinus de ; Heijde, Désirée M. van der
Background Reaching the therapeutic target of remission or low-disease activity has improved outcomes in patients with rheumatoid arthritis (RA) significantly. The treat-to-target recommendations, formulated in 2010, have provided a basis for implementation of a strategic approach towards this therapeutic goal in routine clinical practice, but these recommendations need to be re-evaluated for appropriateness and practicability in the light of new insights.
Objective To update the 2010 treat-to-target recommendations based on systematic literature reviews (SLR) and expert opinion.
Methods A task force of rheumatologists, patients and a nurse specialist assessed the SLR results and evaluated the individual items of the 2010 recommendations accordingly, reformulating many of the items. These were subsequently discussed, amended and voted upon by >40 experts, including 5 patients, from various regions of the world. Levels of evidence, strengths of recommendations and levels of agreement were derived.
Results The update resulted in 4 overarching principles and 10 recommendations. The previous recommendations were partly adapted and their order changed as deemed appropriate in terms of importance in the view of the experts. The SLR had now provided also data for the effectiveness of targeting low-disease activity or remission in established rather than only early disease. The role of comorbidities, including their potential to preclude treatment intensification, was highlighted more strongly than before. The treatment aim was again defined as remission with low-disease activity being an alternative goal especially in patients with long-standing disease. Regular follow-up (every 1–3 months during active disease) with according therapeutic adaptations to reach the desired state was recommended. Follow-up examinations ought to employ composite measures of disease activity that include joint counts. Additional items provide further details for particular aspects of the disease, especially comorbidity and shared decision-making with the patient. Levels of evidence had increased for many items compared with the 2010 recommendations, and levels of agreement were very high for most of the individual recommendations (≥9/10).
Conclusions The 4 overarching principles and 10 recommendations are based on stronger evidence than before and are supposed to inform patients, rheumatologists and other stakeholders about strategies to reach optimal outcomes of RA.
Thudi, Mahendar ; Varshney, Rajeev K. ; Bohra, Abhishek ; Nayak, Spurthi N. ; Varghese, Nicy ; Shah, Trushar M. ; Penmetsa, R. Varma ; Thirunavukkarasu, Nepolean ; Gudipati, Srivani ; Gaur, Pooran M. ; Kulwal, Pawan L. ; Upadhyaya, Hari D. ; KaviKishor, Polavarapu B. ; Winter, Peter ; Kahl, Günter ; Town, Christopher D. ; Kilian, Andrzej ; Cook, Douglas R.
Chickpea (Cicer arietinum L.) is the third most important cool season food legume, cultivated in arid and semi-arid regions of the world. The goal of this study was to develop novel molecular markers such as microsatellite or simple sequence repeat (SSR) markers from bacterial artificial chromosome (BAC)-end sequences (BESs) and diversity arrays technology (DArT) markers, and to construct a high-density genetic map based on recombinant inbred line (RIL) population ICC 4958 (C. arietinum)×PI 489777 (C. reticulatum). A BAC-library comprising 55,680 clones was constructed and 46,270 BESs were generated. Mining of these BESs provided 6,845 SSRs, and primer pairs were designed for 1,344 SSRs. In parallel, DArT arrays with ca. 15,000 clones were developed, and 5,397 clones were found polymorphic among 94 genotypes tested. Screening of newly developed BES-SSR markers and DArT arrays on the parental genotypes of the RIL mapping population showed polymorphism with 253 BES-SSR markers and 675 DArT markers. Segregation data obtained for these polymorphic markers and 494 markers data compiled from published reports or collaborators were used for constructing the genetic map. As a result, a comprehensive genetic map comprising 1,291 markers on eight linkage groups (LGs) spanning a total of 845.56 cM distance was developed (http://cmap.icrisat.ac.in/cmap/sm/cp/thudi/). The number of markers per linkage group ranged from 68 (LG 8) to 218 (LG 3) with an average inter-marker distance of 0.65 cM. While the developed resource of molecular markers will be useful for genetic diversity, genetic mapping and molecular breeding applications, the comprehensive genetic map with integrated BES-SSR markers will facilitate its anchoring to the physical map (under construction) to accelerate map-based cloning of genes in chickpea and comparative genome evolution studies in legumes.
In memory of Edward Diener: reflections on his career, contributions and the science of happiness
(2021)
Ng, Weiting ; Tov, William ; Veenhoven, Ruut ; Rothmann, Sebastiaan ; Chambel, Maria José ; Chen, Sufen ; Cole, Matthew L. ; Consiglio, Chiara ; Costantini, Arianna ; Datu, Jesus Alfonso Daep ; Di Blasi, Zelda ; Gumbau, Susana Llorens ; Huber, Alexandra ; Kelders, Saskia M. ; Klibert, Jeff ; Knoop, Hans Henrik ; Mayer, Claude-Hélène ; Nel, Mirna ; Salanova, Marisa ; Schotanus-Dijkstra, Marijke ; Shankland, Rebecca ; Shimazu, Akihito ; Klooster, Peter M. ten ; Vera, Maria ; Zondervan-Zwijnenburg, Maria A. J. ; Zyl, Llewellyn Ellardus van
Prof. Edward (Ed) Diener (1946-2021), a pioneer in positive psychology, passed away on the 27th of April 2021 at his home in Salt Lake City, Utah (Salt Lake City Tribune, 2021). As one of the most influential psychologists of the discipline, Ed Diener pushed the boundaries of our understanding of positive psychological functioning, subjective well-being, and happiness (Layous, 2020). As one of the Top 200 most cited researchers across all disciplines and fields, he will be most remembered for founding the scientific study of subjective well-being (SWB) and happiness (Bakshi, 2019). Diener developed the concept of subjective well-being by exploring the factors that influence people's life satisfaction (Diener et al., 2017a). He studied the individual causes of subjective well-being, such as close social relationships, income, meaning and purpose, personality, and societal causes, such as economic development, low corruption and crime, and a healthy environment (Diener et al., 2018). His research has discovered both universal and culture-specific causes and consequences of SWB and influenced governmental policy (Oishi et al., 1999). In respect of his memory, the purpose of this paper is threefold: (a) to reflect upon his career journey, (b) to celebrate his significant contributions to the discipline, and (c) to provide personal reflections of those who worked closely with him over the past 50 years.
Nijkamp, Jurgen F. ; Broek, Marcel van den ; Datema, Erwin ; Kok, Stefan de ; Bosman, Lizanne ; Luttik, M. Louise ; Daran-Lapujade, Pascale ; Vongsangnak, Wanwipa ; Nielsen, Jens ; Heijne, Wilbert H. M. ; Klaassen, Paul ; Paddon, Chris J. ; Platt, Darren ; Kötter, Peter ; Ham, Roeland C. van ; Reinders, Marcel J. T. ; Pronk, Jack T. ; Ridder, Dick de ; Daran, Jean-Marc
Saccharomyces cerevisiae CEN.PK 113-7D is widely used for metabolic engineering and systems biology research in industry and academia. We sequenced, assembled, annotated and analyzed its genome. Single-nucleotide variations (SNV), insertions/deletions (indels) and differences in genome organization compared to the reference strain S. cerevisiae S288C were analyzed. In addition to a few large deletions and duplications, nearly 3000 indels were identified in the CEN.PK113-7D genome relative to S288C. These differences were overrepresented in genes whose functions are related to transcriptional regulation and chromatin remodelling. Some of these variations were caused by unstable tandem repeats, suggesting an innate evolvability of the corresponding genes. Besides a previously characterized mutation in adenylate cyclase, the CEN.PK113-7D genome sequence revealed a significant enrichment of non-synonymous mutations in genes encoding for components of the cAMP signalling pathway. Some phenotypic characteristics of the CEN.PK113-7D strains were explained by the presence of additional specific metabolic genes relative to S288C. In particular, the presence of the BIO1 and BIO6 genes correlated with a biotin prototrophy of CEN.PK113-7D. Furthermore, the copy number, chromosomal location and sequences of the MAL loci were resolved. The assembled sequence reveals that CEN.PK113-7D has a mosaic genome that combines characteristics of laboratory strains and wild-industrial strains.
Wang, Mingyi ; Kong, Weimeng ; Marten, Ruby ; He, Xu-Cheng ; Chen, Dexian ; Pfeifer, Joschka ; Heitto, Arto ; Kontkanen, Jenni ; Dada, Lubna ; Kürten, Christoph Andreas ; Yli-Juuti, Taina ; Manninen, Hanna Elina ; Amanatidis, Stavros ; Amorim, Antonio ; Baalbaki, Rima ; Baccarini, Andrea ; Bell, David M. ; Bertozzi, Barbara ; Bräkling, Steffen ; Brilke, Sophia ; Murillo, Lucía Caudillo ; Chiu, Randall ; Chu, Biwu ; De Menezes, Louis-Philippe ; Duplissy, Jonathan ; Finkenzeller, Henning ; Gonzalez Carracedo, Loic ; Granzin, Manuel ; Guida, Roberto ; Hansel, Armin ; Hofbauer, Victoria ; Krechmer, Jordan ; Lehtipalo, Katrianne ; Lamkaddam, Houssni ; Lampimäki, Marku ; Lee, Chuan Ping ; Makhmutov, Vladimir ; Marie, Guillaume ; Mathot, Serge ; Mauldin, Roy Lee ; Mentler, Bernhard ; Müller, Tatjana ; Onnela, Antti ; Partoll, Eva ; Petäjä, Tuukka ; Philippov, Maxim ; Pospisilova, Veronika ; Ranjithkumar, Ananth ; Rissanen, Matti P. ; Rörup, Birte ; Scholz, Wiebke ; Shen, Jiali ; Simon, Mario ; Sipilä, Mikko ; Steiner, Gerhard ; Stolzenburg, Dominik ; Tham, Yee Jun ; Tomé, António ; Wagner, Andrea Christine ; Wang, Dongyu S. ; Wang, Yonghong ; Weber, Stefan K. ; Winkler, Paul M. ; Wlasits, Peter J. ; Wu, Yusheng ; Xiao, Mao ; Ye, Qing ; Zauner-Wieczorek, Marcel ; Zhou, Xueqin ; Volkamer, Rainer ; Riipinen, Ilona ; Dommen, Josef ; Curtius, Joachim ; Baltensperger, Urs ; Kulmala, Markku ; Worsnop, Douglas R. ; Kirkby, Jasper ; Seinfeld, John H. ; El Haddad, Imad ; Flagan, Richard C. ; Donahue, Neil McPherson
A list of authors and their affiliations appears at the end of the paper New-particle formation is a major contributor to urban smog, but how it occurs in cities is often puzzling. If the growth rates of urban particles are similar to those found in cleaner environments (1–10 nanometres per hour), then existing understanding suggests that new urban particles should be rapidly scavenged by the high concentration of pre-existing particles. Here we show, through experiments performed under atmospheric conditions in the CLOUD chamber at CERN, that below about +5 degrees Celsius, nitric acid and ammonia vapours can condense onto freshly nucleated particles as small as a few nanometres in diameter. Moreover, when it is cold enough (below −15 degrees Celsius), nitric acid and ammonia can nucleate directly through an acid–base stabilization mechanism to form ammonium nitrate particles. Given that these vapours are often one thousand times more abundant than sulfuric acid, the resulting particle growth rates can be extremely high, reaching well above 100 nanometres per hour. However, these high growth rates require the gas-particle ammonium nitrate system to be out of equilibrium in order to sustain gas-phase supersaturations. In view of the strong temperature dependence that we measure for the gas-phase supersaturations, we expect such transient conditions to occur in inhomogeneous urban settings, especially in wintertime, driven by vertical mixing and by strong local sources such as traffic. Even though rapid growth from nitric acid and ammonia condensation may last for only a few minutes, it is nonetheless fast enough to shepherd freshly nucleated particles through the smallest size range where they are most vulnerable to scavenging loss, thus greatly increasing their survival probability. We also expect nitric acid and ammonia nucleation and rapid growth to be important in the relatively clean and cold upper free troposphere, where ammonia can be convected from the continental boundary layer and nitric acid is abundant from electrical storms.
Brill, D. ; Ahner, W. ; Baltes, P. ; Barth, R. ; Bormann, Christian ; Cieslak, M. ; Debowski, M. ; Grosse, E. ; Henning, W. ; Koczon, P. ; Kohlmeyer, B. ; Miśkowiec, Dariusz Czesław ; Müntz, Christian ; Oeschler, Helmut ; Pöppl, H. ; Pühlhofer, Falk ; Sartorius, S. ; Schicker, Rainer ; Senger, Peter ; Shin, Y. ; Speer, J. ; Stein, J. ; Stiebling, K. ; Stock, Reinhard ; Ströbele, Herbert ; Völkel, K. ; Wagner, A. ; Walús, Wladek
Triple differential cross sections d3 sigma /dp3 for charged pions produced in symmetric heavy-ion collisions were measured with the KaoS magnetic spectrometer at the heavy-ion synchrotron facility SIS at GSI. The correlations between the momentum vectors of charged pions and the reaction plane in 197Au+197Au collisions at an incident energy of 1 GeV/nucleon were determined. We observe, for the first time, an azimuthally anisotropic distribution of pions, with enhanced emission perpendicular to the reaction plane. The anisotropy is most pronounced for pions of high transverse momentum in semicentral collisions.
Fasching, Peter Andreas ; Häberle, Lothar ; Rack, Brigitte ; Li, Liang ; Hein, Alexander ; Ekici, Arif Bülent ; Reis, Andre ; Lux, Michael Patrick ; Cunningham, Julie M. ; Rübner, Matthias ; Jenkins, Gergory ; Fridley, Brooke ; Schneeweiss, Andreas ; Tesch, Hans ; Lichtenegger, Werner ; Fehm, Tanja ; Heinrich, Georg ; Rezai, Mahdi ; Beckmann, Matthias Wilhelm ; Janni, Wolfgang ; Weinshilboum, Richard M. ; Wang, Liewei
Hematotoxicity is one of the major side effects of chemotherapy. The aim of this study was to examine the association between single nucleotide polymorphisms (SNPs) and hematotoxicity in breast cancer patients in a subset of patients of the SUCCESS prospective phase III chemotherapy study. All patients (n = 1678) received three cycles of 5-fluorouracil, epirubicin, and cyclophosphamide (FEC) followed by three cycles of docetaxel or docetaxel/gemcitabine, depending on randomization. Germline DNA was genotyped for 246 SNPs selected from a previous genome-wide association study (GWAS) in a panel of lymphoblastoid cell lines, with gemcitabine toxicity as the phenotype. All SNPs were tested for their value in predicting grade 3 or 4 neutropenic or leukopenic events (NLEs). Their prognostic value in relation to overall survival and disease-free survival was also tested.
None of the SNPs was found to be predictive for NLEs during treatment with docetaxel/gemcitabine. Two SNPs in and close to the PIGB gene significantly improved the prediction of NLEs after FEC, in addition to the factors of age and body surface area. The top SNP (rs12050587) had an odds ratio of 1.38 per minor allele (95% confidence interval, 1.17 to 1.62). No associations were identified for predicting disease-free or overall survival.
Genetic variance in the PIGB gene may play a role in determining interindividual differences in relation to hematotoxicity after FEC chemotherapy.
Duplissy, Jonathan ; DeCarlo, Peter F. ; Dommen, Josef ; Alfarra, M. Rami ; Metzger, Axel ; Barmpadimos, Iakovos ; Prevot, André Stephan Henry ; Weingartner, Ernest ; Tritscher, Torsten ; Gysel, Martin ; Aiken, Allison C. ; Jimenez, Jose Luis ; Canagaratna, Manjula R. ; Worsnop, Douglas R. ; Collins, Donald R. ; Tomlinson, Jason M. ; Baltensperger, Urs
A hygroscopicity tandem differential mobility analyzer (HTDMA) was used to measure the water uptake (hygroscopicity) of secondary organic aerosol (SOA) formed during the chemical and photochemical oxidation of several organic precursors in a smog chamber. Electron ionization mass spectra of the non-refractory submicron aerosol were simultaneously determined with an aerosol mass spectrometer (AMS), and correlations between the two different signals were investigated. SOA hygroscopicity was found to strongly correlate with the relative abundance of the ion signal m/z 44 expressed as a fraction of total organic signal (f44). m/z 44 is due mostly to the ion fragment CO2+ for all types of SOA systems studied, and has been previously shown to strongly correlate with organic O/C for ambient and chamber OA. The analysis was also performed on ambient OA from two field experiments at the remote site Jungfraujoch, and the megacity Mexico City, where similar results were found. A simple empirical linear relation between the hygroscopicity of OA at subsaturated RH, as given by the hygroscopic growth factor (GF) or "κorg" parameter, and f44 was determined and is given by κorg=2.2×f44−0.13. This approximation can be further verified and refined as the database for AMS and HTDMA measurements is constantly being expanded around the world. The use of this approximation could introduce an important simplification in the parameterization of hygroscopicity of OA in atmospheric models, since f44 is correlated with the photochemical age of an air mass.
Ortiz-Sánchez, Paula ; Villalba-Orero, María ; López-Olañeta, Marina M. ; Larrasa-Alonso, Javier ; Sánchez-Cabo, Fátima ; Martí-Gómez, Carlos ; Camafeita, Emilio ; Gómez-Salinero, Jesús M. ; Ramos-Hernández, Laura ; Nielsen, Peter J. ; Vázquez, Jesús ; Müller-McNicoll, Michaela ; García-Pavía, Pablo ; Lara-Pezzi, Enrique
Rationale: RBPs (RNA binding proteins) play critical roles in the cell by regulating mRNA transport, splicing, editing, and stability. The RBP SRSF3 (serine/arginine-rich splicing factor 3) is essential for blastocyst formation and for proper liver development and function. However, its role in the heart has not been explored.
Objective:To investigate the role of SRSF3 in cardiac function.
Methods and Results: Cardiac SRSF3 expression was high at mid gestation and decreased during late embryonic development. Mice lacking SRSF3 in the embryonic heart showed impaired cardiomyocyte proliferation and died in utero. In the adult heart, SRSF3 expression was reduced after myocardial infarction, suggesting a possible role in cardiac homeostasis. To determine the role of this RBP in the adult heart, we used an inducible, cardiomyocyte-specific SRSF3 knockout mouse model. After SRSF3 depletion in cardiomyocytes, mice developed severe systolic dysfunction that resulted in death within 8 days. RNA-Seq analysis revealed downregulation of mRNAs encoding sarcomeric and calcium handling proteins. Cardiomyocyte-specific SRSF3 knockout mice also showed evidence of alternative splicing of mTOR (mammalian target of rapamycin) mRNA, generating a shorter protein isoform lacking catalytic activity. This was associated with decreased phosphorylation of 4E-BP1 (eIF4E-binding protein 1), a protein that binds to eIF4E (eukaryotic translation initiation factor 4E) and prevents mRNA decapping. Consequently, we found increased decapping of mRNAs encoding proteins involved in cardiac contraction. Decapping was partially reversed by mTOR activation.
Conclusions: We show that cardiomyocyte-specific loss of SRSF3 expression results in decapping of critical mRNAs involved in cardiac contraction. The molecular mechanism underlying this effect likely involves the generation of a short mTOR isoform by alternative splicing, resulting in reduced 4E-BP1 phosphorylation. The identification of mRNA decapping as a mechanism of systolic heart failure may open the way to the development of urgently needed therapeutic tools.
Al-Shahi Salman, Rustam ; Frantzias, Joseph ; Lee, Robert J. ; Lyden, Patrick D. ; Battey, Thomas W. K. ; Ayres, Alison M. ; Goldstein, Joshua Norkin ; Mayer, Stephan A. ; Steiner, Thorsten ; Wang, Xia ; Arima, Hisatomi ; Hasegawa, Hitoshi ; Oishi, Makoto ; Godoy, Daniel Agustín ; Masotti, Luca ; Dowlatshahi, Dar ; Rodríguez-Luna, David ; Molina, Carlos ; Jang, Dong-Kyu ; Davalos, Antonio ; Castillo, José ; Yao, Xiaoying ; Claassen, Jan ; Volbers, Bastian ; Kazui, Seiji ; Okada, Yasushi ; Fujimoto, Shigeru ; Toyoda, Kazunori ; Li, Qi ; Khoury, Jane ; Delgado, Pilar ; Álvarez-Sabín, José ; Hernández-Guillamon, Mar ; Prats-Sánchez, Luis ; Cai, Chunyan ; Kate, Mahesh ; McCourt, Rebecca ; Venkatasubramanian, Chitra ; Diringer, Michael N. ; Ikeda, Yukio ; Worthmann, Hans ; Ziai, Wendy C. ; D’Esterre, Christopher D. ; Aviv, Richard I. ; Raab, Peter ; Murai, Yasuo ; Zazulia, Allyson R. ; Butcher, Kenneth ; Seyedsaadat, Seyed Mohammad ; Grotta, James C. ; Martí-Fàbregas, Joan ; Montaner, Joan ; Broderick, Joseph ; Yamamoto, Haruko ; Staykov, Dimitre ; Connolly, Edward Sander ; Selim, Magdy ; Leira, Rogelio ; Moon, Byung Hoo ; Demchuk, Andrew M. ; Di Napoli, Mario ; Fujii, Yukihiko ; Anderson, Craig S. ; Rosand, Jonathan
Background: Intracerebral haemorrhage growth is associated with poor clinical outcome and is a therapeutic target for improving outcome. We aimed to determine the absolute risk and predictors of intracerebral haemorrhage growth, develop and validate prediction models, and evaluate the added value of CT angiography.
Methods: In a systematic review of OVID MEDLINE—with additional hand-searching of relevant studies' bibliographies— from Jan 1, 1970, to Dec 31, 2015, we identified observational cohorts and randomised trials with repeat scanning protocols that included at least ten patients with acute intracerebral haemorrhage. We sought individual patient-level data from corresponding authors for patients aged 18 years or older with data available from brain imaging initially done 0·5–24 h and repeated fewer than 6 days after symptom onset, who had baseline intracerebral haemorrhage volume of less than 150 mL, and did not undergo acute treatment that might reduce intracerebral haemorrhage volume. We estimated the absolute risk and predictors of the primary outcome of intracerebral haemorrhage growth (defined as >6 mL increase in intracerebral haemorrhage volume on repeat imaging) using multivariable logistic regression models in development and validation cohorts in four subgroups of patients, using a hierarchical approach: patients not taking anticoagulant therapy at intracerebral haemorrhage onset (who constituted the largest subgroup), patients taking anticoagulant therapy at intracerebral haemorrhage onset, patients from cohorts that included at least some patients taking anticoagulant therapy at intracerebral haemorrhage onset, and patients for whom both information about anticoagulant therapy at intracerebral haemorrhage onset and spot sign on acute CT angiography were known.
Findings: Of 4191 studies identified, 77 were eligible for inclusion. Overall, 36 (47%) cohorts provided data on 5435 eligible patients. 5076 of these patients were not taking anticoagulant therapy at symptom onset (median age 67 years, IQR 56–76), of whom 1009 (20%) had intracerebral haemorrhage growth. Multivariable models of patients with data on antiplatelet therapy use, data on anticoagulant therapy use, and assessment of CT angiography spot sign at symptom onset showed that time from symptom onset to baseline imaging (odds ratio 0·50, 95% CI 0·36–0·70; p<0·0001), intracerebral haemorrhage volume on baseline imaging (7·18, 4·46–11·60; p<0·0001), antiplatelet use (1·68, 1·06–2·66; p=0·026), and anticoagulant use (3·48, 1·96–6·16; p<0·0001) were independent predictors of intracerebral haemorrhage growth (C-index 0·78, 95% CI 0·75–0·82). Addition of CT angiography spot sign (odds ratio 4·46, 95% CI 2·95–6·75; p<0·0001) to the model increased the C-index by 0·05 (95% CI 0·03–0·07).
Interpretation: In this large patient-level meta-analysis, models using four or five predictors had acceptable to good discrimination. These models could inform the location and frequency of observations on patients in clinical practice, explain treatment effects in prior randomised trials, and guide the design of future trials.
Funding: UK Medical Research Council and British Heart Foundation.
Hoogakker, Babette A. A. ; Smith, Robin S. ; Singarayer, Joy ; Marchant, Robert ; Prentice, I. Colin ; Allen, Judy R. M. ; Anderson, R. Scott ; Bhagwat, Shonil A. ; Behling, Hermann ; Borisova, Olga ; Bush, Mark B. ; Correa-Metrio, Alexander ; De Vernal, Anne ; Finch, Jemma M. ; Fréchette, Bianca ; Lozano-García, Socorro ; Gosling, William D. ; Granoszewski, Wojciech ; Grimm, Eric C. ; Grüger, Eberhard ; Hanselman, Jennifer ; Harrison, Sandy P. ; Hill, Trevor R. ; Huntley, Brian ; Jimenez-Moreno, Gonzalo ; Kershaw, Arnold Peter ; Ledru, Marie-Pierre ; Magri, Donatella ; McKenzie, Merna ; Müller, Ulrich ; Nakagawa, Takeshi ; Novenko, Elena ; Penny, Daniel ; Sadori, Laura ; Scott, Louis ; Stevenson, Janelle ; Valdes, Paul J. ; Vandergoes, Marcus ; Velichko, Andrey ; Whitlock, Cathy ; Tzedakis, Chronis
A new global synthesis and biomization of long (> 40 kyr) pollen-data records is presented, and used with simulations from the HadCM3 and FAMOUS climate models to analyse the dynamics of the global terrestrial biosphere and carbon storage over the last glacial–interglacial cycle. Global modelled (BIOME4) biome distributions over time generally agree well with those inferred from pollen data. The two climate models show good agreement in global net primary productivity (NPP). NPP is strongly influenced by atmospheric carbon dioxide (CO2) concentrations through CO2 fertilization. The combined effects of modelled changes in vegetation and (via a simple model) soil carbon result in a global terrestrial carbon storage at the Last Glacial Maximum that is 210–470 Pg C less than in pre-industrial time. Without the contribution from exposed glacial continental shelves the reduction would be larger, 330–960 Pg C. Other intervals of low terrestrial carbon storage include stadial intervals at 108 and 85 kaBP, and between 60 and 65 kaBP during Marine Isotope Stage 4. Terrestrial carbon storage, determined by the balance of global NPP and decomposition, influences the stable carbon isotope composition (δ 13C) of seawater because terrestrial organic carbon is depleted in 13C. Using a simple carbon-isotope mass balance equation we find agreement in trends between modelled ocean δ 13C based on modelled land carbon storage, and palaeo-archives of ocean δ 13C, confirming that terrestrial carbon storage variations may be important drivers of ocean δ 13 C changes.
Hoogakker, Babette A. A. ; Smith, Robin S. ; Singarayer, Joy ; Marchant, Robert ; Prentice, I. Colin ; Allen, Judy R. M. ; Anderson, R. Scott ; Bhagwat, Shonil A. ; Behling, Hermann ; Borisova, Olga ; Bush, Mark B. ; Correa-Metrio, Alexander ; De Vernal, Anne ; Finch, Jemma M. ; Fréchette, Bianca ; Lozano-García, Socorro ; Gosling, William D. ; Granoszewski, Wojciech ; Grimm, Eric C. ; Grüger, Eberhard ; Hanselman, Jennifer ; Harrison, Sandy P. ; Hill, Trevor R. ; Huntley, Brian ; Jimenez-Moreno, Gonzalo ; Kershaw, Arnold Peter ; Ledru, Marie-Pierre ; Magri, Donatella ; McKenzie, Merna ; Müller, Ulrich ; Nakagawa, Takeshi ; Novenko, Elena ; Penny, Daniel ; Sadori, Laura ; Scott, Louis ; Stevenson, Janelle ; Valdes, Paul J. ; Vandergoes, Marcus ; Velichko, Andrey ; Whitlock, Cathy ; Tzedakis, Chronis
A new global synthesis and biomization of long (> 40 kyr) pollen-data records is presented and used with simulations from the HadCM3 and FAMOUS climate models and the BIOME4 vegetation model to analyse the dynamics of the global terrestrial biosphere and carbon storage over the last glacial–interglacial cycle. Simulated biome distributions using BIOME4 driven by HadCM3 and FAMOUS at the global scale over time generally agree well with those inferred from pollen data. Global average areas of grassland and dry shrubland, desert, and tundra biomes show large-scale increases during the Last Glacial Maximum, between ca. 64 and 74 ka BP and cool substages of Marine Isotope Stage 5, at the expense of the tropical forest, warm-temperate forest, and temperate forest biomes. These changes are reflected in BIOME4 simulations of global net primary productivity, showing good agreement between the two models. Such changes are likely to affect terrestrial carbon storage, which in turn influences the stable carbon isotopic composition of seawater as terrestrial carbon is depleted in 13C.
Göbel, Kathrin ; Adrich, Przemysław ; Altstadt, Sebastian ; Altstadt, Sebastian ; Alvarez-Pol, Héctor ; Aksouh, Farouk ; Aumann, Thomas ; Babilon, Mari ; Behr, Karl-Heinz ; Berg, Thomas ; Böhmer, Michael ; Boretzky, Konstanze ; Brünle, Adolf ; Beyer, R. ; Casarejos Ruiz, Enrique ; Chartier, Marielle ; Cortina Gil, Dolores ; Chatillon, Audrey ; Datta Pramanik, Ushasi ; Deveaux, L. ; Elvers, Michael ; Elze, Thomas W. ; Emling, Hans ; Erhard, Martin Andreas ; Ershova, Olga ; Fernández Domínguez, Beatriz ; Geissel, Hans ; Górska, Magdalena ; Heftrich, Tanja ; Heil, Michael ; Hellstroem, M. ; Ickert, Günter ; Johansson, Håkan T. ; Junghans, Arnd Rudolf ; Käppeler, Franz ; Kiselev, Oleg A. ; Klimkiewicz, Adam ; Kratz, Jens-Volker ; Kratz, Jens-Volker ; Kulessa, Reinhard ; Kurz, Nikolaus ; Labiche, Marc ; Langer, Christoph ; Le Bleis, Tudi ; Lemmon, Roy Crawford ; Lindenberg, Kai ; Litvinov, Yuri A. ; Maierbeck, Peter ; Movsesyan, Alina ; Müller, S. ; Nilsson, Thomas ; Nociforo, Chiara ; Paar, Nils ; Palit, Rudrayoti ; Paschalis, Stefanos ; Plag, Ralf ; Prokopowicz, Wawrzyniec ; Reifarth, René ; Rossi, Dominic M. ; Schnorrenberger, Linda ; Simon, Haik ; Sonnabend, Kerstin ; Sümmerer, Klaus ; Surówka, Grzegorz ; Vretenar, Dario ; Wagner, Andreas ; Walter, S. ; Waluś, Władysław ; Wamers, Felix ; Weick, Helmut ; Weigand, Mario ; Winckler, Nicolas ; Winkler, Martin ; Zilges, Andreas
The Coulomb Dissociation (CD) cross sections of the stable isotopes 92,94,100Mo and of the unstable isotope 93Mo were measured at the LAND/R3B setup at GSI Helmholtzzentrum für Schwerionenforschung in Darmstadt, Germany. Experimental data on these isotopes may help to explain the problem of the underproduction of 92,94Mo and 96,98Ru in the models of p-process nucleosynthesis. The CD cross sections obtained for the stable Mo isotopes are in good agreement with experiments performed with real photons, thus validating the method of Coulomb Dissociation. The result for the reaction 93Mo(γ,n) is especially important since the corresponding cross section has not been measured before. A preliminary integral Coulomb Dissociation cross section of the 94Mo(γ,n) reaction is presented. Further analysis will complete the experimental database for the (γ,n) production chain of the p-isotopes of molybdenum.
Raoof, Rana ; Jimenez-Mateos, Eva María ; Bauer, Sebastian ; Tackenberg, Björn ; Rosenow, Felix ; Lang, Johannes ; Dogan Onugoren, Müjgan ; Hamer, Hajo ; Huchtemann, Tessa ; Körtvélyessy, Péter ; Connolly, Niamh M. C. ; Pfeiffer, Shona ; Prehn, Jochen H. M. ; Farrell, Michael A. ; O’Brien, Donncha ; Henshall, David C. ; Mooney, Catherine
There is a need for diagnostic biomarkers of epilepsy and status epilepticus to support clinical examination, electroencephalography and neuroimaging. Extracellular microRNAs may be potentially ideal biomarkers since some are expressed uniquely within specific brain regions and cell types. Cerebrospinal fluid offers a source of microRNA biomarkers with the advantage of being in close contact with the target tissue and sites of pathology. Here we profiled microRNA levels in cerebrospinal fluid from patients with temporal lobe epilepsy or status epilepticus, and compared findings to matched controls. Differential expression of 20 microRNAs was detected between patient groups and controls. A validation phase included an expanded cohort and samples from patients with other neurological diseases. This identified lower levels of miR-19b in temporal lobe epilepsy compared to controls, status epilepticus and other neurological diseases. Levels of miR-451a were higher in status epilepticus compared to other groups whereas miR-21-5p differed in status epilepticus compared to temporal lobe epilepsy but not to other neurological diseases. Targets of these microRNAs include proteins regulating neuronal death, tissue remodelling, gliosis and inflammation. The present study indicates cerebrospinal fluid contains microRNAs that can support differential diagnosis of temporal lobe epilepsy and status epilepticus from other neurological and non-neurological diseases.
Nelson, David R. ; Zeuzem, Stefan ; Andreone, Pietro ; Ferenci, Peter ; Herring, Robert ; Jensen, Donald M. ; Marcellin, Patrick ; Pockros, Paul J. ; Rodríguez-Torres, Maribel ; Rossaro, Lorenzo ; Rustgi, Vinod K. ; Sepe, Thomas ; Sulkowski, Mark ; Thomason, Isaac R. ; Yoshida, Eric M. ; Chan, Anna ; Hill, George
Introduction. Balapiravir (R1626, RG1626) is the prodrug of a nucleoside analogue inhibitor of the hepatitis C virus (HCV) RNA-dependent RNA polymerase (R1479, RG1479). This phase 2, double-blind international trial evaluated the optimal treatment regimen of balapiravir plus peginterferon alfa-2a (40KD)/ribavirin.
Material and methods. Treatment-naive genotype 1 patients (N = 516) were randomized to one of seven treatment groups in which they received balapiravir 500, 1,000, or 1,500 mg twice daily, peginterferon alfa2a (40KD) 180 or 90 Mg/week and ribavirin 1,000/1,200 mg/day or peginterferon alfa-2a (40KD)/ribavirin. The planned treatment duration with balapiravir was reduced from 24 to 12 weeks due to safety concerns.
Results. The percentage of patients with undetectable HCV RNA was consistently higher in all balapiravir groups from week 2 to 12. However, high rates of dose modifications and discontinuations of one/all study drugs compromised the efficacy assessment and resulted in similar sustained virological response rates in the balapiravir groups (range 32-50%) and the peginterferon alfa-2a (40KD)/ribavirin group (43%). Balapiravir was discontinued for safety reasons in 28-36% of patients (most often for lymphopenia) and the percentage of patients with serious adverse events (especially hematological, infection, ocular events) was dose related. Serious hematological adverse events (particularly neutropenia, lymphopenia) were more common in balapiravir recipients. Two deaths in the balapiravir/peginterferon alfa-2a/ribavirin combination groups were considered possibly related to study medication.
Conclusion. Further development of balapiravir for the treatment of chronic hepatitis C has been halted because of the unacceptable benefit to risk ratio revealed in this study (www.ClinicalTrials.gov NCT 00517439).
Slik, J. W. Ferry ; Franklin, Janet ; Arroyo-Rodríguez, Víctor ; Field, Richard ; Aguilar, Salomon ; Aguirre, Nikolay ; Ahumada, Jorge ; Aiba, Shin-Ichiro ; Alves, Luciana F. ; Anitha, Kamalakumari ; Avella, Andres ; Mora, Francisco ; Aymard, Gerardo A. ; Báez, Selene ; Balvanera, Patricia ; Bastian, Meredith L. ; Bastin, Jean-François ; Bellingham, Peter ; van den Berg, Eduardo ; da Conceição Bispo, Polyanna ; Boeckx, Pascal ; Böhning-Gaese, Katrin ; Bongers, Frans ; Boyle, Brad ; Brambach, Fabian ; Brearley, Francis Q. ; Brown, Sandra ; Chai, Shauna-Lee ; Chazdon, Robin L. ; Chen, Shengbin ; Chhang, Phourin ; Chuyong, George ; Ewangog, Corneille ; Coronado, Indiana ; Cristóbal-Azkarate, Jurgi ; Culmsee, Heike ; Damas, Kipiro ; Dattaraja, Handanakere Shivaramaiah ; Davidar, Priya ; DeWalt, Saara J. ; Din, Hazimah ; Drake, Donald R. ; Duque, Alvaro ; Durigan, Giselda ; Eichhorn, Karl ; Schmidt Eler, Eduardo ; Enoki, Tsutomu ; Ensslin, Andreas ; Fandohan, Adandé Belarmain ; Farwig, Nina ; Feeley, Kenneth J. ; Fischer, Markus ; Forshed, Olle ; Garcia, Queila Souza ; Garkoti, Satish Chandra ; Gillespie, Thomas William ; Gillet, Jean-Francois ; Gonmadje, Christelle ; Granzow-de la Cerda, Iñigo ; Griffith, Daniel M. ; Grogan, James ; Hakeem, Khalid Rehman ; Harris, David J. ; Harrison, Rhett D. ; Hector, Andy ; Hemp, Andreas ; Homeier, Jürgen ; Hussain, M. Shah ; Ibarra Manríquez, Guillermo ; Hanum, I. Faridah ; Imai, Nobuo ; Jansen, Patrick A. ; Joly, Carlos Alfredo ; Joseph, Shijo ; Kartawinata, Kuswata ; Kearsley, Elizabeth ; Kelly, Daniel L. ; Kessler, Michael ; Killeen, Timothy J. ; Kooyman, Robert ; Laumonier, Yves ; Laurance, Susan G. ; Laurance, William F. ; Lawes, Michael J. ; Letcher, Susan G. ; Lindsell, Jeremy ; Lovett, Jon ; Lozada, Jose ; Lu, Xinghui ; Lykke, Anne Mette ; Bin Mahmud, Khairil ; Mahayani, Ni Putu Diana ; Mansor, Asyraf ; Marshall, Andrew R. ; Martin, Emanuel H. ; Leal Matos, Darley Calderado ; Meave, Jorge A. ; Melo, Felipe P. L. ; Aguirre Mendoza, Zhofre ; Metali, Faizah ; Medjibe, Vincent P. ; Metzger, Jean Paul ; Metzker, Thiago ; Mohandass, Dharmalingam ; Munguía-Rosas, Miguel A. ; Muñoz, Rodrigo ; Nurtjahy, Eddy ; Lenza de Oliveira, Eddie ; Onrizal, Onrizal ; Parolin, Pia ; Parren, Marc ; Parthasarathy, Narayanaswamy ; Paudel, Ekananda ; Perez, Rolando ; Pérez-García, Eduardo A. ; Pommer, Ulf ; Poorter, Lourens ; Qi, Lan ; F. Piedade, Maria Teresa ; Rodrigues Pinto, José Roberto ; Dalberg Poulsen, Axel ; Poulsen, John R. ; Powers, Jennifer S. ; Prasad, Rama Chandra ; Puyravaud, Jean-Philippe ; Rangel, Orlando ; Reitsma, Jan ; S. B. Rocha, Diogo ; Rolim, Samir ; Rovero, Francesco ; Rozak, Andes ; Ruokolainen, Kalle ; Rutishauser, Ervan ; Rutten, Gemma ; Mohd. Said, Mohd. Nizam ; Saiter, Felipe Z. ; Saner, Philippe ; Santos, Braulio ; dos Santos, João Roberto ; Sarker, Swapan Kumar ; Schmitt, Christine B. ; Schöngart, Jochen ; Schulze, Mark ; Sheil, Douglas ; Sist, Plinio ; Souza, Alexandre F. ; Spironello, Wilson Roberto ; Sposito, Tereza ; Steinmetz, Robert ; Stevart, Tariq ; Suganuma, Marcio Seiji ; Sukri, Rahayu ; Sultana, Aisha ; Sukumar, Raman ; Sunderland, Terry ; Supriyadi, Agus ; Suresh, Hebbalalu S. ; Suzuki, Eizi ; Tabarelli, Marcelo ; Tang, Jianwei ; Tanner, Edmund V. J. ; Targhetta, Natalia ; Theilade, Ida ; Thomas, Duncan ; Timberlake, Jonathan ; de Morisson Valeriano, Márcio ; Valkenburg, Johan van ; Do, Tran Van ; Sam, Hoang Van ; Vandermeer, John H. ; Verbeeck, Hans ; Vetaas, Ole Reidar ; Adekunle, Victor ; Vieira, Simone A. ; Webb, Campbell O. ; Webb, Edward L. ; Whitfeld, Timothy ; Wich, Serge ; Williams, John ; Wiser, Susan ; Wittmann, Florian ; Yang, Xiaobo ; Adou Yao, C. Yves ; Yap, Sandra L. ; Zahawie, Rakan A. ; Zakaria, Rahmad ; Zang, Runguo
Knowledge about the biogeographic affinities of the world’s tropical forests helps to better understand regional differences in forest structure, diversity, composition, and dynamics. Such understanding will enable anticipation of region-specific responses to global environmental change. Modern phylogenies, in combination with broad coverage of species inventory data, now allow for global biogeographic analyses that take species evolutionary distance into account. Here we present a classification of the world’s tropical forests based on their phylogenetic similarity. We identify five principal floristic regions and their floristic relationships: (i) Indo-Pacific, (ii) Subtropical, (iii) African, (iv) American, and (v) Dry forests. Our results do not support the traditional neo- versus paleotropical forest division but instead separate the combined American and African forests from their Indo-Pacific counterparts. We also find indications for the existence of a global dry forest region, with representatives in America, Africa, Madagascar, and India. Additionally, a northern-hemisphere Subtropical forest region was identified with representatives in Asia and America, providing support for a link between Asian and American northern-hemisphere forests.
Chang, Hong ; Hoshina, Naosuke ; Zhang, Chen ; Ma, Yina ; Cao, Hongxin ; Wang, Yaling ; Wu, Dong-Dong ; Bergen, Sarah E. ; Landén, Mikael ; Hultman, Christina M. ; Preisig, Martin ; Kutalik, Zoltán ; Castelao, Enrique ; Grigoroiu-Serbanescu, Maria ; Forstner, Andreas Josef ; Strohmaier, Jana ; Hecker, Julian ; Schulze, Thomas Gerd ; Müller-Myhsok, Bertram ; Reif, Andreas ; Mitchell, Philip B. ; Martin, Nicholas Gordon ; Schofield, Peter R. ; Cichon, Sven ; Nöthen, Markus Maria ; Walter, Henrik ; Erk, Susanne ; Heinz, Andreas ; Amin, Najaf ; Duijn, Cornelia M. van ; Meyer-Lindenberg, Andreas ; Tost, Heike ; Xiao, Xiao ; Yamamoto, Tadashi ; Rietschel, Marcella ; Li, Ming
Major mood disorders, which primarily include bipolar disorder and major depressive disorder, are the leading cause of disability worldwide and pose a major challenge in identifying robust risk genes. Here, we present data from independent large-scale clinical data sets (including 29 557 cases and 32 056 controls) revealing brain expressed protocadherin 17 (PCDH17) as a susceptibility gene for major mood disorders. Single-nucleotide polymorphisms (SNPs) spanning the PCDH17 region are significantly associated with major mood disorders; subjects carrying the risk allele showed impaired cognitive abilities, increased vulnerable personality features, decreased amygdala volume and altered amygdala function as compared with non-carriers. The risk allele predicted higher transcriptional levels of PCDH17 mRNA in postmortem brain samples, which is consistent with increased gene expression in patients with bipolar disorder compared with healthy subjects. Further, overexpression of PCDH17 in primary cortical neurons revealed significantly decreased spine density and abnormal dendritic morphology compared with control groups, which again is consistent with the clinical observations of reduced numbers of dendritic spines in the brains of patients with major mood disorders. Given that synaptic spines are dynamic structures which regulate neuronal plasticity and have crucial roles in myriad brain functions, this study reveals a potential underlying biological mechanism of a novel risk gene for major mood disorders involved in synaptic function and related intermediate phenotypes.
Lorenz, Matthias ; Gao, Lu ; Ziegelbauer, Kathrin ; Norata, Giuseppe Danilo ; Empana, Jean Philippe ; Schmidtmann, Irene ; Lin, Hung-Ju ; McLachlan, Stela ; Bokemark, Lena ; Ronkainen, Kimmo ; Amato, Mauro ; Schminke, Ulf ; Srinivasan, Sathanur R. ; Lind, Lars ; Okazaki, Shuhei ; Stehouwer, Coen D. A. ; Willeit, Peter ; Polak, Joseph F. ; Steinmetz, Helmuth ; Sander, Dirk ; Poppert, Holger ; Desvarieux, Moise ; Ikram, M. Arfan ; Johnsen, Stein Harald ; Staub, Daniel ; Sirtori, Cesare R. ; Iglseder, Bernhard ; Beloqui, Oscar ; Engström, Gunnar ; Friera, Alfonso ; Rozza, Francesco ; Xie, Wuxiang ; Parraga, Grace ; Grigore, Liliana ; Plichart, Matthieu ; Blankenberg, Stefan ; Su, Ta-Chen ; Schmidt, Caroline ; Tuomainen, Tomi-Pekka ; Veglia, Fabrizio ; Völzke, Henry ; Nijpels, Giel ; Willeit, Johann ; Sacco, Ralph L. ; Franco, Oscar H. ; Uthoff, Heiko ; Hedblad, Bo ; Suarez, Carmen ; Izzo, Raffaele ; Zhao, Dong ; Wannarong, Thapat ; Catapano, Alberico ; Ducimetiere, Pierre ; Espinola-Klein, Christine ; Chien, Kuo-Liong ; Price, Jackie F. ; Bergström, Göran ; Kauhanen, Jussi ; Tremoli, Elena ; Dörr, Marcus ; Berenson, Gerald ; Kitagawa, Kazuo ; Dekker, Jacqueline M. ; Kiechl, Stefan ; Sitzer, Matthias ; Bickel, Horst ; Rundek, Tatjana ; Hofman, Albert ; Mathiesen, Ellisiv B. ; Castelnuovo, Samuela ; Landecho, Manuel F. ; Rosvall, Maria ; Gabriel, Rafael ; De Luca, Nicola ; Liu, Jing ; Baldassarre, Damiano ; Kavousi, Maryam ; De Groot, Eric ; Bots, Michiel L. ; Yanez, David N. ; Thompson, Simon G.
Aims: Carotid intima media thickness (CIMT) predicts cardiovascular (CVD) events, but the predictive value of CIMT change is debated. We assessed the relation between CIMT change and events in individuals at high cardiovascular risk.
Methods and results: From 31 cohorts with two CIMT scans (total n = 89070) on average 3.6 years apart and clinical follow-up, subcohorts were drawn: (A) individuals with at least 3 cardiovascular risk factors without previous CVD events, (B) individuals with carotid plaques without previous CVD events, and (C) individuals with previous CVD events. Cox regression models were fit to estimate the hazard ratio (HR) of the combined endpoint (myocardial infarction, stroke or vascular death) per standard deviation (SD) of CIMT change, adjusted for CVD risk factors. These HRs were pooled across studies.
In groups A, B and C we observed 3483, 2845 and 1165 endpoint events, respectively. Average common CIMT was 0.79mm (SD 0.16mm), and annual common CIMT change was 0.01mm (SD 0.07mm), both in group A. The pooled HR per SD of annual common CIMT change (0.02 to 0.43mm) was 0.99 (95% confidence interval: 0.95–1.02) in group A, 0.98 (0.93–1.04) in group B, and 0.95 (0.89–1.04) in group C. The HR per SD of common CIMT (average of the first and the second CIMT scan, 0.09 to 0.75mm) was 1.15 (1.07–1.23) in group A, 1.13 (1.05–1.22) in group B, and 1.12 (1.05–1.20) in group C.
Conclusions: We confirm that common CIMT is associated with future CVD events in individuals at high risk. CIMT change does not relate to future event risk in high-risk individuals.
Mendoza Cembranos, Emilio ; Cano-Ott, Daniel ; Altstadt, Sebastian ; Andriamonje, Samuel ; Andrzejewski, Józef ; Audouin, Laurent ; Balibrea Correa, Javier ; Bécares, Vicente ; Barbagallo, Massimo ; Bečvář, František ; Belloni, Fabio ; Berthier, B. ; Berthoumieux, Eric ; Billowes, Jonathan ; Boccone, Vittorio ; Bosnar, Damir ; Brugger, Markus ; Calviño Tavares, Francisco ; Calviani, Marco ; Carrapiço, Carlos ; Cerutti, Francesco ; Chiaveri, Enrico ; Chin, Michael ; Colonna, Nicola ; Cortés Rossell, Guillem Pere ; Cortés-Giraldo, Miguel Antonio ; Diakaki, Maria ; Dillmann, Iris ; Domingo-Pardo, César ; Durán, Ignacio ; Dzysiuk, Nataliia ; Eleftheriadis, Christos ; Fernández-Ordóñez, M. ; Ferrari, Alfredo ; Fraval, Kevin ; Furman, Valter ; Gómez Hornillos, María Belén ; Ganesan, Srinivasan ; García Ríos, Aczel Regino ; Giubrone, Giuseppe ; Gonçalves, Isabel Maria Ferro ; González Romero, Enrique Miguel ; Goverdovski, Andrey ; Gramegna, F. ; Griesmayer, Erich ; Guerrero Sánchez, Carlos ; Gunsing, Frank ; Gurusamy, Perumal ; Heftrich, Tanja ; Heinitz, Stephan ; Hernández Prieto, Álvaro ; Heyse, Jan ; Jenkins, David ; Jericha, Erwin ; Käppeler, Franz ; Kadi, Yacine ; Karadimos, Dimitri ; Katabuchi, Tatsuya ; Ketlerov, Vladimir ; Khryachkov, Vitaly ; Koehler, Paul ; Kokkoris, Michael ; Kroll, Jiří ; Krtička, Milan ; Lampoudis, Christos ; Langer, Christoph ; Leal Cidoncha, Esther ; Lederer, Claudia ; Leeb, Helmut ; Leong, Lou Sai ; Lerendegui-Marco, Jorge ; Licata, Mauro ; Losito, Roberto ; Manousos, Athanasios ; Marganiec, Justyna ; Martı́nez, Trinitario ; Massimi, Cristian ; Mastinu, Pierfrancesco ; Mastromarco, Mario ; Mengoni, Alberto ; Milazzo, Paolo Maria ; Mingrone, Federica ; Mirea, Mihail ; Mondelaers, Willy ; Paradela Dobarro, Carlos ; Pavlik, Andreas ; Perkowski, Jarosław ; Plompen, Arjan J. M. ; Praena, Javier ; Quesada Molina, José Manuel ; Rauscher, Thomas ; Reifarth, René ; Riego Pérez, Albert ; Robles Manzano, Maria Soledad ; Roman, Faustin Laurenţiu ; Rubbia, Carlo ; Ryan, James A. ; Sabaté-Gilarte, Marta ; Sarmento, Raul ; Saxena, Alok ; Schillebeeckx, Peter ; Schmidt, Stefan ; Schumann, Dorothea ; Sedyshev, Pavel V. ; Tagliente, Giuseppe ; Taı́n Enríquez, José Luis ; Tarifeño-Saldivia, Ariel ; Tarrío Vilas, Diego ; Tassan-Got, Laurent ; Tsinganis, Andrea ; Valenta, Stanislav ; Vannini, Gianni ; Variale, Vincenzo ; Vaz, Pedro ; Ventura, Alberto ; Vermeulen, Mark J. ; Versaci, Roberto ; Vlachoudis, Vasilis ; Vlastou, Rosa ; Wallner, Anton ; Ware, Timothy ; Weigand, Mario ; Weiss, Christian ; Wright, Tobias ; Žugec, Petar
New neutron cross section measurements of minor actinides have been performed recently in order to reduce the uncertainties in the evaluated data, which is important for the design of advanced nuclear reactors and, in particular, for determining their performance in the transmutation of nuclear waste. We have measured the 241Am(n,γ) cross section at the n_TOF facility between 0.2 eV and 10 keV with a BaF2 Total Absorption Calorimeter, and the analysis of the measurement has been recently concluded. Our results are in reasonable agreement below 20 eV with the ones published by C. Lampoudis et al. in 2013, who reported a 22% larger capture cross section up to 110 eV compared to experimental and evaluated data published before. Our results also indicate that the 241Am(n,γ) cross section is underestimated in the present evaluated libraries between 20 eV and 2 keV by 25%, on average, and up to 35% for certain evaluations and energy ranges.
Bhatt, Jayesh M. ; Bush, Andrew ; Gerven, Marjo van ; Nissenkorn, Andreea ; Renke, Michael ; Yarlett, Lian ; Taylor, Malcolm ; Tonia, Thomy ; Warris, Adilia ; Zielen, Stefan ; Zinna, Shairbanu ; Merkus, Peter J. F. M.
Ataxia telangiectasia (A-T) is a rare, progressive, multisystem disease that has a large number of complex and diverse manifestations which vary with age. Patients with A-T die prematurely with the leading causes of death being respiratory diseases and cancer. Respiratory manifestations include immune dysfunction leading to recurrent upper and lower respiratory infections; aspiration resulting from dysfunctional swallowing due to neurodegenerative deficits; inefficient cough; and interstitial lung disease/pulmonary fibrosis. Malnutrition is a significant comorbidity. The increased radiosensitivity and increased risk of cancer should be borne in mind when requesting radiological investigations. Aggressive proactive monitoring and treatment of these various aspects of lung disease under multidisciplinary expertise in the experience of national multidisciplinary clinics internationally forms the basis of this statement on the management of lung disease in A-T. Neurological management is outwith the scope of this document.
Kumpf, Oliver ; Giamarellos-Bourboulis, Evangelos ; Koch, Alexander ; Hamann, Lutz ; Mouktaroudi, Maria ; Oh, Djin-Ye ; Latz, Eicke ; Lorenz, Eva ; Schwartz, David A. ; Ferwerda, Bart ; Routsi, Christina ; Skalioti, Chryssanthi ; Kullberg, Bart-Jan ; Meer, J.W.M. van der ; Schlag, Peter M. ; Netea, Mihai G. ; Zacharowski, Kai ; Schumann, Ralf R.
Introduction: It has been proposed that individual genetic variation contributes to the course of severe infections and sepsis. Recent studies of single nucleotide polymorphisms (SNPs) within the endotoxin receptor and its signaling system showed an association with the risk of disease development. This study aims to examine the response associated with genetic variations of TLR4, the receptor for bacterial LPS, and a central intracellular signal transducer (TIRAP/Mal) on cytokine release and for susceptibility and course of severe hospital acquired infections in distinct patient populations. Methods: Three intensive care units in tertiary care university hospitals in Greece and Germany participated. 375 and 415 postoperative patients and 159 patients with ventilator associated pneumonia (VAP) were included. TLR4 and TIRAP/Mal polymorphisms in 375 general surgical patients were associated with risk of infection, clinical course and outcome. In two prospective studies, 415 patients following cardiac surgery and 159 patients with newly diagnosed VAP predominantly caused by Gram-negative bacteria were studied for cytokine levels in-vivo and after ex-vivo monocyte stimulation and clinical course. Results: Patients simultaneously carrying polymorphisms in TIRAP/Mal and TLR4 and patients homozygous for the TIRAP/Mal SNP had a significantly higher risk of severe infections after surgery (odds ratio (OR) 5.5; confidence interval (CI): 1.34 - 22.64; P = 0.02 and OR: 7.3; CI: 1.89 - 28.50; P < 0.01 respectively). Additionally we found significantly lower circulating cytokine levels in double-mutant individuals with ventilator associated pneumonia and reduced cytokine production in an ex-vivo monocyte stimulation assay, but this difference was not apparent in TIRAP/Mal-homozygous patients. In cardiac surgery patients without infection, the cytokine release profiles were not changed when comparing different genotypes. Conclusions: Carriers of mutations in sequential components of the TLR signaling system may have an increased risk for severe infections. Patients with this genotype showed a decrease in cytokine release when infected which was not apparent in patients with sterile inflammation following cardiac surgery.
CRISPR/Cas9-mediated knockout of p22phox leads to loss of Nox1 and Nox4, but not Nox5 activity
(2016)
Prior, Kim-Kristin ; Leisegang, Matthias ; Josipovic, Ivana ; Löwe, Oliver ; Shah, Ajay M. ; Weißmann, Norbert ; Schröder, Katrin ; Brandes, Ralf Peter Louis
The NADPH oxidases are important transmembrane proteins producing reactive oxygen species (ROS). Within the Nox family, different modes of activation can be discriminated. Nox1-3 are dependent on different cytosolic subunits, Nox4 seems to be constitutively active and Nox5 is directly activated by calcium. With the exception of Nox5, all Nox family members are thought to depend on the small transmembrane protein p22phox. With the discovery of the CRISPR/Cas9-system, a tool to alter genomic DNA sequences has become available. So far, this method has not been widely used in the redox community. On such basis, we decided to study the requirement of p22phox in the Nox complex using CRISPR/Cas9-mediated knockout. Knockout of the gene of p22phox, CYBA, led to an ablation of activity of Nox4 and Nox1 but not of Nox5. Production of hydrogen peroxide or superoxide after knockout could be rescued with either human or rat p22phox, but not with the DUOX-maturation factors DUOXA1/A2. Furthermore, different mutations of p22phox were studied regarding the influence on Nox4-dependent H2O2 production. P22phox Q130* and Y121H affected maturation and activity of Nox4. Hence, Nox5-dependent O2•- production is independent of p22phox, but native p22phox is needed for maturation of Nox4 and production of H2O2.
Stevenson, Brian ; Choy, Henry A. ; Pinne, Marija ; Rotondi, Matthew L. ; Miller, M. Clarke ; DeMoll, Edward ; Kraiczy, Peter ; Cooley, Anne E. ; Creamer, Trevor P. ; Suchard, Marc A. ; Brissette, Catherine A. ; Verma, Ashutosh ; Haake, David A.
The pathogenic spirochete Leptospira interrogans disseminates throughout its hosts via the bloodstream, then invades and colonizes a variety of host tissues. Infectious leptospires are resistant to killing by their hosts' alternative pathway of complement-mediated killing, and interact with various host extracellular matrix (ECM) components. The LenA outer surface protein (formerly called LfhA and Lsa24) was previously shown to bind the host ECM component laminin and the complement regulators factor H and factor H-related protein-1. We now demonstrate that infectious L. interrogans contain five additional paralogs of lenA, which we designated lenB, lenC, lenD, lenE and lenF. All six genes encode domains predicted to bear structural and functional similarities with mammalian endostatins. Sequence analyses of genes from seven infectious L. interrogans serovars indicated development of sequence diversity through recombination and intragenic duplication. LenB was found to bind human factor H, and all of the newly-described Len proteins bound laminin. In addition, LenB, LenC, LenD, LenE and LenF all exhibited affinities for fibronectin, a distinct host extracellular matrix protein. These characteristics suggest that Len proteins together facilitate invasion and colonization of host tissues, and protect against host immune responses during mammalian infection.
New conditions of solvability based on a general theorem on the calculation of the index at infinity for vector fields that have degenerate principal linear part as well as degenerate ... next order ... terms are obtained for the 2 Pi-periodic problem for the scalar equation x'' +n2x=g(|x|)+f(t,x)+b(t) with bounded g(u) and f(t,x) -> 0 as |x| -> 0. The result is also applied to the solvability of a two-point boundary value problem and to resonant problems for equations arising in control theory.
AMS subject classifications: 47Hll, 47H30.
Rainger, Joe ; Beusekom, Ellen van ; Ramsay, Jacqueline K. ; McKie, Lisa ; Al-Gazali, Lihadh ; Pallotta, Rosanna ; Saponari, Anita ; Branney, Peter ; Fisher, Malcolm ; Morrison, Harris ; Bicknell, Louise ; Gautier, Philippe ; Perry, Paul ; Sokhi, Kishan ; Sexton, David ; Bardakjian, Tanya M. ; Schneider, Adele S. ; Elcioglu, Nursel ; Ozkinay, Ferda ; Koenig, Rainer ; Mégarbané, Andre ; Semerci, C. Nur ; Khan, Ayesha ; Zafar, Saemah ; Hennekam, Raoul C. ; Sousa, Sérgio B. ; Ramos, Lina ; Garavelli, Livia ; Furga, Andrea Superti ; Wischmeijer, Anita ; Jackson, Ian J. ; Gillessen-Kaesbach, Gabriele Gertrud ; Brunner, Han G. ; Wieczorek, Dagmar ; Bokhoven, Hans van ; FitzPatrick, David R.
Ophthalmo-acromelic syndrome (OAS), also known as Waardenburg Anophthalmia syndrome, is defined by the combination of eye malformations, most commonly bilateral anophthalmia, with post-axial oligosyndactyly. Homozygosity mapping and subsequent targeted mutation analysis of a locus on 14q24.2 identified homozygous mutations in SMOC1 (SPARC-related modular calcium binding 1) in eight unrelated families. Four of these mutations are nonsense, two frame-shift, and two missense. The missense mutations are both in the second Thyroglobulin Type-1 (Tg1) domain of the protein. The orthologous gene in the mouse, Smoc1, shows site- and stage-specific expression during eye, limb, craniofacial, and somite development. We also report a targeted pre-conditional gene-trap mutation of Smoc1 (Smoc1tm1a) that reduces mRNA to ~10% of wild-type levels. This gene-trap results in highly penetrant hindlimb post-axial oligosyndactyly in homozygous mutant animals (Smoc1tm1a/tm1a). Eye malformations, most commonly coloboma, and cleft palate occur in a significant proportion of Smoc1tm1a/tm1a embryos and pups. Thus partial loss of Smoc-1 results in a convincing phenocopy of the human disease. SMOC-1 is one of the two mammalian paralogs of Drosophila Pentagone, an inhibitor of decapentaplegic. The orthologous gene in Xenopus laevis, Smoc-1, also functions as a Bone Morphogenic Protein (BMP) antagonist in early embryogenesis. Loss of BMP antagonism during mammalian development provides a plausible explanation for both the limb and eye phenotype in humans and mice.
Trobridge, Grant D. ; Wu, Robert A. ; Beard, Brian C. ; Chiu, Sum Ying ; Muñoz, Nina M. ; Laer, Dorothee von ; Rossi, John J. ; Kiem, Hans-Peter
Background: There is currently no effective AIDS vaccine, emphasizing the importance of developing alternative therapies. Recently, a patient was successfully transplanted with allogeneic, naturally resistant CCR5-negative (CCR5 delta 32) cells, setting the stage for transplantation of naturally resistant, or genetically modified stem cells as a viable therapy for AIDS. Hematopoietic stem cell (HSC) gene therapy using vectors that express various anti-HIV transgenes has also been attempted in clinical trials, but inefficient gene transfer in these studies has severely limited the potential of this approach. Here we evaluated HSC gene transfer of an anti-HIV vector in the pigtailed macaque (Macaca nemestrina) model, which closely models human transplantation. Methods and Findings: We used lentiviral vectors that inhibited both HIV-1 and simian immunodeficiency virus (SIV)/HIV-1 (SHIV) chimera virus infection, and also expressed a P140K mutant methylguanine methyltransferase (MGMT) transgene to select gene-modified cells by adding chemotherapy drugs. Following transplantation and MGMT-mediated selection we demonstrated transgene expression in over 7% of stem-cell derived lymphocytes. The high marking levels allowed us to demonstrate protection from SHIV in lymphocytes derived from gene-modified macaque long-term repopulating cells that expressed an HIV-1 fusion inhibitor. We observed a statistically significant 4-fold increase of gene-modified cells after challenge of lymphocytes from one macaque that received stem cells transduced with an anti-HIV vector (p<0.02, Student's t-test), but not in lymphocytes from a macaque that received a control vector. We also established a competitive repopulation assay in a second macaque for preclinical testing of promising anti-HIV vectors. The vectors we used were HIV-based and thus efficiently transduce human cells, and the transgenes we used target HIV-1 genes that are also in SHIV, so our findings can be rapidly translated to the clinic. Conclusions: Here we demonstrate the ability to select protected HSC-derived lymphocytes in vivo in a clinically relevant nonhuman primate model of HIV/SHIV infection. This approach can now be evaluated in human clinical trials in AIDS lymphoma patients. In this patient setting, chemotherapy would not only kill malignant cells, but would also increase the number of MGMTP140K-expressing HIV-resistant cells. This approach should allow for high levels of HIV-protected cells in AIDS patients to evaluate AIDS gene therapy.
Coster, Matthijs J. ; Joux, Antoine ; LaMacchia, Brian A. ; Odlyzko, Andrew M. ; Schnorr, Claus Peter ; Stern, Jacques
The general subset sum problem is NP-complete. However, there are two algorithms, one due to Brickell and the other to Lagarias and Odlyzko, which in polynomial time solve almost all subset sum problems of sufficiently low density. Both methods rely on basis reduction algorithms to find short nonzero vectors in special lattices. The Lagarias-Odlyzko algorithm would solve almost all subset sum problems of density < 0.6463 . . . in polynomial time if it could invoke a polynomial-time algorithm for finding the shortest non-zero vector in a lattice. This paper presents two modifications of that algorithm, either one of which would solve almost all problems of density < 0.9408 . . . if it could find shortest non-zero vectors in lattices. These modifications also yield dramatic improvements in practice when they are combined with known lattice basis reduction algorithms.
Colonies of up to 30 cats, Felis catus, which were partially dependent upon man for direct provisioning with food, were recorded on 82% of 775 English farms. They lived at a mean density of 6.3 per km2. Members of one such colony were observed intermittently from 1978-81. These cats' ranging, foraging and scent marking behaviours are described briefly as a background to observations of their social interactions. The adult male's home range was 83 ha, whereas those of three adult females averaged 13.1 (SD 7.2) ha. The cats visited the observation barn independently of each other. When in the barn each cat differed in how it positioned itself with respect to the others. Furthermore, the cats' social relationships were structured by differences in the numbers, rates and types of interactions with one another. Some individuals were classed as net initiators of interactions, whereas others were net recipients. The tendency to rub the perioral and cheek regions of the face on another cat was the clearest single indicator of initiator status. Kittens were initiators to adults, females to the adult male, and some adult females were initiators to others. On average, each adult female in the colony rubbed on another once every 25.3 h. Behaviour within the colony was generally amicable, whereas towards outsiders it was aggressive. All adult females in the colony gave birth to kittens each year, and used communal nests. Females tended, groomed and nursed kittens other than their own, and cooperated with each other during parturition. Although a female might nurse certain kittens preferentially, these preferences were not necessarily for her own kitten. The frequency with which a female nursed a kitten and the frequency with which it rubbed on her were positively correlated. A case of infanticide, when an unrelated adult male killed kittens, is described, together with circumstantial reports indicating that this incident was not unique. Farm cat society appears to be structured centripetally, with interactions flowing predominantly from socially (and, sometimes, spatially) peripheral individuals to socially central ones.
The impact of naval sonar on beaked whales is of increasing concern. In recent years the presence of gas and fat embolism consistent with decompression sickness (DCS) has been reported through postmortem analyses on beaked whales that stranded in connection with naval sonar exercises. In the present study, we use basic principles of diving physiology to model nitrogen tension and bubble growth in several tissue compartments during normal div ng behavior and for several hypothetical dive profiles to assess the risk of DCS. Assuming that normal diving does not cause nitrogen tensions in excess of those shown to be safe for odontocetes, the modeling indicates that repetitive shallow dives, perhaps as a consequence of an extended avoidance reaction to sonar sound, can indeed pose a risk for DCS and that this risk should increase with the duration of the response. If the model is correct, then limiting the duration of sonar exposure to minimize the duration of any avoidance reaction therefore has the potential to reduce the risk of DCS.
Bowen, Tom ; Cicardi, Marco ; Farkas, Henriette ; Bork, Konrad ; Longhurst, Hilary ; Zuraw, Bruce ; Aygören-Pürsün, Emel ; Craig, Timothy ; Binkley, Karen ; Hebert, Jacques ; Ritchie, Bruce ; Bouillet, Laurence ; Betschel, Stephen ; Cogar, Della ; Dean, John ; Devaraj, Ramachand ; Hamed, Azza ; Kamra, Palinder ; Keith, Paul K. ; Lacuesta, Gina ; Leith, Eric ; Lyons, Harriet ; Mace, Sean ; Mako, Barbara ; Neurath, Doris ; Poon, Man-Chiu ; Rivard, Georges-Etienne ; Schellenberg, Robert ; Rowan, Dereth ; Rowe, Anne ; Stark, Donald ; Sur, Smeeksha ; Tsai, Ellie ; Warrington, Richard ; Waserman, Susan ; Ameratunga, Rohan ; Bernstein, Jonathan A. ; Björkander, Janne ; Brosz, Kristylea ; Brosz, John ; Bygum, Anette ; Caballero, Teresa ; Frank, Mike ; Fust, George ; Harmat, George ; Kanani, Amin ; Kreuz, Wolfhart ; Levi, Marcel M. ; Li, Henry ; Martinez Saguer, Inmaculada ; Moldovan, Dumitru ; Nagy, Istvan ; Nielsen, Erik W. ; Nordenfelt, Patrik ; Reshef, Avner ; Rusicke, Eva ; Smith-Foltz, Sarah ; Späth, Peter ; Varga, Lilian ; Xiang, Zhi Yu
Background We published the Canadian 2003 International Consensus Algorithm for the Diagnosis, Therapy, and Management of Hereditary Angioedema (HAE; C1 inhibitor [C1-INH] deficiency) and updated this as Hereditary angioedema: a current state-of-the-art review: Canadian Hungarian 2007 International Consensus Algorithm for the Diagnosis, Therapy, and Management of Hereditary Angioedema. Objective To update the International Consensus Algorithm for the Diagnosis, Therapy and Management of Hereditary Angioedema (circa 2010). Methods The Canadian Hereditary Angioedema Network (CHAEN)/Reseau Canadien d'angioedeme hereditaire (RCAH) (www.haecanada.com) and cosponsors University of Calgary and the Canadian Society of Allergy and Clinical Immunology (with an unrestricted educational grant from CSL Behring) held our third Conference May 15th to 16th, 2010 in Toronto Canada to update our consensus approach. The Consensus document was reviewed at the meeting and then circulated for review. Results This manuscript is the 2010 International Consensus Algorithm for the Diagnosis, Therapy and Management of Hereditary Angioedema that resulted from that conference. Conclusions Consensus approach is only an interim guide to a complex disorder such as HAE and should be replaced as soon as possible with large phase III and IV clinical trials, meta analyses, and using data base registry validation of approaches including quality of life and cost benefit analyses, followed by large head-to-head clinical trials and then evidence-based guidelines and standards for HAE disease management.
The resprouting response of plant species to fire is a key life history trait that has profound effects on post-fire population dynamics and community composition. This study documents the post-fire response (resprouting and maturation times) of woody species in six contrasting formations in the New England Tableland Bioregion of eastern Australia. Rainforest had the highest proportion of resprouting woody taxa and rocky outcrops had the lowest. Surprisingly, no significant difference in the median maturation length was found among habitats, but the communities varied in the range of maturation times. Within these communities, seedlings of species killed by fire, mature faster than seedlings of species that resprout. The slowest maturing species were those that have canopy held seed banks and were killed by fire, and these were used as indicator species to examine fire immaturity risk. Finally, we examine whether current fire management immaturity thresholds appear to be appropriate for these communities and find they need to be amended.
Schrade, Katharina ; Tröger, Jessica ; Eldahshan, Adeeb ; Zühlke, Kerstin ; Abdul Azeez, Kamal R. ; Elkins, Jonathan M. ; Neuenschwander, Martin ; Oder, Andreas ; Elkewedi, Mohamed ; Jaksch, Sarah ; Andrae, Karsten ; Li, Jinliang ; Fernandes, Joao ; Müller, Paul Markus ; Grunwald, Stephan ; Marino, Stephen A. ; Vukićević, Tanja ; Eichhorst, Jenny ; Wiesner, Burkhard ; Weber, Marcus ; Kapiloff, Michael ; Rocks, Oliver ; Daumke, Oliver ; Wieland, Thomas ; Knapp, Stefan ; Kries, Jens Peter von ; Klussmann, Enno
Stimulation of renal collecting duct principal cells with antidiuretic hormone (arginine-vasopressin, AVP) results in inhibition of the small GTPase RhoA and the enrichment of the water channel aquaporin-2 (AQP2) in the plasma membrane. The membrane insertion facilitates water reabsorption from primary urine and fine-tuning of body water homeostasis. Rho guanine nucleotide exchange factors (GEFs) interact with RhoA, catalyze the exchange of GDP for GTP and thereby activate the GTPase. However, GEFs involved in the control of AQP2 in renal principal cells are unknown. The A-kinase anchoring protein, AKAP-Lbc, possesses GEF activity, specifically activates RhoA, and is expressed in primary renal inner medullary collecting duct principal (IMCD) cells. Through screening of 18,431 small molecules and synthesis of a focused library around one of the hits, we identified an inhibitor of the interaction of AKAP-Lbc and RhoA. This molecule, Scaff10-8, bound to RhoA, inhibited the AKAP-Lbc-mediated RhoA activation but did not interfere with RhoA activation through other GEFs or activities of other members of the Rho family of small GTPases, Rac1 and Cdc42. Scaff10-8 promoted the redistribution of AQP2 from intracellular vesicles to the periphery of IMCD cells. Thus, our data demonstrate an involvement of AKAP-Lbc-mediated RhoA activation in the control of AQP2 trafficking.
Montenegro, Raquel Carvalho ; Clark, Peter G. K. ; Howarth, Alison ; Wan, Xiao ; Ceroni, Alessandro ; Siejka, Paulina ; Nunez-Alonso, Graciela A. ; Monteiro, Octovia ; Rogers, Catherine ; Gamble, Vicki ; Burbano, Rommel ; Brennan, Paul E. ; Tallant, Cynthia ; Ebner, Daniel ; Fedorov, Oleg ; O’Neill, Eric M. ; Knapp, Stefan ; Dixon, Darren ; Müller, Susanne
Gastric cancer is one of the most common malignancies and a leading cause of cancer death worldwide. The prognosis of stomach cancer is generally poor as this cancer is not very sensitive to commonly used chemotherapies. Epigenetic modifications play a key role in gastric cancer and contribute to the development and progression of this malignancy. In order to explore new treatment options in this target area we have screened a library of epigenetic inhibitors against gastric cancer cell lines and identified inhibitors for the BET family of bromodomains as potent inhibitors of gastric cancer cell proliferations. Here we show that both the pan-BET inhibitor (+)-JQ1 as well as a newly developed specific isoxazole inhibitor, PNZ5, showed potent inhibition of gastric cancer cell growth. Intriguingly, we found differences in the antiproliferative response between gastric cancer cells tested derived from Brazilian patients as compared to those from Asian patients, the latter being largely resistant to BET inhibition. As BET inhibitors are entering clinical trials these findings provide the first starting point for future therapies targeting gastric cancer.
Hedskog, Charlotte ; Parhy, Bandita ; Chang, Silvia ; Zeuzem, Stefan ; Moreno, Christophe ; Shafran, Stephen D. ; Borgia, Sergio M. ; Asselah, Tarik ; Alric, Laurent ; Abergel, Armand ; Chen, Jyh-Jou ; Collier, Jane ; Kapoor, Dharmesh ; Hyland, Robert ; Simmonds, Peter ; Mo, Hongmei ; Svarovskaia, Evguenia S.
Background: Hepatitis C virus (HCV) is currently classified into 8 genotypes and 86 subtypes. The objective of this study was to characterize novel HCV subtypes and to investigate the impact of subtypes on treatment outcome.
Methods: Full-genome sequencing was performed on HCV plasma samples with <85% sequence homology of NS3, NS5A, and/or NS5B to HCV genotype (GT) 1–8 reference strains.
Results: A total of 14 653 patients with GT1–6 HCV infection were enrolled in clinical studies of sofosbuvir-based regimens. For the majority of the patients, a specific subtype could be assigned based on a close genetic relationship to previously described subtypes. However, for 19 patients, novel subtypes were identified with <85% homology compared with previously described subtypes. These novel subtypes had the following genotypes: 9 in GT2, 5 in GT4, 2 in GT6, and 1 each in GT1, GT3, and GT5. Despite the presence of polymorphisms at resistance-associated substitution positions, 18 of the 19 patients treated with sofosbuvir-containing therapy achieved SVR12.
Conclusions: Nineteen novel HCV subtypes were identified, suggesting an even greater genetic diversity of HCV subtypes than previously recognized.
The population diversity of Doranthes excelsa Corrêa (Doryanthaceae) was measured from nine distinct geographic populations across eastern Australia, using random amplified polymorphic DNA (RAPD) markers. An UPGMA dendrogram of individuals was derived from squared Euclidian distances based on the Dice (1945) algorithm. Three clusters corresponding to populations at Somersby, Newfoundland and Kremnos Creek populations were found to be distinct from the remainder of the sampled individuals. A ΦST value of 0.443 indicated that a significant diversity between geographic populations existed; this appeared to be a product of geographical distance and isolation between some of the populations. (PCR = Polymerase Chain Reaction; RAPD = Random Amplified Polymorphic DNA) The results suggest that there is lesser gene flow between the‘northern’ populations (Kremnos Creek and Newfoundland) when compared to the ‘southern’ populations and that they have a significant level of genetic isolation. The two ‘northern’ populations should therefore be regarded as being of considerable value for conservation authorities and the commercial breeding sector and should be given priority for conservation. The plants there appear to exhibit a smaller phenotype but confirming this requires further quantification.
Lyme disease (LD), which is caused by genospecies of the Borrelia burgdorferi sensu lato complex, is the most common vector-borne disease in the Northern hemisphere. Spirochetes are transmitted by Ixodes ticks and maintained in diverse vertebrate animal hosts. Following tick bite, spirochetes initially establish a localized infection in the skin. However, they may also disseminate hematogenously to several distal sites, including heart, joints, or the CNS. Because they need to survive in diverse microenvironments, from tick vector to mammalian hosts, spirochetes have developed multiple strategies to combat the numerous host defense mechanisms. One of these strategies includes the production of a number of complement-regulator acquiring surface proteins (CRASPs) which encompass CspA, CspZ, and OspE paralogs to blunt the complement pathway. These proteins are capable of preventing complement activation on the spirochete surface by binding to complement regulator Factor H. The genes encoding these CRASPs differ in their expression patterns during the tick-to-host infection cycle, implying that these proteins may exhibit different functions during infection. This review summarizes the recent published reports which investigated the roles that each of these molecules plays in conferring tick-borne transmission and dissemination in vertebrate hosts. These findings offer novel mechanistic insights into LD pathobiology and may facilitate the identification of new targets for preventive strategies against Lyme borreliosis.
Pacull, Emelyne M. ; Sendker, Franziska ; Bernhard, Frank ; Scheidt, Holger A. ; Schmidt, Peter ; Huster, Daniel ; Krug, Ulrike
Cell-free expression represents an attractive method to produce large quantities of selectively labeled protein for NMR applications. Here, cell-free expression was used to label specific regions of the growth hormone secretagogue receptor (GHSR) with NMR-active isotopes. The GHSR is a member of the class A family of G protein-coupled receptors. A cell-free expression system was established to produce the GHSR in the precipitated form. The solubilized receptor was refolded in vitro and reconstituted into DMPC lipid membranes. Methionines, arginines, and histidines were chosen for 13C-labeling as they are representative for the transmembrane domains, the loops and flanking regions of the transmembrane α-helices, and the C-terminus of the receptor, respectively. The dynamics of the isotopically labeled residues was characterized by solid-state NMR measuring motionally averaged 1H-13C dipolar couplings, which were converted into molecular order parameters. Separated local field DIPSHIFT experiments under magic-angle spinning conditions using either varying cross polarization contact times or direct excitation provided order parameters for these residues showing that the C-terminus was the segment with the highest motional amplitude. The loop regions and helix ends as well as the transmembrane regions of the GHSR represent relatively rigid segments in the overall very flexible receptor molecule. Although no site resolution could be achieved in the experiments, the previously reported highly dynamic character of the receptor concluded from uniformly 13C labeled receptor samples could be further specified by this segmental labeling approach, leading to a more diversified understanding. of the receptor dynamics under equilibrium conditions
Engel, Christoph ; Rhiem, Kerstin E. M. ; Hahnen, Eric Thomas ; Loibl, Sibylle ; Weber, Karsten E. ; Seiler, Sabine ; Zachariae, Silke ; Hauke, Jan ; Wappenschmidt, Barbara ; Waha, Anke ; Blümcke, Britta ; Kiechle, Marion ; Meindl, Alfons ; Niederacher, Dieter ; Bartram, Claus R. ; Speiser, Dorothee ; Schlegelberger, Brigitte ; Arnold, Norbert ; Wieacker, Peter ; Leinert, Elena ; Gehrig, Andrea ; Briest, Susanne ; Kast, Karin ; Rieß, Olaf ; Emons, Günter ; Weber, Bernhard H. F. ; Engel, Jutta ; Schmutzler, Rita Katharina
Background: There is no international consensus up to which age women with a diagnosis of triple-negative breast cancer (TNBC) and no family history of breast or ovarian cancer should be offered genetic testing for germline BRCA1 and BRCA2 (gBRCA) mutations. Here, we explored the association of age at TNBC diagnosis with the prevalence of pathogenic gBRCA mutations in this patient group.
Methods: The study comprised 802 women (median age 40 years, range 19–76) with oestrogen receptor, progesterone receptor, and human epidermal growth factor receptor type 2 negative breast cancers, who had no relatives with breast or ovarian cancer. All women were tested for pathogenic gBRCA mutations. Logistic regression analysis was used to explore the association between age at TNBC diagnosis and the presence of a pathogenic gBRCA mutation.
Results: A total of 127 women with TNBC (15.8%) were gBRCA mutation carriers (BRCA1: n = 118, 14.7%; BRCA2: n = 9, 1.1%). The mutation prevalence was 32.9% in the age group 20–29 years compared to 6.9% in the age group 60–69 years. Logistic regression analysis revealed a significant increase of mutation frequency with decreasing age at diagnosis (odds ratio 1.87 per 10 year decrease, 95%CI 1.50–2.32, p < 0.001). gBRCA mutation risk was predicted to be > 10% for women diagnosed below approximately 50 years.
Conclusions: Based on the general understanding that a heterozygous mutation probability of 10% or greater justifies gBRCA mutation screening, women with TNBC diagnosed before the age of 50 years and no familial history of breast and ovarian cancer should be tested for gBRCA mutations. In Germany, this would concern approximately 880 women with newly diagnosed TNBC per year, of whom approximately 150 are expected to be identified as carriers of a pathogenic gBRCA mutation.