Scientific Reports Biology Table of Contents e-alert: 13 January 2015

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13 January 2015      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports               Biological Sciences               Asymmetrical disassortative pollination in a distylous primrose: the complementary roles of bumblebee nectar robbers and syrphid flies ▶     Xing-Fu Zhu, Xian-Feng Jiang, Li Li et al.     Heterostyly is a floral polymorphism characterized by reciprocal herkogamy maintained through high levels of mating between morphs, serviced by appropriate pollinators. We …             3D-Printed Microfluidic Device for the Detection of Pathogenic Bacteria Using Size-based Separation in Helical Channel with Trapezoid Cross-Section ▶     Wonjae Lee, Donghoon Kwon, Woong Choi et al.     A facile method has been developed to detect pathogenic bacteria using magnetic nanoparticle clusters (MNCs) and a 3D-printed helical microchannel. Antibody-functionalized MNCs …             The effects of disruptions in ribosomal active sites and in intersubunit contacts on ribosomal degradation in Escherichia coli ▶     Anton Paier, Margus Leppik, Aksel Soosaar et al.     Although ribosomes are very stable under most conditions, ribosomal degradation does occur in diverse groups of organisms in response to specific stresses or environmental …             Method for quantitative analysis of nonsense-mediated mRNA decay at the single cell level ▶     Anton P. Pereverzev, Nadya G. Gurskaya, Galina V. Ermakova et al.     Nonsense-mediated mRNA decay (NMD) is a ubiquitous mechanism of degradation of transcripts with a premature termination codon. NMD eliminates aberrant mRNA species derived from …             Water balance altered in cucumber plants infected with Fusarium oxysporum f. sp. cucumerinum ▶     Min Wang, Yuming Sun, Guomei Sun et al.     Fusarium wilt is caused by the infection and growth of the fungus Fusarium oxysporum in the xylem of host plants. The physiological responses of cucumbers that are infected with …             Multiplex Imaging and Cellular Target Identification of Kinase Inhibitors via an Affinity-Based Proteome Profiling Approach ▶     Ying Su, Sijun Pan, Zhengqiu Li et al.     MLN8237 is a highly potent and presumably selective inhibitor of Aurora kinase A (AKA) and has shown promising antitumor activities. Like other kinase inhibitors which target the …             Recombination is a key driver of genomic and phenotypic diversity in a Pseudomonas aeruginosa population during cystic fibrosis infection ▶     Sophie E. Darch, Alan McNally, Freya Harrison et al.     The Cystic Fibrosis (CF) lung harbors a complex, polymicrobial ecosystem, in which Pseudomonas aeruginosa is capable of sustaining chronic infections, which are highly resistant …             Dendritic spine dynamics leading to spine elimination after repeated inductions of LTD ▶     Sho Hasegawa, Shigeo Sakuragi, Keiko Tominaga-Yoshino et al.     Memory is fixed solidly by repetition. However, the cellular mechanism underlying this repetition-dependent memory consolidation/reconsolidation remains unclear. In our previous …             The effects of phytochrome-mediated light signals on the developmental acquisition of photoperiod sensitivity in rice ▶     Yoshihiro Yoshitake, Takayuki Yokoo, Hiroki Saito et al.     Plants commonly rely on photoperiodism to control flowering time. Rice development before floral initiation is divided into two successive phases: the basic vegetative growth …             Palladin is Upregulated in Kidney Disease and Contributes to Epithelial Cell Migration After Injury ▶     Emily H. Chang, Adil H. Gasim, Michael L. Kerber et al.     Recovery from acute kidney injury involving tubular epithelial cells requires proliferation and migration of healthy cells to the area of injury. In this study, we show that …             Silencing SlELP2L, a tomato Elongator complex protein 2-like gene, inhibits leaf growth, accelerates leaf, sepal senescence, and produces dark-green fruit ▶     Mingku Zhu, Yali Li, Guoping Chen et al.     The multi-subunit complex Elongator interacts with elongating RNA polymerase II (RNAPII) and is thought to facilitate transcription through histone acetylation. Elongator is …             Distinct p21 requirements for regulating normal and self-reactive T cells through IFN-γ production ▶     Lidia Daszkiewicz, Cristina Vázquez-Mateo, Gorjana Rackov et al.     Self/non-self discrimination characterizes immunity and allows responses against pathogens but not self-antigens. Understanding the principles that govern this process is …             Epigenetic Heterogeneity in HIV-1 Latency Establishment ▶     Yuka Matsuda, Mie Kobayashi-Ishihara, Dai Fujikawa et al.     Despite prolonged antiretroviral therapy, HIV-1 persists as transcriptionally inactive proviruses. The HIV-1 latency remains a principal obstacle in curing AIDS. It is important …             Plasma-activated medium suppresses choroidal neovascularization in mice: a new therapeutic concept for age-related macular degeneration ▶     Fuxiang Ye, Hiroki Kaneko, Yosuke Nagasaka et al.     Choroidal neovascularization (CNV) is the main pathogenesis of age-related macular degeneration (AMD), which leads to severe vision loss in many aged patients in most advanced …             Isogambogenic acid induces apoptosis-independent autophagic cell death in human non-small-cell lung carcinoma cells ▶     Jianhong Yang, Yongzhao Zhou, Xia Cheng et al.     To overcome drug resistance caused by apoptosis deficiency in patients with non-small cell lung carcinoma (NSCLC), there is a need to identify other means of triggering …             A Highly Efficient Approach to Protein Interactome Mapping Based on Collaborative Filtering Framework ▶     Xin Luo, Zhuhong You, Mengchu Zhou et al.     The comprehensive mapping of protein-protein interactions (PPIs) is highly desired for one to gain deep insights into both fundamental cell biology processes and the pathology of …             A unique mechanism of successful fertilization in a domestic bird ▶     Tomohiro Sasanami, Shunsuke Izumi, Naoki Sakurai et al.     Fertilization is an indispensable step for formation of a zygote in sexual reproduction, leading to species survival. When mating occurs, sperm is transported to the female …             Decreased deformability of lymphocytes in chronic lymphocytic leukemia ▶     Yi Zheng, Jun Wen, John Nguyen et al.     This paper reports the first study of stiffness/deformability changes of lymphocytes in chronic lymphocytic leukemia (CLL) patients, demonstrating that at the single cell level, …             Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C ▶     Sara R. Selitsky, Jeanette Baran-Gale, Masao Honda et al.     Persistent infections with hepatitis B virus (HBV) or hepatitis C virus (HCV) account for the majority of cases of hepatic cirrhosis and hepatocellular carcinoma (HCC) worldwide. …             Consumption of Bt rice pollen containing Cry1C or Cry2A does not pose a risk to Propylea japonica (Thunberg) (Coleoptera: Coccinellidae) ▶     Yunhe Li, Xiaojie Zhang, Xiuping Chen et al.     As a pollen feeder, Propylea japonica would be directly exposed to Cry proteins in Bacillus thuringiensis (Bt)-transgenic rice fields. The effect of Cry1C- or Cry2A-containing …             Characterization and immunological activity of different forms of recombinant secreted Hc of botulinum neurotoxin serotype B products expressed in yeast ▶     Bo Liu, DanYang Shi, ShaoHong Chang et al.     The recombinant Hc proteins of botulinum neurotoxins and tetanus toxin are exclusively produced by intracellular heterologous expression in Pichia pastoris for use in subunit …             Differential profiles of direct and indirect modification of vector feeding behaviour by a plant virus ▶     Wen-Bo He, Jie Li, Shu-Sheng Liu     Plant viruses interact with their insect vectors directly and indirectly via host plants, and this tripartite interaction may produce fitness benefits to both the vectors and the …             Control of microtubule trajectory within an electric field by altering surface charge density ▶     Naoto Isozaki, Suguru Ando, Tasuku Nakahara et al.     One of challenges for using microtubules (MTs) driven by kinesin motors in microfluidic environments is to control their direction of movement. Although applying physical biases …             β2 adrenergic receptor activation governs cardiac repolarization and arrhythmogenesis in a guinea pig model of heart failure ▶     Yao Wang, Jiamin Yuan, Zhiyong Qian et al.     β2-AR activation increases the risk of sudden cardiac death (SCD) in heart failure (HF) patients. Non-selective β-AR blockers have greater benefits on survival than selective …             A conserved P-loop anchor limits the structural dynamics that mediate nucleotide dissociation in EF-Tu ▶     Evan Mercier, Dylan Girodat, Hans-Joachim Wieden     The phosphate-binding loop (P-loop) is a conserved sequence motif found in mononucleotide-binding proteins. Little is known about the structural dynamics of this region and its …             Meiotic interstrand DNA damage escapes paternal repair and causes chromosomal aberrations in the zygote by maternal misrepair ▶     Francesco Marchetti, Jack Bishop, John Gingerich et al.     De novo point mutations and chromosomal structural aberrations (CSA) detected in offspring of unaffected parents show a preferential paternal origin with higher risk for older …             The tyrosine kinase Itk suppresses CD8+ memory T cell development in response to bacterial infection ▶     Fei Huang, Weishan Huang, Jessica Briggs et al.     Vaccine efficacy depends on strong long-term development of immune memory and the formation of memory CD8 T cells is critical for recall responses to infection. Upon antigen …             Combining two repurposed drugs as a promising approach for Alzheimer's disease therapy ▶     Ilya Chumakov, Serguei Nabirotchkin, Nathalie Cholet et al.     Alzheimer disease (AD) represents a major medical problem where mono-therapeutic interventions demonstrated only a limited efficacy so far. We explored the possibility of …             Enhanced multiple vibrational resonances by Na+ and K+ dynamics in a neuron model ▶     Xing-Xing Wu, Chenggui Yao, Jianwei Shuai     Some neuronal receptors perceive external input in the form of hybrid periodic signals. The signal detection may be based on the mechanism of vibrational resonance, in which a …             The Effectiveness of RECIST on Survival in Patients with NSCLC Receiving Chemotherapy with or without Target Agents as First-Line Treatment ▶     Ting Zhou, Lie Zheng, Zhihuang Hu et al.     We analyzed the correlation between survival and antitumor effect evaluated by RECIST in advanced NSCLC patients with chemotherapy plus target therapy or not as first-line …             HPV16 early gene E5 specifically reduces miRNA-196a in cervical cancer cells ▶     Chanzhen Liu, Jianfei Lin, Lianqin Li et al.     High-risk human papillomavirus (HPV) type 16, which is responsible for greater than 50% of cervical cancer cases, is the most prevalent and lethal HPV type. However, the …             Deep down on a Caribbean reef: lower mesophotic depths harbor a specialized coral-endosymbiont community ▶     Pim Bongaerts, Pedro R. Frade, Kyra B. Hay et al.     The composition, ecology and environmental conditions of mesophotic coral ecosystems near the lower limits of their bathymetric distributions remain poorly understood. Here we …             Leader cells regulate collective cell migration via Rac activation in the downstream signaling of integrin β1 and PI3K ▶     Naoya Yamaguchi, Takeomi Mizutani, Kazushige Kawabata et al.     Collective cell migration plays a crucial role in several biological processes, such as embryonic development, wound healing, and cancer metastasis. Here, we focused on …             Insights into the species-specific TLR4 signaling mechanism in response to Rhodobacter sphaeroides lipid A detection ▶     Muhammad Ayaz Anwar, Suresh Panneerselvam, Masaud Shah et al.     TLR4 in complex with MD2 senses the presence of lipid A (LA) and initiates a signaling cascade that curb the infection. This complex is evolutionarily conserved and can initiate …             Three CCT domain-containing genes were identified to regulate heading date by candidate gene-based association mapping and transformation in rice ▶     Li Zhang, Qiuping Li, Haijiao Dong et al.     CCT domain-containing genes generally control flowering in plants. Currently, only six of the 41 CCT family genes have been confirmed to control flowering in rice. To efficiently …             Plectoneme tip bubbles: Coupled denaturation and writhing in supercoiled DNA ▶     Christian Matek, Thomas E. Ouldridge, Jonathan P. K. Doye et al.     We predict a novel conformational regime for DNA, where denaturation bubbles form at the tips of plectonemes, and study its properties using coarse-grained simulations. For …             PIP2-dependent coupling is prominent in Kv7.1 due to weakened interactions between S4-S5 and S6 ▶     Marina A. Kasimova, Mark A. Zaydman, Jianmin Cui et al.     Among critical aspects of voltage-gated potassium (Kv) channels' functioning is the effective communication between their two composing domains, the voltage sensor (VSD) and the …             Tet1-mediated DNA demethylation regulates neuronal cell death induced by oxidative stress ▶     Yong-Juan Xin, Bo Yuan, Bin Yu et al.     Epigenetic regulations including DNA methylation and demethylation play critical roles in neural development. However, whether DNA methylation and demethylation may play a role …             Hyaluronic acid prevents immunosuppressive drug-induced ovarian damage via up-regulating PGRMC1 expression ▶     Guangfeng Zhao, Guijun Yan, Jie Cheng et al.     Chemotherapy treatment in women can frequently cause damage to the ovaries, which may lead to primary ovarian insufficiency (POI). In this study, we assessed the preventative …             Selective and contagious prosocial resource donation in capuchin monkeys, chimpanzees and humans ▶     Nicolas Claidière, Andrew Whiten, Mary C. Mareno et al.     Prosocial acts benefitting others are widespread amongst humans. By contrast, chimpanzees have failed to demonstrate such a disposition in several studies, leading some authors …             Analysis of exosome purification methods using a model liposome system and tunable-resistive pulse sensing ▶     Rebecca E. Lane, Darren Korbie, Will Anderson et al.     Exosomes are vesicles which have garnered interest due to their diagnostic and therapeutic potential. Isolation of pure yields of exosomes from complex biological fluids whilst …             Selective blockade of the hydrolysis of the endocannabinoid 2-arachidonoylglycerol impairs learning and memory performance while producing antinociceptive activity in rodents ▶     Guy Griebel, Philippe Pichat, Sandra Beeské et al.     Monoacylglycerol lipase (MAGL) represents a primary degradation enzyme of the endogenous cannabinoid (eCB), 2-arachidonoyglycerol (2-AG). This study reports a potent covalent …             MicroRNA-574-3p, identified by microRNA library-based functional screening, modulates tamoxifen response in breast cancer ▶     T. Ujihira, K. Ikeda, T. Suzuki et al.     Most primary breast cancers express estrogen receptor α and can be treated via endocrine therapy using anti-estrogens such as tamoxifen; however, acquired endocrine resistance is …             Role of indigenous iron in improving sludge dewaterability through peroxidation ▶     Xu Zhou, Guangming Jiang, Qilin Wang et al.     Improvement of sludge dewaterability is important for reducing the total costs for the treatment and disposal of sludge in wastewater treatment plants. In this study, we …             Predicting learning plateau of working memory from whole-brain intrinsic network connectivity patterns ▶     Masahiro Yamashita, Mitsuo Kawato, Hiroshi Imamizu     Individual learning performance of cognitive function is related to functional connections within ‘task-activated’ regions where activities increase during the corresponding …             A controllable on-off strategy for the reproductive containment of fish ▶     Yunsheng Zhang, Ji Chen, Xiaojuan Cui et al.     A major impediment to the commercialization and cultivation of transgenic fish is the potential ecological risks they pose to natural environments: a problem that could be solved …             MLST-based inference of genetic diversity and population structure of clinical Klebsiella pneumoniae, China ▶     Chenyi Guo, Xianwei Yang, Yarong Wu et al.     Multilocus sequence typing was applied to a collection of 327 clinical isolates of Klebsiella pneumoniae from China, which was proven to be a good representative of the global …             Limb-bud and Heart (LBH) Functions as a Tumor Suppressor of Nasopharyngeal Carcinoma by Inducing G1/S Cell Cycle Arrest ▶     Qicai Liu, Xiaoying Guan, Jingli Lv et al.     Epstein–Barr virus-encoded latent membrane protein-1 (LMP1) plays a fundamental role in the malignant transformation of nasopharyngeal carcinoma (NPC), although the mechanism is …             Cdc48-independent proteasomal degradation coincides with a reduced need for ubiquitylation ▶     Daniela Gödderz, Christian Heinen, Francesco P. Marchese et al.     Ubiquitin fusion degradation (UFD) substrates are delivered at the proteasome by a handover mechanism involving the ubiquitin-selective chaperone Cdc48 and the ubiquitin shuttle …             Development and Validation of A 48-Target Analytical Method for High-throughput Monitoring of Genetically Modified Organisms ▶     Xiaofei Li, Yuhua Wu, Jun Li et al.     The rapid increase in the number of genetically modified (GM) varieties has led to a demand for high-throughput methods to detect genetically modified organisms (GMOs). We …             A Pliable Electroporation Patch (ep-Patch) for Efficient Delivery of Nucleic Acid Molecules into Animal Tissues with Irregular Surface Shapes ▶     Zewen Wei, Yuanyu Huang, Deyao Zhao et al.     Delivery of nucleic acids into animal tissues by electroporation is an appealing approach for various types of gene therapy, but efficiency of existing methodsis not …             Effects of weight loss via high fat vs. low fat alternate day fasting diets on free fatty acid profiles ▶     Krista A. Varady, Vi T. Dam, Monica C. Klempel et al.     Cardiovascular disease risk is associated with excess body weight and elevated plasma free fatty acid (FFA) concentrations. This study examines how an alternate-day fasting (ADF) …             Interlayer Water Regulates the Bio-nano Interface of a β-sheet Protein stacking on Graphene ▶     Wenping Lv, Guiju Xu, Hongyan Zhang et al.     Using molecular dynamics simulations, we investigated an integrated bio-nano interface consisting of a β-sheet protein stacked onto graphene. We found that the stacking assembly …             Cave spiders choose optimal environmental factors with respect to the generated entropy when laying their cocoon ▶     Eliodoro Chiavazzo, Marco Isaia, Stefano Mammola et al.     The choice of a suitable area to spiders where to lay eggs is promoted in terms of Darwinian fitness. Despite its importance, the underlying factors behind this key decision are …             Characterization of a Novel Reassortant Influenza A Virus (H2N2) from a Domestic Duck in Eastern China ▶     Mai-Juan Ma, Xiao-Xian Yang, Yan-Hua Qian et al.     While H2N2 viruses have been sporadically isolated from wild and domestic birds, H2N2 viruses have not been detected among human populations since 1968. Should H2N2 viruses adapt …             Statin-induced mevalonate pathway inhibition attenuates the growth of mesenchymal-like cancer cells that lack functional E-cadherin mediated cell cohesion ▶     Katsuhiko Warita, Tomoko Warita, Colin H. Beckwitt et al.     The cholesterol reducing drugs, statins, exhibit anti-tumor effects against cancer stem cells and various cancer cell lines, exert potent additivity or synergy with existing …             Social networks in primates: smart and tolerant species have more efficient networks ▶     Cristian Pasquaretta, Marine Levé, Nicolas Claidière et al.     Network optimality has been described in genes, proteins and human communicative networks. In the latter, optimality leads to the efficient transmission of information with a …             Insulin-producing cells from embryonic stem cells rescues hyperglycemia via intra-spleen migration ▶     Meng Ren, Changzhen Shang, Xiaomei Zhong et al.     Implantation of embryonic stem cells (ESC)-derived insulin-producing cells has been extensively investigated for treatment of diabetes in animal models. However, the in vivo …             Asymmetric parental genome engineering by Cas9 during mouse meiotic exit ▶     Toru Suzuki, Maki Asami, Anthony C. F. Perry     Mammalian genomes can be edited by injecting pronuclear embryos with Cas9 cRNA and guide RNA (gRNA) but it is unknown whether editing can also occur during the onset of embryonic …             Elucidating the role of the TRPM7 alpha-kinase: TRPM7 kinase inactivation leads to magnesium deprivation resistance phenotype in mice ▶     Lillia V. Ryazanova, Zhixian Hu, Sayuri Suzuki et al.     TRPM7 is an unusual bi-functional protein containing an ion channel covalently linked to a protein kinase domain. TRPM7 is implicated in regulating cellular and systemic …             Anti-tumor efficacy of fulvestrant in estrogen receptor positive gastric cancer ▶     Jun Ho Yi, In-Gu Do, Jiryeon Jang et al.     To investigate the prognostic role of the estrogen receptor (ER) in gastric cancer (GC) patients, tumor tissues from 932 patients with advanced GC were assessed for ER expression …             Retinal structure and function preservation by polysaccharides of wolfberry in a mouse model of retinal degeneration ▶     Ke Wang, Jia Xiao, Bo Peng et al.     Retinitis pigmentosa (RP) is a heterogeneous group of inherited disorders caused by mutations in a variety of genes that are mostly expressed by rod cells, which results in …             Comprehensive profiling analysis of actively resorbing osteoclasts identifies critical signaling pathways regulated by bone substrate ▶     P. Edward Purdue, Tania N. Crotti, Zhenxin Shen et al.     As the only cells capable of efficiently resorbing bone, osteoclasts are central mediators of both normal bone remodeling and pathologies associates with excessive bone …             Smad9 is a new type of transcriptional regulator in bone morphogenetic protein signaling ▶     S. Tsukamoto, T. Mizuta, M. Fujimoto et al.     Smad1, Smad5 and Smad9 (also known as Smad8) are activated by phosphorylation by bone morphogenetic protein (BMP)-bound type I receptor kinases. We examined the role of Smad1, …             G Protein-coupled Estrogen Receptor Protects from Atherosclerosis ▶     Matthias R. Meyer, Natalie C. Fredette, Tamara A. Howard et al.     Coronary atherosclerosis and myocardial infarction in postmenopausal women have been linked to inflammation and reduced nitric oxide (NO) formation. Natural estrogen exerts …             Cardiac endothelial cell-derived exosomes induce specific regulatory B cells ▶     Jiangping Song, Xiao Chen, Mangyuan Wang et al.     The mechanism of immune tolerance is to be further understood. The present study aims to investigate the role of the Cardiac endothelial cell (CEC)-derived exosomes in the …             The awareness, perceptions and experiences of primary open angle glaucoma patients in Lagos Nigeria ▶     Chigozie Anuli Mbadugha, Adeola Olukorede Onakoya     The awareness, perceptions and experiences of Nigerian Primary Open Angle Glaucoma (POAG) patients were assessed using a hospital based cross-sectional study design. One hundred …             A Simplified Method to Recover Urinary Vesicles for Clinical Applications, and Sample Banking ▶     Luca Musante, Dorota Tataruch, Dongfeng Gu et al.     Urinary extracellular vesicles provide a novel source for valuable biomarkers for kidney and urogenital diseases: Current isolation protocols include laborious, sequential …             Induced apoptosis in melanocytes cancer cell and oxidation in biomolecules through deuterium oxide generated from atmospheric pressure non-thermal plasma jet ▶     Naresh Kumar, Pankaj Attri, Dharmendra Kumar Yadav et al.     Recently, atmospheric-pressure non-thermal plasma-jets (APPJ) are being for the cancer treatment. 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