Scientific Reports Biology Table of Contents e-alert: 10 June 2014

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10 June 2014      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports               Biological Sciences               Swarm intelligence inspired shills and the evolution of cooperation ▶     Haibin Duan, Changhao Sun     Many hostile scenarios exist in real-life situations, where cooperation is disfavored and the collective behavior needs intervention for system efficiency improvement. Towards …             Transient α-helices in the disordered RPEL motifs of the serum response factor coactivator MKL1 ▶     Mineyuki Mizuguchi, Takahiro Fuju, Takayuki Obita et al.     The megakaryoblastic leukemia 1 (MKL1) protein functions as a transcriptional coactivator of the serum response factor. MKL1 has three RPEL motifs (RPEL1, RPEL2, and RPEL3) in its …             Damage of photoreceptor-derived cells in culture induced by light emitting diode-derived blue light ▶     Yoshiki Kuse, Kenjiro Ogawa, Kazuhiro Tsuruma et al.     Our eyes are increasingly exposed to light from the emitting diode (LED) light of video display terminals (VDT) which contain much blue light. VDTs are equipped with televisions, …             Use of the SLW index to calculate growth function in the sea cucumber Isostichopus badionotus ▶     Alicia Poot-Salazar, Álvaro Hernández-Flores, Pedro-Luis Ardisson     Age and growth analysis is essential to fisheries management. Indirect methods to calculate growth are widely used; however, length frequency data analysis in sea cucumbers is …             Guanine- 5-carboxylcytosine base pairs mimic mismatches during DNA replication ▶     Toshihiro Shibutani, Shinsuke Ito, Mariko Toda et al.     The genetic information encoded in genomes must be faithfully replicated and transmitted to daughter cells. The recent discovery of consecutive DNA conversions by TET family …             Three-dimensional Saturation Transfer 31P-MRI in Muscles of the Lower Leg at 3.0 T ▶     Prodromos Parasoglou, Ding Xia, Gregory Chang et al.     The creatine kinase (CK) reaction plays a critical role in skeletal muscle function, and can be studied non-invasively using phosphorus (31P) saturation transfer (ST) techniques. …             RNAi-Mediated Gene silencing in Zebrafish Triggered by Convergent Transcription ▶     Omozusi E. Andrews, Diana J. Cha, Chunyao Wei et al.     RNAi based strategies to induce gene silencing are commonly employed in numerous model organisms but have not been extensively used in zebrafish. We found that introduction of …             Seeking carotenoid pigments in amber-preserved fossil feathers ▶     Daniel B. Thomas, Paul C. Nascimbene, Carla J. Dove et al.     Plumage colours bestowed by carotenoid pigments can be important for visual communication and likely have a long evolutionary history within Aves. Discovering plumage carotenoids …             Electrochemical detection of intracellular and cell membrane redox systems in Saccharomyces cerevisiae ▶     Frankie J. Rawson, Alison J. Downard, Keith H. Baronian     Redox mediators can interact with eukaryote cells at a number of different cell locations. While cell membrane redox centres are easily accessible, the redox centres of catabolism …             Primary sequence contribution to the optical function of the eye lens ▶     K. Mahendiran, C. Elie, J.-C. Nebel et al.     The crystallins have relatively high refractive increments compared to other proteins. The Greek key motif in βγ-crystallins was compared with that in other proteins, using …             Autophagy Correlates with Maintenance of Salivary Gland Function Following Radiation ▶     Maria Morgan-Bathke, Grace A. Hill, Zoey I. Harris et al.     The current standard of care for head and neck cancer includes surgical resection of the tumor followed by targeted head and neck radiation. This radiotherapy results in a …             Evaluating the binding efficiency of pheromone binding protein with its natural ligand using molecular docking and fluorescence analysis ▶     Renganathan Ilayaraja, Ramalingam Rajkumar, Durairaj Rajesh et al.     Chemosignals play a crucial role in social and sexual communication among inter- and intra-species. Chemical cues are bound with protein that is present in the pheromones …             Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) prevents lipopolysaccharide (LPS)-induced, sepsis-related severe acute lung injury in mice ▶     Yuki Takaoka, Shigeru Goto, Toshiaki Nakano et al.     Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is an energy metabolism-related enzyme in the glycolytic pathway. Recently, it has been reported that GAPDH has other …             Dynamic equilibrium of heterogeneous and interconvertible multipotent hematopoietic cell subsets ▶     Wendy Weston, Jennifer Zayas, Ruben Perez et al.     Populations of hematopoietic stem cells and progenitors are quite heterogeneous and consist of multiple cell subsets with distinct phenotypic and functional characteristics. Some …             The Roles of Ca2+/NFAT Signaling Genes in Kawasaki Disease: Single- and Multiple-Risk Genetic Variants ▶     Wei Wang, Jiao Lou, Rong Zhong et al.     Ca2/nuclear factor of activated T-cells (Ca2/NFAT) signaling pathway may play a crucial role in Kawasaki disease (KD). We investigated 16 genetic variants, selected by …             Sexual Satisfaction of infertile couples assessed using the Golombok-Rust Inventory of Sexual Satisfaction (GRISS) ▶     Mayumi Shoji, Toshio Hamatani, Shoko Ishikawa et al.     Recently, infertility treatment-related psychological effects are receiving increased attention. However, whether sexual satisfaction is reduced amongst infertile couples remains …             Coral calcifying fluid pH dictates response to ocean acidification ▶     M. Holcomb, A. A. Venn, E. Tambutté et al.     Ocean acidification driven by rising levels of CO2 impairs calcification, threatening coral reef growth. Predicting how corals respond to CO2 requires a better understanding of …             Efficient detection of contagious outbreaks in massive metropolitan encounter networks ▶     Lijun Sun, Kay W. Axhausen, Der-Horng Lee et al.     Physical contact remains difficult to trace in large metropolitan networks, though it is a key vehicle for the transmission of contagious outbreaks. Co-presence encounters during …             Chimpanzee choice rates in competitive games match equilibrium game theory predictions ▶     Christopher Flynn Martin, Rahul Bhui, Peter Bossaerts et al.     The capacity for strategic thinking about the payoff-relevant actions of conspecifics is not well understood across species. We use game theory to make predictions about choices …             Quantitative scoring of differential drug sensitivity for individually optimized anticancer therapies ▶     Bhagwan Yadav, Tea Pemovska, Agnieszka Szwajda et al.     We developed a systematic algorithmic solution for quantitative drug sensitivity scoring (DSS), based on continuous modeling and integration of multiple dose-response …             ATP Binding Turns Plant Cryptochrome Into an Efficient Natural Photoswitch ▶     Pavel Müller, Jean-Pierre Bouly, Kenichi Hitomi et al.     Cryptochromes are flavoproteins that drive diverse developmental light-responses in plants and participate in the circadian clock in animals. Plant cryptochromes have found …             Interleukin-37 Mediates the Antitumor Activity in Hepatocellular Carcinoma: Role for CD57+ NK Cells ▶     Jing-Jing Zhao, Qiu-Zhong Pan, Ke Pan et al.     The biological role of interleukin-37 (IL-37) in cancer is large unknown. Through immunohistochemical detection using 163 primary hepatocellular carcinoma (HCC) clinical …             Metabolic engineering of lactate dehydrogenase rescues mice from acidosis ▶     Abhinav P. Acharya, Mohammad Rafi, Elliot C. Woods et al.     Acidosis causes millions of deaths each year and strategies for normalizing the blood pH in acidosis patients are greatly needed. The lactate dehydrogenase (LDH) pathway has great …             Ftx is dispensable for imprinted X-chromosome inactivation in preimplantation mouse embryos ▶     Miki Soma, Yoshitaka Fujihara, Masaru Okabe et al.     X-chromosome inactivation (XCI) equalizes gene expression between the sexes by inactivating one of the two X chromosomes in female mammals. Xist has been considered as a major cis…             Gremlin-2 is a BMP antagonist that is regulated by the circadian clock ▶     Ching-Yan Chloé Yeung, Nicole Gossan, Yinhui Lu et al.     Tendons are prominent members of the family of fibrous connective tissues (FCTs), which collectively are the most abundant tissues in vertebrates and have crucial roles in …             Regulation of age-related structural integrity in neurons by protein with tau-like repeats (PTL-1) is cell autonomous ▶     Yee Lian Chew, Xiaochen Fan, Jürgen Götz et al.     PTL-1 is the sole homolog of the MAP2/MAP4/tau family in Caenorhabditis elegans. Accumulation of tau is a pathological hallmark of neurodegenerative diseases such as Alzheimer's …             Colorimetric detection of Shewanella oneidensis based on immunomagnetic capture and bacterial intrinsic peroxidase activity ▶     Junlin Wen, Shungui Zhou, Junhua Chen     Rapid detection and enumeration of target microorganisms is considered as a powerful tool for monitoring bioremediation process that typically involves cleaning up polluted …             No evidence of aquatic priming effects in hyporheic zone microcosms ▶     Mia M. Bengtsson, Karoline Wagner, Nancy R. Burns et al.     The priming effect refers to quantitative changes in microbial decomposition of recalcitrant organic matter upon addition of labile organic matter and is a phenomenon that mainly …             Bax Inhibitor-1-Mediated Inhibition of Mitochondrial Ca2+ Intake Regulates Mitochondrial Permeability Transition Pore Opening and Cell Death ▶     Geum-Hwa Lee, Hwa-Young Lee, Bo Li et al.     A recently studied endoplasmic reticulum (ER) stress regulator, Bax inhibitor-1 (BI-1) plays a regulatory role in mitochondrial Ca2 levels. In this study, we identified …             Rewiring mesenchymal stem cell lineage specification by switching the biophysical microenvironment ▶     Junmin Lee, Amr A. Abdeen, Kristopher A. Kilian     The propensity of stem cells to specify and commit to a particular lineage program is guided by dynamic biophysical and biochemical signals that are temporally regulated. However, …             Critical role of γ-phosphate in structural transition of Na,K-ATPase upon ATP binding ▶     Irina Yu. Petrushanko, Vladimir A. Mitkevich, Anastasia A. Anashkina et al.     Active transport of sodium and potassium ions by Na,K-ATPase is accompanied by the enzyme conformational transition between E1 and E2 states. ATP and ADP bind to Na,K-ATPase in …             The expression pattern of 19 genes predicts the histology of endometrial carcinoma ▶     Chang Ohk Sung, Insuk Sohn     Cancer diagnosis and classification have traditionally been based on the assessment of morphology by microscopy. However, the histological classification system is challenging and …             Intranasal mRNA nanoparticle vaccination induces prophylactic and therapeutic anti-tumor immunity ▶     Kyle K. L. Phua, Herman F. Staats, Kam W. Leong et al.     Direct in vivo administration of messenger RNA (mRNA) delivered in both naked and nanoparticle formats are actively investigated because the use of dendritic cells transfected ex …             Synchronized necrotic death of attached hepatocytes mediated via gap junctions ▶     Chieko Saito, Koei Shinzawa, Yoshihide Tsujimoto     Extensive studies have unveiled the intracellular molecular signaling pathways of cell death. To better understand cell death in tissues, it is important to investigate the …             Minimally destructive sampling of type specimens of Pyropia (Bangiales, Rhodophyta) recovers complete plastid and mitochondrial genomes ▶     Jeffery R. Hughey, Paul W. Gabrielson, Laurence Rohmer et al.     Plant species, including algae and fungi, are based on type specimens to which the name of a taxon is permanently attached. Applying a scientific name to any specimen therefore …             Genome-wide survey of tissue-specific microRNA and transcription factor regulatory networks in 12 tissues ▶     Zhiyun Guo, Miranda Maki, Ruofan Ding et al.     Tissue-specific miRNAs (TS miRNA) specifically expressed in particular tissues play an important role in tissue identity, differentiation and function. However, transcription …             Retention of cotyledons is crucial for resprouting of clipped oak seedlings ▶     Xianfeng Yi, Changqu Liu     Although resprouting plays an important role in facilitating persistence of damaged seedlings, the functional attributes of cotyledons and taproots during resprouting of 1-year …             Adhesion force measurements on the two wax layers of the waxy zone in Nepenthes alata pitchers ▶     Elena V. Gorb, Julia Purtov, Stanislav N. Gorb     The wax coverage of the waxy zone in Nepenthes alata pitchers consists of two clearly distinguishable layers, designated the upper and lower wax layers. Since these layers were …             Synergism and Rules of the new Combination drug Yiqijiedu Formulae (YQJD) on Ischemic Stroke based on amino acids (AAs) metabolism ▶     Jian Gao, Chang Chen, Jian-Xin Chen et al.     The use of combination drugs is considered to be a promising strategy to control complex diseases such as ischemic stroke. The detection of metabolites has been used as a …             Biological ingredient analysis of traditional Chinese medicine preparation based on high-throughput sequencing: the story for Liuwei Dihuang Wan ▶     Xinwei Cheng, Xiaoquan Su, Xiaohua Chen et al.     Although Traditional Chinese Medicine (TCM) preparations have long history with successful applications, the scientific and systematic quality assessment of TCM preparations …             Cortico-subcortical metabolic correlates of olfactory processing in healthy resting subjects ▶     Marco Alessandrini, Alessandro Micarelli, Agostino Chiaravalloti et al.     A wide network of interconnected areas was previously found in neuroimaging studies involving normal as well as pathological subjects; however literature seems to suffer from a …             Activation of Rheb, but not of mTORC1, impairs spine synapse morphogenesis in tuberous sclerosis complex ▶     Shin Yasuda, Hiroko Sugiura, Shutaro Katsurabayashi et al.     Mutations in the Tsc1 or Tsc2 genes cause tuberous sclerosis complex (TSC). 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