bluuebunny/crossref_metadata_2025_split huggingface dataset:
The identification of goat peroxiredoxin-5 and the evaluation and enhancement of its stability by nanoparticle formation
Authors: Feng Xiaozhou , Liu Juanjuan , Fan Shuai , Liu Fan , Li Yadong , Jin Yuanyuan , Bai Liping , Yang Zhaoyong 
Published: April 2016

AbstractAn anticancer bioactive peptide (ACBP), goat peroxiredoxin-5 (gPRDX5), was identified from goat-spleen extract after immunizing the goat with gastric cancer-cell lysate. Its amino acid sequence was determined by employing 2D nano-LC-ESI-LTQ-Orbitrap MS/MS combined with Mascot database search in the goat subset of the Uniprot database. The recombinant gPRDX5 protein was acquired by heterogeneous expression in Escherichia coli. Subsequently, the anti-cancer bioactivity of the peptide was measured by several kinds of tumor cells. The results indicated that the gPRDX5 was a good anti-cancer candidate, especially for killing B16 cells. However, the peptide was found to be unstable without modification with pharmaceutical excipients, which would be a hurdle for future medicinal application. In order to overcome this problem and find an effective way to evaluate the gPRDX5, nanoparticle formation, which has been widely used in drug delivery because of its steadiness in application, less side-effects and enhancement of drug accumulation in target issues, was used here to address the issues. In this work, the gPRDX5 was dispersed into nanoparticles before delivered to B16 cells. By the nanotechnological method, the gPRDX5 was stabilized by a fast and accurate procedure, which suggests a promising way for screening the peptide for further possible medicinal applications.
Plasmacytoid dendritic cells orchestrate TLR7-mediated innate and adaptive immunity for the initiation of autoimmune inflammation
Authors: Takagi Hideaki , Arimura Keiichi , Uto Tomofumi , Fukaya Tomohiro , Nakamura Takeshi , Choijookhuu Narantsog , Hishikawa Yoshitaka , Sato Katsuaki 
Published: April 2016

AbstractEndosomal toll-like receptor (TLR)-mediated detection of viral nucleic acids (NAs) and production of type I interferon (IFN-I) are key elements of antiviral defense, while inappropriate recognition of self NAs with the induction of IFN-I responses is linked to autoimmunity such as psoriasis and systemic lupus erythematosus. Plasmacytoid dendritic cells (pDCs) are cells specialized in robust IFN-I secretion by the engagement of endosomal TLRs and predominantly express sialic acid-binding Ig-like lectin (Siglec)-H. However, how pDCs control endosomal TLR-mediated immune responses that cause autoimmunity remains unclear. Here we show a critical role of pDCs in TLR7-mediated autoimmunity using gene-modified mice with impaired expression of Siglec-H and selective ablation of pDCs. pDCs were shown to be indispensable for the induction of systemic inflammation and effector T-cell responses triggered by TLR7 ligand. pDCs aggravated psoriasiform dermatitis mediated through the hyperproliferation of keratinocytes and enhanced dermal infiltration of granulocytes and γδ T cells. Furthermore, pDCs promoted the production of anti-self NA antibodies and glomerulonephritis in lupus-like disease by activating inflammatory monocytes. On the other hand, Siglec-H regulated the TLR7-mediated activation of pDCs. Thus, our findings reveal that pDCs provide an essential link between TLR7-mediated innate and adaptive immunity for the initiation of IFN-I-associated autoimmune inflammation.
Hsp90aa1: a novel target gene of miR-1 in cardiac ischemia/reperfusion injury
Authors: Zhu Wen Si , Guo Wei , Zhu Jie Ning , Tang Chun Mei , Fu Yong Heng , Lin Qiu Xiong , Tan Ning , Shan Zhi Xin 
Published: April 2016

AbstractThe role of microRNA-1 (miR-1) in ischemia/reperfusion (I/R)-induced injury is not well illustrated. The present study aimed to investigate the expression and potential target of miR-1 in the myocardium of a rat model of I/R. The apoptosis of cardiomyocytes in the ischemic rat myocardium increased on day 1, then attenuated on day 3 and day 7 post-I/R. Heat shot protein 90 (Hsp90) aa1 mRNA expression was decreased post-I/R and Hsp90aa1 protein level was decreased on day1 post-I/R, but was reversed on day 3 and day 7 post-I/R. MiR-1 was downregulated post-I/R and repression of miR-1 in cultured neonatal rat ventricular cells (NRVCs) led to an increase of Bcl-2 and decreases of Bax and active caspase-3. Dual luciferase reporter assays revealed that miR-1 interacted with the 310–315 nt site at the 3′UTR of Hsp90aa1 and miR-1 was verified to inhibit Hsp90aa1 expression at the posttranscriptional level. Over-expression of Hsp90aa1 could attenuate oxygen-glucose deprivation (OGD)-induced apoptosis of NRVCs. Additionally, miR-1 mimic, in parallel to Hsp90aa1 siRNA, could enhance OGD-induced apoptosis of NRVCs. Taken together, our results reveal that Hsp90aa1 is a novel target of miR-1 and repression of miR-1 may contribute to the recovery of Hsp90aa1 during myocardial I/R.
On migration of primary/peritectic interface during interrupted directional solidification of Sn-Ni peritectic alloy
Authors: Peng Peng , Li Xinzhong , Li Jiangong , Su Yanqing , Guo Jingjie , Fu Hengzhi 
Published: April 2016

AbstractThe migration of the primary/peritectic interface in local isothermal condition is observed in dendritic structure of Sn–Ni peritectic alloy after experiencing interrupted directional solidification. It was observed that this migration of primary Ni3Sn2/peritectic Ni3Sn4 interface towards the primary Ni3Sn2 phase was accompanied by migration of liquid film located at this interface. The migration velocity of this interface was confirmed to be much faster than that of peritectic transformation, so this migration was mostly caused by superheating of primary Ni3Sn2 phase below TP, leading to nucleation and migration of liquid film at this interface. This migration can be classified as a kind of liquid film migration (LFM), and the migration velocity at the horizontal direction has been confirmed to be much faster than that along the direction of temperature gradient. Analytical prediction has shown that the migration of liquid film could be divided into two stages depending on whether primary phase exists below TP. If the isothermal annealing time is not long enough, both the liquid film and the primary/peritectic interface migrate towards the primary phase until the superheated primary phase has all been dissolved. Then, this migration process towards higher temperature is controlled by temperature gradient zone melting (TGZM).
Circulating Tumor Cell Count Correlates with Colorectal Neoplasm Progression and Is a Prognostic Marker for Distant Metastasis in Non-Metastatic Patients
Authors: Tsai Wen-Sy , Chen Jinn-Shiun , Shao Hung-Jen , Wu Jen-Chia , Lai Jr-Ming , Lu Si-Hong , Hung Tsung-Fu , Chiu Yen-Chi , You Jeng-Fu , Hsieh Pao-Shiu , Yeh Chien-Yuh , Hung Hsin-Yuan , Chiang Sum-Fu , Lin Geng-Ping , Tang Reiping , Chang Ying-Chih 
Published: April 2016

AbstractEnumeration of circulating tumor cells (CTCs) has been proven as a prognostic marker for metastatic colorectal cancer (m-CRC) patients. However, the currently available techniques for capturing and enumerating CTCs lack of required sensitivity to be applicable as a prognostic marker for non-metastatic patients as CTCs are even more rare. We have developed a microfluidic device utilizing antibody-conjugated non-fouling coating to eliminate nonspecific binding and to promote the multivalent binding of target cells. We then established the correlation of CTC counts and neoplasm progression through applying this platform to capture and enumerate CTCs in 2 mL of peripheral blood from healthy (n = 27), benign (n = 21), non-metastatic (n = 95), and m-CRC (n = 15) patients. The results showed that the CTC counts progressed from 0, 1, 5, to 36. Importantly, after 2-year follow-up on the non-metastatic CRC patients, we found that those who had ≥5 CTCs were 8 times more likely to develop distant metastasis within one year after curable surgery than those who had <5. In conclusion, by employing a sensitive device, CTC counts show good correlation with colorectal neoplasm, thus CTC may be as a simple, independent prognostic marker for the non-metastatic CRC patients who are at high risk of early recurrence.
LDL-lowering therapy and the risk of prostate cancer: a meta-analysis of 6 randomized controlled trials and 36 observational studies
Authors: Tan Ping , Wei Shiyou , Tang Zhuang , Gao Liang , Zhang Chen , Nie Pan , Yang Lu , Wei Qiang 
Published: April 2016

AbstractThe role of statins in preventing prostate cancer is currently a controversial issue. The aim of this review is to investigate the effects of statins use on prostate cancer risk. Electronic databases (the Cochrane Library, PubMed, Medline, Embase, Web of Science, and ClinicalTrials.gov) were searched systematically up to April, 2015. Weighted averages were reported as relative risk (RR) with 95% confidence intervals (CIs). Statistic heterogeneity scores were assessed with the standard Cochran’s Q test and I2 statistic. The pooled estimates of randomized controlled trials (RCTs) and retrospective studies suggest that statins have a neutral effect on total prostate cancer (RR = 1·02, 95% CI: 0·90–1·14; and RR = 0·91, 95% CI: 0·79–1·02, respectively). This research provides no evidence to suggest that the use of statins for cholesterol lowering is beneficial for the prevention of low-grade or localized prostate cancer, although a plausible association between statins use and the reduction risk of advanced (RR = 0·87, 95% CI: 0·82–0·91) or high-grade prostate cancer (RR = 0·83, 95% CI: 0·66–0·99) is observed. Furthermore, it shows that prostate cancer risk does not statistically significant benefit from long-term statins use.
Manipulation complexity in primates coevolved with brain size and terrestriality
Authors: Heldstab Sandra A. , Kosonen Zaida K. , Koski Sonja E. , Burkart Judith M. , van Schaik Carel P. , Isler Karin 
Published: April 2016

AbstractHumans occupy by far the most complex foraging niche of all mammals, built around sophisticated technology, and at the same time exhibit unusually large brains. To examine the evolutionary processes underlying these features, we investigated how manipulation complexity is related to brain size, cognitive test performance, terrestriality, and diet quality in a sample of 36 non-human primate species. We categorized manipulation bouts in food-related contexts into unimanual and bimanual actions, and asynchronous or synchronous hand and finger use, and established levels of manipulative complexity using Guttman scaling. Manipulation categories followed a cumulative ranking. They were particularly high in species that use cognitively challenging food acquisition techniques, such as extractive foraging and tool use. Manipulation complexity was also consistently positively correlated with brain size and cognitive test performance. Terrestriality had a positive effect on this relationship, but diet quality did not affect it. Unlike a previous study on carnivores, we found that, among primates, brain size and complex manipulations to acquire food underwent correlated evolution, which may have been influenced by terrestriality. Accordingly, our results support the idea of an evolutionary feedback loop between manipulation complexity and cognition in the human lineage, which may have been enhanced by increasingly terrestrial habits.
Necrotic cells influence migration and invasion of glioblastoma via NF-κB/AP-1-mediated IL-8 regulation
Authors: Ahn So-Hee , Park Hyunju , Ahn Young-Ho , Kim Sewha , Cho Min-Sun , Kang Jihee Lee , Choi Youn-Hee 
Published: April 2016

AbstractGlioblastoma multiforme (GBM) is the most common primary intracranial tumor in adults and has poor prognosis. Diffuse infiltration into normal brain parenchyma, rapid growth, and the presence of necrosis are remarkable hallmarks of GBM. However, the effect of necrotic cells on GBM growth and metastasis is poorly understood at present. In this study, we examined the biological significance of necrotic tissues by exploring the molecular mechanisms underlying the signaling network between necrotic tissues and GBM cells. The migration and invasion of the GBM cell line CRT-MG was significantly enhanced by treatment with necrotic cells, as shown by assays for scratch wound healing and spheroid invasion. Incubation with necrotic cells induced IL-8 secretion in CRT-MG cells in a dose-dependent manner. In human GBM tissues, IL-8 positive cells were mainly distributed in the perinecrotic region, as seen in immunohistochemistry and immunofluorescence analysis. Necrotic cells induced NF-κB and AP-1 activation and their binding to the IL-8 promoter, leading to enhanced IL-8 production and secretion in GBM cells. Our data demonstrate that when GBM cells are exposed to and stimulated by necrotic cells, the migration and invasion of GBM cells are enhanced and facilitated via NF-κB/AP-1 mediated IL-8 upregulation.
Assessment of Serum UCH-L1 and GFAP in Acute Stroke Patients
Authors: Ren Changhong , Kobeissy Firas , Alawieh Ali , Li Na , Li Ning , Zibara Kazem , Zoltewicz Susie , Guingab-Cagmat Joy , Larner Stephen F. , Ding Yuchuan , Hayes Ronald L. , Ji Xunming , Mondello Stefania 
Published: April 2016

AbstractA rapid and reliable diagnostic test to distinguish ischemic from hemorrhagic stroke in patients presenting with stroke-like symptoms is essential to optimize management and triage for thrombolytic therapy. The present study measured serum concentrations of ubiquitin C-terminal hydrolase (UCH-L1) and glial fibrillary astrocytic protein (GFAP) in acute stroke patients and healthy controls and investigated their relation to stroke severity and patient characteristics. We also assessed the diagnostic performance of these markers for the differentiation of intracerebral hemorrhage (ICH) from ischemic stroke (IS). Both UCH-L1 and GFAP concentrations were significantly greater in ICH patients than in controls (p < 0.0001). However, exclusively GFAP differed in ICH compared with IS (p < 0.0001). GFAP yielded an AUC of 0.86 for differentiating between ICH and IS within 4.5hrs of symptom onset with a sensitivity of 61% and a specificity of 96% using a cut-off of 0.34ng/ml. Higher GFAP levels were associated with stroke severity and history of prior stroke. Our results demonstrate that blood UCH-L1 and GFAP are increased early after stroke and distinct biomarker-specific release profiles are associated with stroke characteristics and type. We also confirmed the potential of GFAP as a tool for early rule-in of ICH, while UCH-L1 was not clinically useful.
Therapeutic inhibition of phospholipase D1 suppresses hepatocellular carcinoma
Authors: Xiao Junjie , Sun Qi , Bei Yihua , Zhang Ling , Dimitrova-Shumkovska Jasmina , Lv Dongchao , Yang Yuefeng , Cao Yan , Zhao Yingying , Song Meiyi , Song Yang , Wang Fei , Yang Changqing 
Published: April 2016

Hepatocellular carcinoma (HCC) represents a leading cause of deaths worldwide. Novel therapeutic targets for HCC are needed. Phospholipase D (PD) is involved in cell proliferation and migration, but its role in HCC remains unclear. In the present study, we show that PLD1, but not PLD2, was overexpressed in HCC cell lines (HepG2, Bel-7402 and Bel-7404) compared with the normal human L-02 hepatocytes. PLD1 was required for the proliferation, migration and invasion of HCC cells without affecting apoptosis and necrosis, and PLD1 overexpression was sufficient to promote those effects. By using HCC xenograft models, we demonstrated that therapeutic inhibition of PLD1 attenuated tumour growth and epithelial–mesenchymal transition (EMT) in HCC mice. Moreover, PLD1 was found to be highly expressed in tumour tissues of HCC patients. Finally, mTOR (mechanistic target of rapamycin) and Akt (protein kinase B) were identified as critical pathways responsible for the role of PLD1 in HCC cells. Taken together, the present study indicates that PLD1 activation contributes to HCC development via regulation of the proliferation, migration and invasion of HCC cells, as well as promoting the EMT process. These observations suggest that inhibition of PLD1 represents an attractive and novel therapeutic modality for HCC.
Feeding Ecology of Native and Nonnative Salmonids during the Expansion of a Nonnative Apex Predator in Yellowstone Lake, Yellowstone National Park
Authors: Syslo John M. , Guy Christopher S. , Koel Todd M. 
Published: April 2016

AbstractThe illegal introduction of Lake Trout Salvelinus namaycush into Yellowstone Lake, Yellowstone National Park, preceded the collapse of the native population of Yellowstone Cutthroat Trout Oncorhynchus clarkii bouvieri, producing a four‐level trophic cascade. The Yellowstone Cutthroat Trout population's collapse and the coinciding increase in Lake Trout abundance provided a rare opportunity to evaluate the feeding ecology of a native prey species and a nonnative piscivore species after the restructuring of a large lentic ecosystem. We assessed diets, stable isotope signatures, and depth‐related CPUE patterns for Yellowstone Cutthroat Trout and Lake Trout during 2011–2013 to evaluate trophic overlap. To evaluate diet shifts related to density, we also compared 2011–2013 diets to those from studies conducted during previous periods with contrasting Yellowstone Cutthroat Trout and Lake Trout CPUEs. We illustrate the complex interactions between predator and prey in a simple assemblage and demonstrate how a nonnative apex predator can alter competitive interactions. The diets of Yellowstone Cutthroat Trout were dominated by zooplankton during a period when the Yellowstone Cutthroat Trout CPUE was high and were dominated by amphipods when the CPUE was reduced. Lake Trout shifted from a diet that was dominated by Yellowstone Cutthroat Trout during the early stages of the invasion to a diet that was dominated by amphipods after Lake Trout abundance had increased and after Yellowstone Cutthroat Trout prey had declined. The shifts in Yellowstone Cutthroat Trout and Lake Trout diets resulted in increased trophic similarity of these species through time due to their shared reliance on benthic amphipods. Yellowstone Cutthroat Trout not only face the threat posed by Lake Trout predation but also face the potential threat of competition with Lake Trout if amphipods are limiting. Our results demonstrate the importance of studying the long‐term feeding ecology of fishes in invaded ecosystems.Received August 24, 2015; accepted December 23, 2015 Published online April 14, 2016
Earlier snowmelt and warming lead to earlier but not necessarily more plant growth
Authors: Livensperger Carolyn , Steltzer Heidi , Darrouzet-Nardi Anthony , Sullivan Patrick F. , Wallenstein Matthew , Weintraub Michael N. 
Published: April 2016

Abstract
Climate change over the past ∼50 years has resulted in earlier occurrence of plant life-cycle events for many species. Across temperate, boreal and polar latitudes, earlier seasonal warming is considered the key mechanism leading to earlier leaf expansion and growth. Yet, in seasonally snow-covered ecosystems, the timing of spring plant growth may also be cued by snowmelt, which may occur earlier in a warmer climate. Multiple environmental cues protect plants from growing too early, but to understand how climate change will alter the timing and magnitude of plant growth, experiments need to independently manipulate temperature and snowmelt. Here, we demonstrate that altered seasonality through experimental warming and earlier snowmelt led to earlier plant growth, but the aboveground production response varied among plant functional groups. Earlier snowmelt without warming led to early leaf emergence, but often slowed the rate of leaf expansion and had limited effects on aboveground production. Experimental warming alone had small and inconsistent effects on aboveground phenology, while the effect of the combined treatment resembled that of early snowmelt alone. Experimental warming led to greater aboveground production among the graminoids, limited changes among deciduous shrubs and decreased production in one of the dominant evergreen shrubs. As a result, we predict that early onset of the growing season may favour early growing plant species, even those that do not shift the timing of leaf expansion.
TOPDOM: database of conservatively located domains and motifs in proteins
Authors: Varga Julia , Dobson László , Tusnády Gábor E. 
Published: April 2016

Abstract
Summary: The TOPDOM database—originally created as a collection of domains and motifs located consistently on the same side of the membranes in α-helical transmembrane proteins—has been updated and extended by taking into consideration consistently localized domains and motifs in globular proteins, too. By taking advantage of the recently developed CCTOP algorithm to determine the type of a protein and predict topology in case of transmembrane proteins, and by applying a thorough search for domains and motifs as well as utilizing the most up-to-date version of all source databases, we managed to reach a 6-fold increase in the size of the whole database and a 2-fold increase in the number of transmembrane proteins.
Availability and implementation: TOPDOM database is available at http://topdom.enzim.hu . The webpage utilizes the common Apache, PHP5 and MySQL software to provide the user interface for accessing and searching the database. The database itself is generated on a high performance computer.
Contact : tusnady.gabor@ttk.mta.hu .
Supplementary information : Supplementary data are available at Bioinformatics online.
Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast
Authors: Jeffares Daniel C. , Jolly Clemency , Hoti Mimoza , Speed Doug , Shaw Liam , Rallis Charalampos , Balloux Francois , Dessimoz Christophe , Bähler Jürg , Sedlazeck Fritz J. 
Published: April 2016

AbstractLarge structural variations (SVs) in the genome are harder to identify than smaller genetic variants but may substantially contribute to phenotypic diversity and evolution. Here we analyze the effects of SVs on gene expression, quantitative traits, and intrinsic reproductive isolation in the yeastSchizosaccharomyces pombe. We establish a high-quality curated catalog of SVs in the genomes of a worldwide library ofS. pombestrains, including duplications, deletions, inversions and translocations. We show that copy number variants (CNVs) frequently segregate within closely related clonal populations, are weakly linked to single nucleotide polymorphisms (SNPs), and show other genetic signals consistent with rapid turnover. These transient CNVs produce stoichiometric effects on gene expression both within and outside the duplicated regions. CNVs make substantial contributions to quantitative traits such as cell shape, cell growth under diverse conditions, sugar utilization in winemaking, whereas rearrangements are strongly associated with reproductive isolation. Collectively, these findings have broad implications for evolution and for our understanding of quantitative traits including complex human diseases.