bluuebunny/crossref_metadata_2025 huggingface dataset:
α-Integrin expression and function modulates presentation of cell surface calreticulin
Authors: Liu C-C , Leclair P , Monajemi M , Sly L M , Reid G S , Lim C J
Published: June 2016

Calreticulin presentation on the cell surface is an important hallmark of immunogenic cell death (ICD), serving as the prophagocytic signal for macrophages. Cell adhesion is a physiologically relevant stimulus previously shown to increase calreticulin interaction with α-integrins via the juxtamembrane, cytosolic GFFKR motif. This study assessed whether integrin function can regulate surface calreticulin levels in ICD. We generated calreticulin-null T-lymphoblasts and confirmed the loss of surface calreticulin expression on cells treated with doxorubicin, an ICD inducer. Reconstituted expression with full-length calreticulin targeted to the endoplasmic reticulum (ER) successfully rescued doxorubicin-induced surface calreticulin. Reconstitution with a truncation mutant calreticulin targeted to the cytosol led to constitutively high surface calreticulin that was not further elevated by doxorubicin, suggesting calreticulin released from the stressed ER transits the cytosol before its translocation to the cell surface. When stimulated to engage integrin substrates, doxorubicin-treated wild-type T-lymphoblasts exhibited decreased surface calreticulin compared with cells under non-adherent conditions. The inhibitory effect on surface calreticulin was recapitulated for cells in suspension treated with a β1-integrin-activating antibody, 9EG7. Similarly, cells expressing a truncated α-integrin cytosolic tail, bearing only the juxtamembrane GFFKR calreticulin-binding motif, exhibited low surface calreticulin with doxorubicin treatment under non-adherent conditions. Using partial permeabilization techniques to distinguish between cytosolic and ER staining, we found that ICD inducers promoted the accumulation of cytosolic calreticulin with negligible change in total calreticulin, suggesting that integrin-mediated inhibition of surface calreticulin was due to reduced cytosolic to surface translocation. T-lymphoblasts co-treated with an ICD inducer and 9EG7 exhibited reduced phagocytosis by macrophages when compared with treatment with only ICD inducer. This study reveals a previously uncharacterized function of integrins as negative regulators of ICD by suppressing presentation of cell surface calreticulin.
Diversity, structure and convergent evolution of the global sponge microbiome
Authors: Thomas Torsten , Moitinho-Silva Lucas , Lurgi Miguel , Björk Johannes R. , Easson Cole , Astudillo-García Carmen , Olson Julie B. , Erwin Patrick M. , López-Legentil Susanna , Luter Heidi , Chaves-Fonnegra Andia , Costa Rodrigo , Schupp Peter J. , Steindler Laura , Erpenbeck Dirk , Gilbert Jack , Knight Rob , Ackermann Gail , Victor Lopez Jose , Taylor Michael W. , Thacker Robert W. , Montoya Jose M. , Hentschel Ute , Webster Nicole S.
Published: June 2016

Sponges (phylum Porifera) are early-diverging metazoa renowned for establishing complex microbial symbioses. Here we present a global Porifera microbiome survey, set out to establish the ecological and evolutionary drivers of these host–microbe interactions. We show that sponges are a reservoir of exceptional microbial diversity and major contributors to the total microbial diversity of the world’s oceans. Little commonality in species composition or structure is evident across the phylum, although symbiont communities are characterized by specialists and generalists rather than opportunists. Core sponge microbiomes are stable and characterized by generalist symbionts exhibiting amensal and/or commensal interactions. Symbionts that are phylogenetically unique to sponges do not disproportionally contribute to the core microbiome, and host phylogeny impacts complexity rather than composition of the symbiont community. Our findings support a model of independent assembly and evolution in symbiont communities across the entire host phylum, with convergent forces resulting in analogous community organization and interactions.
Molecular basis for CPAP-tubulin interaction in controlling centriolar and ciliary length
Authors: Zheng Xiangdong , Ramani Anand , Soni Komal , Gottardo Marco , Zheng Shuangping , Ming Gooi Li , Li Wenjing , Feng Shan , Mariappan Aruljothi , Wason Arpit , Widlund Per , Pozniakovsky Andrei , Poser Ina , Deng Haiteng , Ou Guangshuo , Riparbelli Maria , Giuliano Callaini , Hyman Anthony A. , Sattler Michael , Gopalakrishnan Jay , Li Haitao
Published: June 2016

Centrioles and cilia are microtubule-based structures, whose precise formation requires controlled cytoplasmic tubulin incorporation. How cytoplasmic tubulin is recognized for centriolar/ciliary-microtubule construction remains poorly understood. Centrosomal-P4.1-associated-protein (CPAP) binds tubulin via its PN2-3 domain. Here, we show that a C-terminal loop-helix in PN2-3 targets β-tubulin at the microtubule outer surface, while an N-terminal helical motif caps microtubule’s α-β surface of β-tubulin. Through this, PN2-3 forms a high-affinity complex with GTP-tubulin, crucial for defining numbers and lengths of centriolar/ciliary-microtubules. Surprisingly, two distinct mutations in PN2-3 exhibit opposite effects on centriolar/ciliary-microtubule lengths. CPAPF375A, with strongly reduced tubulin interaction, causes shorter centrioles and cilia exhibiting doublet- instead of triplet-microtubules. CPAPEE343RR that unmasks the β-tubulin polymerization surface displays slightly reduced tubulin-binding affinity inducing over-elongation of newly forming centriolar/ciliary-microtubules by enhanced dynamic release of its bound tubulin. Thus CPAP regulates delivery of its bound-tubulin to define the size of microtubule-based cellular structures using a ‘clutch-like’ mechanism.
Contrasting emergence of Lyme disease across ecosystems
Authors: Mysterud Atle , Easterday William Ryan , Stigum Vetle Malmer , Aas Anders Bjørnsgaard , Meisingset Erling L. , Viljugrein Hildegunn
Published: June 2016

Global environmental changes are causing Lyme disease to emerge in Europe. The life cycle of Ixodes ricinus, the tick vector of Lyme disease, involves an ontogenetic niche shift, from the larval and nymphal stages utilizing a wide range of hosts, picking up the pathogens causing Lyme disease from small vertebrates, to the adult stage depending on larger (non-transmission) hosts, typically deer. Because of this complexity the role of different host species for emergence of Lyme disease remains controversial. Here, by analysing long-term data on incidence in humans over a broad geographical scale in Norway, we show that both high spatial and temporal deer population density increase Lyme disease incidence. However, the trajectories of deer population sizes play an overall limited role for the recent emergence of the disease. Our study suggests that managing deer populations will have some effect on disease incidence, but that Lyme disease may nevertheless increase as multiple drivers are involved.
The hot pick-up technique for batch assembly of van der Waals heterostructures
Authors: Pizzocchero Filippo , Gammelgaard Lene , Jessen Bjarke S. , Caridad José M. , Wang Lei , Hone James , Bøggild Peter , Booth Timothy J.
Published: June 2016

The assembly of individual two-dimensional materials into van der Waals heterostructures enables the construction of layered three-dimensional materials with desirable electronic and optical properties. A core problem in the fabrication of these structures is the formation of clean interfaces between the individual two-dimensional materials which would affect device performance. We present here a technique for the rapid batch fabrication of van der Waals heterostructures, demonstrated by the controlled production of 22 mono-, bi- and trilayer graphene stacks encapsulated in hexagonal boron nitride with close to 100% yield. For the monolayer devices, we found semiclassical mean-free paths up to 0.9 μm, with the narrowest samples showing clear indications of the transport being affected by boundary scattering. The presented method readily lends itself to fabrication of van der Waals heterostructures in both ambient and controlled atmospheres, while the ability to assemble pre-patterned layers paves the way for complex three-dimensional architectures.
Sugary interfaces mitigate contact damage where stiff meets soft
Authors: Yoo Hee Young , Iordachescu Mihaela , Huang Jun , Hennebert Elise , Kim Sangsik , Rho Sangchul , Foo Mathias , Flammang Patrick , Zeng Hongbo , Hwang Daehee , Waite J. Herbert , Hwang Dong Soo
Published: June 2016

The byssal threads of the fan shell Atrina pectinata are non-living functional materials intimately associated with living tissue, which provide an intriguing paradigm of bionic interface for robust load-bearing device. An interfacial load-bearing protein (A. pectinata foot protein-1, apfp-1) with L-3,4-dihydroxyphenylalanine (DOPA)-containing and mannose-binding domains has been characterized from Atrina’s foot. apfp-1 was localized at the interface between stiff byssus and the soft tissue by immunochemical staining and confocal Raman imaging, implying that apfp-1 is an interfacial linker between the byssus and soft tissue, that is, the DOPA-containing domain interacts with itself and other byssal proteins via Fe3+–DOPA complexes, and the mannose-binding domain interacts with the soft tissue and cell membranes. Both DOPA- and sugar-mediated bindings are reversible and robust under wet conditions. This work shows the combination of DOPA and sugar chemistry at asymmetric interfaces is unprecedented and highly relevant to bionic interface design for tissue engineering and bionic devices.
Direct evidence of the molecular basis for biological silicon transport
Authors: Knight Michael J. , Senior Laura , Nancolas Bethany , Ratcliffe Sarah , Curnow Paul
Published: June 2016

Diatoms are an important group of eukaryotic algae with a curious evolutionary innovation: they sheath themselves in a cell wall made largely of silica. The cellular machinery responsible for silicification includes a family of membrane permeases that recognize and actively transport the soluble precursor of biosilica, silicic acid. However, the molecular basis of silicic acid transport remains obscure. Here, we identify experimentally tractable diatom silicic acid transporter (SIT) homologues and study their structure and function in vitro, enabled by the development of a new fluorescence method for studying substrate transport kinetics. We show that recombinant SITs are Na+/silicic acid symporters with a 1:1 protein: substrate stoichiometry and KM for silicic acid of 20 μM. Protein mutagenesis supports the long-standing hypothesis that four conserved GXQ amino acid motifs are important in SIT function. This marks a step towards a detailed understanding of silicon transport with implications for biogeochemistry and bioinspired materials.
Spin and wavelength multiplexed nonlinear metasurface holography
Authors: Ye Weimin , Zeuner Franziska , Li Xin , Reineke Bernhard , He Shan , Qiu Cheng-Wei , Liu Juan , Wang Yongtian , Zhang Shuang , Zentgraf Thomas
Published: June 2016

Metasurfaces, as the ultrathin version of metamaterials, have caught growing attention due to their superior capability in controlling the phase, amplitude and polarization states of light. Among various types of metasurfaces, geometric metasurface that encodes a geometric or Pancharatnam–Berry phase into the orientation angle of the constituent meta-atoms has shown great potential in controlling light in both linear and nonlinear optical regimes. The robust and dispersionless nature of the geometric phase simplifies the wave manipulation tremendously. Benefitting from the continuous phase control, metasurface holography has exhibited advantages over conventional depth controlled holography with discretized phase levels. Here we report on spin and wavelength multiplexed nonlinear metasurface holography, which allows construction of multiple target holographic images carried independently by the fundamental and harmonic generation waves of different spins. The nonlinear holograms provide independent, nondispersive and crosstalk-free post-selective channels for holographic multiplexing and multidimensional optical data storages, anti-counterfeiting, and optical encryption.
Structure of the exportin Xpo4 in complex with RanGTP and the hypusine-containing translation factor eIF5A
Authors: Aksu Metin , Trakhanov Sergei , Görlich Dirk
Published: June 2016

Xpo4 is a bidirectional nuclear transport receptor that mediates nuclear export of eIF5A and Smad3 as well as import of Sox2 and SRY. How Xpo4 recognizes such a variety of cargoes is as yet unknown. Here we present the crystal structure of the RanGTP·Xpo4·eIF5A export complex at 3.2 Å resolution. Xpo4 has a similar structure as CRM1, but the NES-binding site is occluded, and a new interaction site evolved that recognizes both globular domains of eIF5A. eIF5A contains hypusine, a unique amino acid with two positive charges, which is essential for cell viability and eIF5A function in translation. The hypusine docks into a deep, acidic pocket of Xpo4 and is thus a critical element of eIF5A’s complex export signature. This further suggests that Xpo4 recognizes other cargoes differently, and illustrates how Xpo4 suppresses – in a chaperone-like manner – undesired interactions of eIF5A inside nuclei.
Extrafine beclometasone diproprionate/formoterol fumarate: a review of its effects in chronic obstructive pulmonary disease
Authors: Singh Dave , Corradi Massimo , Spinola Monica , Petruzzelli Stefano , Papi Alberto
Published: June 2016

A fixed-dose inhaled corticosteroid/long-acting β2-agonist (ICS/LABA) combination of extrafine beclometasone dipropionate and formoterol fumarate (BDP/FF) has been recently approved for use in chronic obstructive pulmonary disease (COPD). Small airway inflammation and remodelling are cardinal features of COPD; therefore, the ability of this extrafine formulation to reach the small, as well as the large, airways is likely to be therapeutically important by enabling treatment of inflammatory processes in the whole bronchial tree. The clinical development of extrafine BDP/FF has demonstrated significant benefits over extrafine FF in terms of lung function improvement and reduction of the exacerbation rate, thus supporting the beneficial effect of an ICS combined to a LABA in COPD patients. Head-to-head comparison studies versus other ICS/LABA combinations have shown that the extrafine formulation enables the clinical benefits to be achieved with a lower dose of ICS. Extrafine BDP/FF showed lung function and dyspnoea improvements comparable to other ICS/LABAs, and a significantly faster onset of action was observed when compared with a salmeterol-containing fixed-dose combination. This review summarises the clinical evidence supporting the efficacy of extrafine BDP/FF in COPD and confirming that extrafine BDP/FF achieves the type of health benefit expected from such a targeted ICS/LABA combination in COPD.
Model-based dietary optimization for late-stage, levodopa-treated, Parkinson’s disease patients
Authors: Guebila Marouen Ben , Thiele Ines
Published: June 2016

Levodopa has been the gold standard for Parkinson’s disease treatment for more than 40 years. Its bioavailability is hindered by dietary amino acids, leading to fluctuations in the motor response particularly in late-stage (stage 3 and 4 on Hoehn and Yahr scale) patients. The routine dietary intervention consists of low-protein (<0.8 g/kg) diets or the redistribution of daily protein allowance to the last meal. Computational modeling was used to examine the fluctuation of gastrointestinal levodopa absorption under consideration of the diet by (i) identifying the group of patients that could benefit from dietary interventions, (ii) comparing existing diet recommendations for their impact on levodopa bioavailability, and (iii) suggesting a mechanism-based dietary intervention. We developed a multiscale computational model consisting of an ordinary differential equations-based advanced compartmentalized absorption and transit (ACAT) gut model and metabolic genome-scale small intestine epithelial cell model. We used this model to investigate complex spatiotemporal relationship between dietary amino acids and levodopa absorption. Our model predicted an improvement in bioavailability, as reflected by blood concentrations of levodopa with protein redistribution diet by 34% compared with a low-protein diet and by 11% compared with the ante cibum (a.c.) administration. These results are consistent with the reported better outcome in late-stage patients. A systematic analysis of the effect of different amino acids in the diet suggested that a serine-rich diet could improve the bioavailability by 22% compared with the a.c. administration. In addition, the slower gastric emptying rate in PD patients exacerbates the loss of levodopa due to competition. Optimizing dietary recommendations in quantity, composition, and intake time holds the promise to improve levodopa efficiency and patient’s quality of life based on highly detailed, mechanistic models of gut physiology endowed with improved extrapolative properties, thus paving the way for precision medical treatment.
pH-regulated template-free assembly of Sb4O5Cl2 hollow microsphere crystallites with self-narrowed bandgap and optimized photocatalytic performance
Authors: Yang Liuqing , Huang Jianfeng , Cao Liyun , Shi Li , Yu Qing , Kong Xingang , Jie Yanni
Published: June 2016

Sb4O5Cl2 hollow microspheres with self-narrowed bandgap and optimized photocatalytic performances are synthesized via a facile template-free method. It is found that the crystal structure and morphology of Sb4O5Cl2 crystallites are strongly dependent on the pH values of precursors. Nano-sized irregular-cuboids assembled Sb4O5Cl2 micro-particles and hollow microspheres can be synthesized at pH 1 and 2, whereas individual Sb4O5Cl2 micro-belts become to form when the pH is higher than 3. The irregular-cuboids assembled Sb4O5Cl2 micro-particles and hollow microspheres exhibit self-narrowed bandgap and higher light absorption ability compared with individual Sb4O5Cl2 micro-belts. The photoelectrochemical measurements show that the assembled Sb4O5Cl2 hollow microsphere crystallites prepared at pH 2 exhibit enhanced carrier density, improved separation efficiency of electron-hole pairs and decreased electron-transfer resistance. As a result, the irregular-cuboids assembled Sb4O5Cl2 hollow microspheres prepared at pH = 2 exhibit the highest photocatalytic activity for the degradation of gaseous iso-propanol (IPA) and Rhodamine B (RhB) aqueous solution. The good photocatalytic activity of Sb4O5Cl2 sample prepared at pH = 2 may be caused by the synergistic effect of its higher light absorption, the decreased electron-transfer resistance, the suppressed recombination of photogenerated electrons and holes, and the increased surface area.
Nasal commensal Staphylococcus epidermidis counteracts influenza virus
Authors: Chen Hui-Wen , Liu Pei-Feng , Liu Yu-Tsueng , Kuo Sherwin , Zhang Xing-Quan , Schooley Robert T. , Rohde Holger , Gallo Richard L. , Huang Chun-Ming
Published: June 2016

Several microbes, including Staphylococcus epidermidis (S. epidermidis), a Gram-positive bacterium, live inside the human nasal cavity as commensals. The role of these nasal commensals in host innate immunity is largely unknown, although bacterial interference in the nasal microbiome may promote ecological competition between commensal bacteria and pathogenic species. We demonstrate here that S. epidermidis culture supernatants significantly suppressed the infectivity of various influenza viruses. Using high-performance liquid chromatography together with mass spectrometry, we identified a giant extracellular matrix-binding protein (Embp) as the major component involved in the anti-influenza effect of S. epidermidis. This anti-influenza activity was abrogated when Embp was mutated, confirming that Embp is essential for S. epidermidis activity against viral infection. We also showed that both S. epidermidis bacterial particles and Embp can directly bind to influenza virus. Furthermore, the injection of a recombinant Embp fragment containing a fibronectin-binding domain into embryonated eggs increased the survival rate of virus-infected chicken embryos. For an in vivo challenge study, prior Embp intranasal inoculation in chickens suppressed the viral titres and induced the expression of antiviral cytokines in the nasal tissues. These results suggest that S. epidermidis in the nasal cavity may serve as a defence mechanism against influenza virus infection.
58-F, a flavanone from Ophiopogon japonicus, prevents hepatocyte death by decreasing lysosomal membrane permeability
Authors: Yan Xiaofeng , Ye Tingjie , Hu Xudong , Zhao Pei , Wang Xiaoling
Published: June 2016

Lysosome membrane permeabilization (LMP) has been implicated in cell death. In the present study, we investigated the relationship between cell death and H2O2-/CCl4-induced LMP in hepatocytes in vitro and following acute liver injury in vivo. The key finding was that H2O2 triggered LMP by oxidative stress, as evidenced by a suppression of LAMP1 expression, a reduction in LysoTracker Green and AO staining and the leakage of proton and cathepsin B/D from the lysosome to the cytoplasm, resulting in cell death. CCl4 also triggered hepatocyte death by decreasing lysosome LAMP1 expression and by inducing the accumulation of products of peroxidative lipids and oxidized proteins. Furthermore, a novel compound 5,8-dimethoxy-6-methyl-7-hydroxy-3-3(2-hydroxy-4-methoxybenzyl) chroman-4-one (58-F) was extracted from Ophiopogon japonicus and served as a potential therapeutic drug. In vivo and in vitro results showed that 58-F effectively rescued hepatocytes by decreasing LMP and by inducing lysosomal enzyme translocation to the cytosol.
A relation to predict the failure of materials and potential application to volcanic eruptions and landslides
Authors: Hao Shengwang , Liu Chao , Lu Chunsheng , Elsworth Derek
Published: June 2016

A theoretical explanation of a time-to-failure relation is presented, with this relationship "Equation missing" then used to describe the failure of materials. This provides the potential to predict timing (tf − t) immediately before failure by extrapolating the trajectory "Equation missing" as it asymptotes to zero with no need to fit unknown exponents as previously proposed in critical power law behaviors. This generalized relation is verified by comparison with approaches to criticality for volcanic eruptions and creep failure. A new relation based on changes with stress is proposed as an alternative expression of Voight’s relation, which is widely used to describe the accelerating precursory signals before material failure and broadly applied to volcanic eruptions, landslides and other phenomena. The new generalized relation reduces to Voight’s relation if stress is limited to increase at a constant rate with time. This implies that the time-derivatives in Voight’s analysis may be a subset of a more general expression connecting stress derivatives, and thus provides a potential method for forecasting these events.
Association of Increased Serum Leptin with Ameliorated Anemia and Malnutrition in Stage 5 Chronic Kidney Disease Patients after Parathyroidectomy
Authors: Jiang Yao , Zhang Jingjing , Yuan Yanggang , Zha Xiaoming , Xing Changying , Shen Chong , Shen Zhixiang , Qin Chao , Zeng Ming , Yang Guang , Mao Huijuan , Zhang Bo , Yu Xiangbao , Sun Bin , Ouyang Chun , Xu Xueqiang , Ge Yifei , Wang Jing , Zhang Lina , Cheng Chen , Yin Caixia , Zhang Jing , Chen Huimin , Ma Haoyang , Wang Ningning
Published: June 2016

Leptin is an adipokine that regulates various metabolism, but its association with secondary hyperparathyroidism (SHPT), a clinical manifestation of chronic kidney disease-mineral and bone disorder (CKD-MBD), remains obscure. Parathyroidectomy (PTX) is recommended for severe SHPT patients. Here, the associations between circulating leptin and clinical characteristics in CKD patients were investigated. Effects of PTX on leptin production were analyzed in vivo and in vitro. Controls and CKD patients had approximate serum leptin levels in that a larger proportion of CKD patients with body mass index (BMI) <23 kg/m2. Serum leptin was related to anemia, albumin, and bone metabolism disorders in CKD patients. Lower intact parathyroid hormone (PTH) was related with higher leptin in PTX patients group. Severe SHPT inhibited uremia-enhanced leptin production in 3T3-L1 adipocytes, which was attenuated after PTX. High levels of PTH were found to reduce Akt phosphorylation and leptin production in vitro but high levels of calcium and phosphorus were not. Successful PTX was found to improve anemia and malnutrition in severe SHPT patients, and this was correlated with increased circulating leptin levels via up-regulated Akt signaling in adipocytes. These findings indicated the therapeutic potential of leptin and related target pathway for improving survival and quality of life in CKD.
Uncovering ancient transcription systems with a novel evolutionary indicator
Authors: Adachi Naruhiko , Senda Toshiya , Horikoshi Masami
Published: June 2016

TBP and TFIIB are evolutionarily conserved transcription initiation factors in archaea and eukaryotes. Information about their ancestral genes would be expected to provide insight into the origin of the RNA polymerase II-type transcription apparatus. In obtaining such information, the nucleotide sequences of current genes of both archaea and eukaryotes should be included in the analysis. However, the present methods of evolutionary analysis require that a subset of the genes should be excluded as an outer group. To overcome this limitation, we propose an innovative concept for evolutionary analysis that does not require an outer group. This approach utilizes the similarity in intramolecular direct repeats present in TBP and TFIIB as an evolutionary measure revealing the degree of similarity between the present offspring genes and their ancestors. Information on the properties of the ancestors and the order of emergence of TBP and TFIIB was also revealed. These findings imply that, for evolutionarily early transcription systems billions of years ago, interaction of RNA polymerase II with transcription initiation factors and the regulation of its enzymatic activity was required prior to the accurate positioning of the enzyme. Our approach provides a new way to discuss mechanistic and system evolution in a quantitative manner.
Monitoring tetracycline through a solid-state nanopore sensor
Authors: Zhang Yuechuan , Chen Yanling , Fu Yongqi , Ying Cuifeng , Feng Yanxiao , Huang Qimeng , Wang Chao , Pei De-Sheng , Wang Deqiang
Published: June 2016

Antibiotics as emerging environmental contaminants, are widely used in both human and veterinary medicines. A solid-state nanopore sensing method is reported in this article to detect Tetracycline, which is based on Tet-off and Tet-on systems. rtTA (reverse tetracycline-controlled trans-activator) and TRE (Tetracycline Responsive Element) could bind each other under the action of Tetracycline to form one complex. When the complex passes through nanopores with 8 ~ 9 nanometers in diameter, we could detect the concentrations of Tet from 2 ng/mL to 2000 ng/mL. According to the Logistic model, we could define three growth zones of Tetracycline for rtTA and TRE. The slow growth zone is 0–39.5 ng/mL. The rapid growth zone is 39.5−529.7 ng/mL. The saturated zone is > 529.7 ng/mL. Compared to the previous methods, the nanopore sensor could detect and quantify these different kinds of molecule at the single-molecule level.
Expression of AtMed15 of Arabidopsis in yeast causes flocculation and increases ethanol production in yeast culture
Authors: Dahiya Pradeep , Bhat Divya S. , Thakur Jitendra K.
Published: June 2016

Mediator, a multiprotein complex involved in transcription of class II genes, was first discovered in yeast and then characterized in many metazoans revealing a striking structural conservation of the complex. However, sequences of Mediator subunits are not well conserved raising a question on the functional conservation of these individual subunits. In this study, expression of Med15 of Arabidopsis (AtMed15) in gal11∆ yeast could not complement the function of ScGal11 in galactose metabolism and resistance against cycloheximide. Surprisingly, AtMed15 changed the morphology of the yeast cells. The cells adhered strongly on the surface of the agar media and showed robust flocculation in the liquid media without affecting the growth. The AtMed15-induced adhesion and flocculation were observed in different carbon sources. Calcium-assisted cell wall-bound mannan-binding proteins were found to be involved in this flocculation, which was unaffected by wide fluctuation of pH or temperatures revealing its constitutive robust nature. Expression of few flocculation related Flo genes was up-regulated in these cells. Interestingly, there was significant increase in ethanol production by the yeast expressing AtMed15. Robust and constitutive flocculation and increased ethanol production by yeast cells harbouring AtMed15 indicate an opportunity of its important usage in biotechnology industries.
Enhance nisin yield via improving acid-tolerant capability of Lactococcus lactis F44
Authors: Zhang Jian , Caiyin Qinggele , Feng Wenjing , Zhao Xiuli , Qiao Bin , Zhao Guangrong , Qiao Jianjun
Published: June 2016

Traditionally, nisin was produced industrially by using Lactococcus lactis in the neutral fermentation process. However, nisin showed higher activity in the acidic environment. How to balance the pH value for bacterial normal growth and nisin activity might be the key problem. In this study, 17 acid-tolerant genes and 6 lactic acid synthetic genes were introduced in L. lactis F44, respectively. Comparing to the 2810 IU/mL nisin yield of the original strain F44, the nisin titer of the engineered strains over-expressing hdeAB, ldh and murG, increased to 3850, 3979 and 4377 IU/mL, respectively. These engineered strains showed more stable intracellular pH value during the fermentation process. Improvement of lactate production could partly provide the extra energy for the expression of acid tolerance genes during growth. Co-overexpression of hdeAB, murG and ldh(Z) in strain F44 resulted in the nisin titer of 4913 IU/mL. The engineered strain (ABGL) could grow on plates with pH 4.2, comparing to the surviving pH 4.6 of strain F44. The fed-batch fermentation showed nisin titer of the co-expression L. lactis strain could reach 5563 IU/mL with lower pH condition and longer cultivation time. This work provides a novel strategy of constructing robust strains for use in industry process.
The feeding habit of sea turtles influences their reaction to artificial marine debris
Authors: Fukuoka Takuya , Yamane Misaki , Kinoshita Chihiro , Narazaki Tomoko , Marshall Greg J. , Abernathy Kyler J. , Miyazaki Nobuyuki , Sato Katsufumi
Published: June 2016

Ingestion of artificial debris is considered as a significant stress for wildlife including sea turtles. To investigate how turtles react to artificial debris under natural conditions, we deployed animal-borne video cameras on loggerhead and green turtles in addition to feces and gut contents analyses from 2007 to 2015. Frequency of occurrences of artificial debris in feces and gut contents collected from loggerhead turtles were 35.7% (10/28) and 84.6% (11/13), respectively. Artificial debris appeared in all green turtles in feces (25/25) and gut contents (10/10), and green turtles ingested more debris (feces; 15.8 ± 33.4 g, gut; 39.8 ± 51.2 g) than loggerhead turtles (feces; 1.6 ± 3.7 g, gut; 9.7 ± 15.0 g). In the video records (60 and 52.5 hours from 10 loggerhead and 6 green turtles, respectively), turtles encountered 46 artificial debris and ingested 23 of them. The encounter-ingestion ratio of artificial debris in green turtles (61.8%) was significantly higher than that in loggerhead turtles (16.7%). Loggerhead turtles frequently fed on gelatinous prey (78/84), however, green turtles mainly fed marine algae (156/210), and partly consumed gelatinous prey (10/210). Turtles seemed to confuse solo drifting debris with their diet, and omnivorous green turtles were more attracted by artificial debris.
Scoparone affects lipid metabolism in primary hepatocytes using lipidomics
Authors: Zhang Aihua , Qiu Shi , Sun Hui , Zhang Tianlei , Guan Yu , Han Ying , Yan Guangli , Wang Xijun
Published: June 2016

Lipidomics, which focuses on the global study of molecular lipids in biological systems, could provide valuable insights about disease mechanisms. In this study, we present a nontargeted lipidomics strategy to determine cellular lipid alterations after scoparone exposure in primary hepatocytes. Lipid metabolic profiles were analyzed by high-performance liquid chromatography coupled with time-of-flight mass spectrometry, and a novel imaging TransOmics tool has been developed for the analysis of high-resolution MS data, including the data pretreatment, visualization, automated identification, deconvolution and quantification of lipid species. Chemometric and statistical analyses of the obtained lipid fingerprints revealed the global lipidomic alterations and tested the therapeutic effects of scoparone. Identification of ten proposed lipids contributed to the better understanding of the effects of scoparone on lipid metabolism in hepatocytes. The most striking finding was that scoparone caused comprehensive lipid changes, as represented by significant changes of the identificated lipids. The levels of identified PG(19:1(9Z)/14:0), PE(17:1(9Z)/0:0), PE(19:1(9Z)/0:0) were found to be upregulated in ethanol-induced group, whereas the levels in scoparone group were downregulated. Lipid metabolism in primary hepatocytes was changed significantly by scoparone treatment. We believe that this novel approach could substantially broaden the applications of high mass resolution mass spectrometry for cellular lipidomics.
Genetic structure of Populus hybrid zone along the Irtysh River provides insight into plastid-nuclear incompatibility
Authors: Zeng Yan-Fei , Zhang Jian-Guo , Duan Ai-Guo , Abuduhamiti Bawerjan
Published: June 2016

In plants, the maintenance of species integrity despite hybridization has often been explained by the co-adaption of nuclear gene complexes. However, the interaction between plastid and nuclear sub-genomes has been underestimated. Here, we analyzed the genetic structure of aPopulus albaandP. tremulahybrid zone along the Irtysh River system in the Altai region, northwest China, using both nuclear microsatellites and plastid DNA sequences. We found high interspecific differentiation, although the hybridP. × canescenswas prevalent. Bayesian inference classified most hybrids into F1, followed by a few back-crosses toP. albaand fewer F2 hybrids and back-crosses toP. tremula, indicating a few introgressions but preference towardP. alba. When plastid haplotypes in parental species were distinct,P. × canescenscarried the haplotypes of both parents, but showed significant linkage between intraspecific haplotype and nuclear genotypes at several microsatellite loci. Selection, rather than migration and assortative mating, might have contributed to such plastid-nuclear disequilibria. By removing later-generated hybrids carrying interspecific combinations of haplotype and nuclear genotypes, plastid-nuclear incompatibility has greatly limited the gene exchange betweenP. albaandP. tremula viabackcrossing with hybrids, demonstrating a significant association between plastid haplotype and the proportion of nuclear admixture.
Exercise in an electrotactic flow chamber ameliorates age-related degeneration in Caenorhabditis elegans
Authors: Chuang Han-Sheng , Kuo Wan-Jung , Lee Chia-Lin , Chu I-Hua , Chen Chang-Shi
Published: June 2016

Degeneration is a senescence process that occurs in all living organisms. Although tremendous efforts have been exerted to alleviate this degenerative tendency, minimal progress has been achieved to date. The nematode, Caenorhabditis elegans (C. elegans), which shares over 60% genetic similarities with humans, is a model animal that is commonly used in studies on genetics, neuroscience and molecular gerontology. However, studying the effect of exercise on C. elegans is difficult because of its small size unlike larger animals. To this end, we fabricated a flow chamber, called “worm treadmill,” to drive worms to exercise through swimming. In the device, the worms were oriented by electrotaxis on demand. After the exercise treatment, the lifespan, lipofuscin, reproductive capacity and locomotive power of the worms were analyzed. The wild-type and the Alzheimer’s disease model strains were utilized in the assessment. Although degeneration remained irreversible, both exercise-treated strains indicated an improved tendency compared with their control counterparts. Furthermore, low oxidative stress and lipofuscin accumulation were also observed among the exercise-treated worms. We conjecture that escalated antioxidant enzymes imparted the worms with an extra capacity to scavenge excessive oxidative stress from their bodies, which alleviated the adverse effects of degeneration. Our study highlights the significance of exercise in degeneration from the perspective of the simple life form, C. elegans.
Magneto-optical plasmonic heterostructure with ultranarrow resonance for sensing applications
Authors: Ignatyeva Daria O. , Knyazev Grigory A. , Kapralov Pavel O. , Dietler Giovanni , Sekatskii Sergey K. , Belotelov Vladimir I.
Published: June 2016

Currently, sensors invade into our everyday life to bring higher life standards, excellent medical diagnostic and efficient security. Plasmonic biosensors demonstrate an outstanding performance ranking themselves among best candidates for different applications. However, their sensitivity is still limited that prevents further expansion. Here we present a novel concept of magnetoplasmonic sensor with ultranarrow resonances and high sensitivity. Our approach is based on the combination of a specially designed one-dimensional photonic crystal and a ferromagnetic layer to realize ultralong-range propagating magnetoplasmons and to detect alteration of the environment refractive index via observation of the modifications in the Transversal Magnetooptical Kerr Effect spectrum. The fabrication of such a structure is relatively easy in comparison with e.g. nanopatterned samples. The fabricated heterostructure shows extremely sharp (angular width of 0.06°) surface plasmon resonance and even sharper magnetoplasmonic resonance (angular width is 0.02°). It corresponds to the propagation length as large as 106 μm which is record for magnetoplasmons and promising for magneto-optical interferometry and plasmonic circuitry as well as magnetic field sensing. The magnitude of the Kerr effect of 11% is achieved which allows for detection limit of 1∙10−6. The prospects of further increase of the sensitivity of this approach are discussed.
Systems pharmacology to investigate the interaction of berberine and other drugs in treating polycystic ovary syndrome
Authors: Wang Yu , Fu Xin , Xu Jing , Wang Qiuhong , Kuang Haixue
Published: June 2016

Polycystic ovary syndrome (PCOS) is a common multifactorial endocrine disorder among women of childbearing age. PCOS has various and heterogeneous clinical features apart from its indefinite pathogenesis and mechanism. Clinical drugs for PCOS are multifarious because it only treats separate symptoms. Berberine is an isoquinoline plant alkaloid with numerous biological activities, and it was testified to improve some diseases related to PCOS in animal models and in humans. Systems pharmacology was utilized to predict the potential targets of berberine related to PCOS and the potential drug-drug interaction base on the disease network. In conclusion, berberine is a promising polypharmacological drug for treating PCOS, and for enhancing the efficacy of clinical drugs.
Profiling of differentially expressed microRNAs in arrhythmogenic right ventricular cardiomyopathy
Authors: Zhang Hongliang , Liu Shenghua , Dong Tianwei , Yang Jun , Xie Yuanyuan , Wu Yike , Kang Kang , Hu Shengshou , Gou Deming , Wei Yingjie
Published: June 2016

Arrhythmogenic right ventricular cardiomyopathy (ARVC) is a kind of primary cardiomyopathy characterized by the fibro-fatty replacement of right ventricular myocardium. Currently, myocardial microRNAs have been reported to play critical role in the pathophysiology of cardiovascular pathophysiology. So far, the profiling of microRNAs in ARVC has not been described. In this study, we applied S-Poly (T) Plus method to investigate the expression profile of microRNAs in 24 ARVC patients heart samples. The tissue levels of 1078 human microRNAs were assessed and were compared with levels in a group of 24 healthy controls. Analysis of the area under the receiver operating characteristic curve (ROC) supported the 21 validated microRNAs to be miRNA signatures of ARVC, eleven microRNAs were significantly increased in ARVC heart tissues and ten microRNAs were significantly decreased. After functional enrichment analysis, miR-21-5p and miR-135b were correlated with Wnt and Hippo pathway, which might involve in the molecular pathophysiology of ARVC. Overall, our data suggested that myocardial microRNAs were involved in the pathophysiology of ARVC, miR-21-5p and miR-135b were significantly associated with both the myocardium adipose and fibrosis, which was a potential disease pathway for ARVC and might to be useful as therapeutic targets for ARVC.
Suppressing male spermatogenesis-associated protein 5-like gene expression reduces vitellogenin gene expression and fecundity in Nilaparvata lugens Stål
Authors: Ge Lin-Quan , Xia Ting , Huang Bo , Song Qi-Sheng , Zhang Hong-Wei , Stanley David , Yang Guo-Qing , Wu Jin-Cai
Published: June 2016

In our previous study with the brown planthopper (BPH), Nilaparvata lugens, triazophos (tzp) treatments led to substantial up-regulation of a male spermatogenesis-associated protein 5-like gene (NlSPATA5) compared to untreated controls. Mating with tzp-treated males significantly increased fecundity (as numbers of eggs laid), relative to females mated with untreated males. Because SPATA5 acts in mammalian sperm development and is expressed in testes, we posed the hypothesis that NlSPATA5 occurs in BPH seminal fluid and it operates in fecundity via mating. We tested the hypothesis by investigating the influence of suppressing NlSPATA5 expression in BPH males on fecundity. Reduced expression of NlSPATA5 led to decreased male accessory gland protein content and reproductive system development compared to controls. These changes in males led to prolonged pre-oviposition periods and decreased fecundity in females. For both genders, we recorded no difference in the body weight, oviposition periods, and longevity compared to controls. NlSPATA5 suppression in males also led to decreased fat body and ovarian protein content, yeast-like symbionts abundance and ovarian development as well as vitellogenin gene expression in their mating partners. We infer that increased NlSPATA5 expression may be one molecular mechanism of tzp-driven reproduction and population increases in BPH.
Male-biased sex ratio does not promote increased sperm competitiveness in the seed beetle, Callosobruchus maculatus
Authors: McNamara Kathryn B. , Robinson Stephen P. , Rosa Márta E. , Sloan Nadia S. , van Lieshout Emile , Simmons Leigh W.
Published: June 2016

Sperm competition risk and intensity can select for adaptations that increase male fertilisation success. Evolutionary responses are examined typically by generating increased strength of sexual selection via direct manipulation of female mating rates (by enforcing monandry or polyandry) or by alteration of adult sex ratios. Despite being a model species for sexual selection research, the effect of sexual selection intensity via adult sex-ratio manipulation on male investment strategies has not been investigated in the seed beetle, Callosobruchus maculatus. We imposed 32 generations of experimental evolution on 10 populations of beetles by manipulating adult sex ratio. Contrary to predictions, males evolving in male-biased populations did not increase their testes and accessory gland size. This absence of divergence in ejaculate investment was also reflected in the fact that males from male-biased populations were not more successful in either preventing females from remating, or in competing directly for fertilisations. These populations already demonstrate divergence in mating behaviour and immunity, suggesting sufficient generations have passed to allow divergence in physiological and behavioural traits. We propose several explanations for the absence of divergence in sperm competitiveness among our populations and the pitfalls of using sex ratio manipulation to assess evolutionary responses to sexual selection intensity.
Shape and size constraints on dust optical properties from the Dome C ice core, Antarctica
Authors: Potenza M. A. C. , Albani S. , Delmonte B. , Villa S. , Sanvito T. , Paroli B. , Pullia A. , Baccolo G. , Mahowald N. , Maggi V.
Published: June 2016

Mineral dust aerosol (dust) is widely recognized as a fundamental component of the climate system and is closely coupled with glacial-interglacial climate oscillations of the Quaternary period. However, the direct impact of dust on the energy balance of the Earth system remains poorly quantified, mainly because of uncertainties in dust radiative properties, which vary greatly over space and time. Here we provide the first direct measurements of the aerosol optical thickness of dust particles windblown to central East Antarctica (Dome C) during the last glacial maximum (LGM) and the Holocene. By applying the Single Particle Extinction and Scattering (SPES) technique and imposing preferential orientation to particles, we derive information on shape from samples of a few thousands of particles. These results highlight that clear shape variations occurring within a few years are hidden to routine measurement techniques. With this novel measurement method the optical properties of airborne dust can be directly measured from ice core samples and can be used as input into climate model simulations. Based on simulations with an Earth System Model we suggest an effect of particle non-sphericity on dust aerosol optical depth (AOD) of about 30% compared to spheres and differences in the order of ~10% when considering different combinations of particles shapes.
Environmental enrichment induces behavioural disturbances in neuropeptide Y knockout mice
Authors: Reichmann Florian , Wegerer Vanessa , Jain Piyush , Mayerhofer Raphaela , Hassan Ahmed M. , Fröhlich Esther E. , Bock Elisabeth , Pritz Elisabeth , Herzog Herbert , Holzer Peter , Leitinger Gerd
Published: June 2016

Environmental enrichment (EE) refers to the provision of a complex and stimulating housing condition which improves well-being, behaviour and brain function of laboratory animals. The mechanisms behind these beneficial effects of EE are only partially understood. In the current report, we describe a link between EE and neuropeptide Y (NPY), based on findings from NPY knockout (KO) mice exposed to EE. Relative to EE-housed wildtype (WT) animals, NPY KO mice displayed altered behaviour as well as molecular and morphological changes in amygdala and hippocampus. Exposure of WT mice to EE reduced anxiety and decreased central glucocorticoid receptor expression, effects which were absent in NPY KO mice. In addition, NPY deletion altered the preference of EE items and EE-housed NPY KO mice responded to stress with exaggerated hyperthermia, displayed impaired spatial memory, had higher hippocampal brain-derived neurotrophic factor mRNA levels and altered hippocampal synaptic plasticity, effects which were not seen in WT mice. Accordingly, these findings suggest that NPY contributes to the anxiolytic effect of EE and that NPY deletion reverses the beneficial effects of EE into a negative experience. The NPY system could thus be a target for “enviromimetics”, therapeutics which reproduce the beneficial effects of enhanced environmental stimulation.