bluuebunny/crossref_metadata_2025_split huggingface dataset:
REV-ERBα integrates colon clock with experimental colitis through regulation of NF-κB/NLRP3 axis
Authors: Wang Shuai , Lin Yanke , Yuan Xue , Li Feng , Guo Lianxia , Wu Baojian 
Published: October 2018

AbstractThe roles of Rev-erbα and circadian clock in colonic inflammation remain unclarified. Here we show colon clock genes (including Rev-erbα) are dysregulated in mice with DSS-induced colitis. In turn, disruption of the circadian clock exacerbates experimental colitis. Rev-erbα-deficient mice are more sensitive to DSS-induced colitis, supporting a critical role of Rev-erbα in disease development. Further, Rev-erbα ablation causes activation of Nlrp3 inflammasome in mice. Cell-based experiments reveal Rev-erbα inactivates Nlrp3 inflammasome mainly at the priming stage. Rev-erbα directly represses Nlrp3 transcription through specific binding to the promoter region. Additionally, Rev-erbα represses p65 transcription and indirectly repressed Nlrp3 via the NF-κB pathway. Interestingly, Rev-erbα activation in wild-type mice by SR9009 attenuates DSS-induced colitis, whereas the protective effects are lost in Nlrp3−/− and Rev-erbα−/− mice. Taken together, Rev-erbα regulates experimental colitis through its repressive action on the NF-κB/Nlrp3 axis. Targeting Rev-erbα may represent a promising approach for prevention and management of colitis.
A conserved HH-Gli1-Mycn network regulates heart regeneration from newt to human
Authors: Singh Bhairab N. , Koyano-Nakagawa Naoko , Gong Wuming , Moskowitz Ivan P. , Weaver Cyprian V. , Braunlin Elizabeth , Das Satyabrata , van Berlo Jop H. , Garry Mary G. , Garry Daniel J. 
Published: October 2018

AbstractThe mammalian heart has a limited regenerative capacity and typically progresses to heart failure following injury. Here, we defined a hedgehog (HH)-Gli1-Mycn network for cardiomyocyte proliferation and heart regeneration from amphibians to mammals. Using a genome-wide screen, we verified that HH signaling was essential for heart regeneration in the injured newt. Next, pharmacological and genetic loss- and gain-of-function of HH signaling demonstrated the essential requirement for HH signaling in the neonatal, adolescent, and adult mouse heart regeneration, and in the proliferation of hiPSC-derived cardiomyocytes. Fate-mapping and molecular biological studies revealed that HH signaling, via a HH-Gli1-Mycn network, contributed to heart regeneration by inducing proliferation of pre-existing cardiomyocytes and not by de novo cardiomyogenesis. Further, Mycn mRNA transfection experiments recapitulated the effects of HH signaling and promoted adult cardiomyocyte proliferation. These studies defined an evolutionarily conserved function of HH signaling that may serve as a platform for human regenerative therapies.
Enhanced climate instability in the North Atlantic and southern Europe during the Last Interglacial
Authors: Tzedakis P. C. , Drysdale R. N. , Margari V. , Skinner L. C. , Menviel L. , Rhodes R. H. , Taschetto A. S. , Hodell D. A. , Crowhurst S. J. , Hellstrom J. C. , Fallick A. E. , Grimalt J. O. , McManus J. F. , Martrat B. , Mokeddem Z. , Parrenin F. , Regattieri E. , Roe K. , Zanchetta G. 
Published: October 2018

AbstractConsiderable ambiguity remains over the extent and nature of millennial/centennial-scale climate instability during the Last Interglacial (LIG). Here we analyse marine and terrestrial proxies from a deep-sea sediment sequence on the Portuguese Margin and combine results with an intensively dated Italian speleothem record and climate-model experiments. The strongest expression of climate variability occurred during the transitions into and out of the LIG. Our records also document a series of multi-centennial intra-interglacial arid events in southern Europe, coherent with cold water-mass expansions in the North Atlantic. The spatial and temporal fingerprints of these changes indicate a reorganization of ocean surface circulation, consistent with low-intensity disruptions of the Atlantic meridional overturning circulation (AMOC). The amplitude of this LIG variability is greater than that observed in Holocene records. Episodic Greenland ice melt and runoff as a result of excess warmth may have contributed to AMOC weakening and increased climate instability throughout the LIG.
Influence of Tibetan Plateau snow cover on East Asian atmospheric circulation at medium-range time scales
Authors: Li Wenkai , Guo Weidong , Qiu Bo , Xue Yongkang , Hsu Pang-Chi , Wei Jiangfeng 
Published: October 2018

AbstractThe responses of atmospheric variability to Tibetan Plateau (TP) snow cover (TPSC) at seasonal, interannual and decadal time scales have been extensively investigated. However, the atmospheric response to faster subseasonal variability of TPSC has been largely ignored. Here, we show that the subseasonal variability of TPSC, as revealed by daily data, is closely related to the subsequent East Asian atmospheric circulation at medium-range time scales (approximately 3–8 days later) during wintertime. TPSC acts as an elevated cooling source in the middle troposphere during wintertime and rapidly modulates the land surface thermal conditions over the TP. When TPSC is high, the upper-level geopotential height is lower, and the East Asia upper-level westerly jet stream is stronger. This finding improves our understanding of the influence of TPSC at multiple time scales. Furthermore, our work highlights the need to understand how atmospheric variability is rapidly modulated by fast snow cover changes.
Fine-tuning the efficiency of para-hydrogen-induced hyperpolarization by rational N-heterocyclic carbene design
Authors: Rayner Peter J. , Norcott Philip , Appleby Kate M. , Iali Wissam , John Richard O. , Hart Sam J. , Whitwood Adrian C. , Duckett Simon B. 
Published: October 2018

AbstractIridium N-heterocyclic carbene (NHC) complexes catalyse the para-hydrogen-induced hyperpolarization process, Signal Amplification by Reversible Exchange (SABRE). This process transfers the latent magnetism of para-hydrogen into a substrate, without changing its chemical identity, to dramatically improve its nuclear magnetic resonance (NMR) detectability. By synthesizing and examining over 30 NHC containing complexes, here we rationalize the key characteristics of efficient SABRE catalysis prior to using appropriate catalyst-substrate combinations to quantify the substrate’s NMR detectability. These optimizations deliver polarizations of 63% for 1H nuclei in methyl 4,6-d2-nicotinate, 25% for 13C nuclei in a 13C2-diphenylpyridazine and 43% for the 15N nucleus of pyridine-15N. These high detectability levels compare favourably with the 0.0005% 1H value harnessed by a routine 1.5 T clinical MRI system. As signal strength scales with the square of the number of observations, these low cost innovations offer remarkable improvements in detectability threshold that offer routes to significantly reduce measurement time.
Regional adiposity and markers of inflammation in pre-school age children
Authors: Delaney Kerri Z. , Vanstone Catherine A. , Weiler Hope A. , Santosa Sylvia 
Published: October 2018

AbstractIn adults, upper body fat partially increases metabolic disease risk through increasing systemic inflammation. Our objective was to determine if this relationship exists in preschool-aged children. A subset of children (n = 71, 35 males), 3.7 ± 1.0 y, were studied from n = 515 children recruited from randomly selected daycares in Montréal, QC. According to WHO charts for 2–5 y, 49 children were healthy weight (HW) and 21 were overweight (OW). Adiposity was determined through dual-energy x-ray absorptiometry. Blood concentrations of C-reactive protein (CRP) and tumour necrosis factor alpha (TNFα) were determined via enzyme-linked immunosorbent and multiplex assays, respectively. OW children had higher (p = 0.03) android:gynoid ratio 0.50 ± 0.09 compared to HW children 0.56 ± 0.12, indicating excess fat was predominantly stored in the abdominal depot. CRP was higher (p = 0.01) in OW children 1.45 ± 2.02 mg/L compared to HW 0.74 ± 1.38 mg/L. Percent fat was correlated with CRP (r = 0.32; p < 0.01) and TNFα (r = 0.25; p = 0.04) concentrations. CRP also correlated with android adiposity (r = 0.24; p = 0.04) and TNFα correlated with gynoid adiposity (r = 0.24; p = 0.04). We observed that greater adiposity is associated with higher systemic inflammation in pre-school aged children. Future longitudinal studies are needed to understand the long term consequences of excess total and regional body fat in young children.
MicroRNA binding mediated Functional sequence variant in 3′-UTR of DNA repair Gene XPC in Age-related Cataract
Authors: Zou Xi , Kang Lihua , Yang Mei , Wu Jian , Guan Huaijin 
Published: October 2018

AbstractDNA oxidative damage repair is strongly involved in the pathogenesis of age-related cataract (ARC). The sequence variants of in coding region of DNA repair genes have been shown to be associated with ARC. It is known that single nucleotide polymorphisms (SNPs) in the 3′-terminal untranslated region (3′-UTR) can alter the gene expression by binding with microRNAs (miRNAs). We hypothesize that SNP(s) in miRNA binding site of certain DNA oxidative damage repair genes might associate with ARC risk. We examined 10 miRNA binding SNPs in 3′-UTR of 7 oxidative damage genes and revealed the XPC- rs2229090 C allele was associated with nuclear type of ARC (ARNC) risk in Chinese population. The individuals with the variant G allele (CG and GG) of XPC- rs2229090 had higher XPC mRNA expression compared to individuals carrying CC genotype. The in vitro assay showed that luciferase reporter gene expression can be down regulated by hsa-miR-589-5p in cells transfected with rs2229090 C allele compared to G allele. These results suggested that the C allele of XPC-2229090 increase the risk with ARNC. The mechanism underlying might be due to the stronger interation of the C allele with hsa-miR-589-5p, resulting in lower XPC expression and DNA repair capability than the individuals carring G allele in lens.
Fundamental Understanding of Cellular Water Transport Process in Bio-Food Material during Drying
Authors: Khan Md. Imran H. , Farrell Troy , Nagy S. A. , Karim M. A. 
Published: October 2018

AbstractBio-food materials are heterogeneous in structure with cellular diversity, where the majority of the water is located in the intracellular spaces. Understanding of the nature of the microscopic behaviour of water transport is crucial to enhance the energy efficiency in food processing and obtain the better quality of processed food. In this research, apoplastic and symplastic transport of cellular water in the bio-food material during drying was investigated using 1H-NMR-T2 relaxometry. We found that intracellular water (ICW) migrates from intracellular spaces to the intercellular spaces by progressive rupturing the cell membranes while drying at a higher temperatures (60 °C–70 °C). In this case, apoplastic process dominates the transport process. However, at lower temperature (45 °C), cell membranes do not rupture and therefore ICW migrates from cell to the neighbouring cell through micro-capillaries, where the symplastic process dominates the mass transfer at different stages of drying.
Endocrine therapy-resistant breast cancer model cells are inhibited by soybean glyceollin I through Eleanor non-coding RNA
Authors: Yamamoto Tatsuro , Sakamoto Chiyomi , Tachiwana Hiroaki , Kumabe Mitsuru , Matsui Toshiro , Yamashita Tadatoshi , Shinagawa Masatoshi , Ochiai Koji , Saitoh Noriko , Nakao Mitsuyoshi 
Published: October 2018

AbstractLong-term estrogen deprivation (LTED) of an estrogen receptor (ER) α-positive breast cancer cell line recapitulates cancer cells that have acquired estrogen-independent cell proliferation and endocrine therapy resistance. Previously, we have shown that a cluster of non-coding RNAs, Eleanors (ESR1 locus enhancing and activating non-coding RNAs) formed RNA cloud and upregulated the ESR1 gene in the nuclei of LTED cells. Eleanors were inhibited by resveratrol through ER. Here we prepared another polyphenol, glyceollin I from stressed soybeans, and identified it as a major inhibitor of the Eleanor RNA cloud and ESR1 mRNA transcription. The inhibition was independent of ER, unlike one by resveratrol. This was consistent with a distinct tertiary structure of glyceollin I for ER binding. Glyceollin I preferentially inhibited the growth of LTED cells and induced apoptosis. Our results suggest that glyceollin I has a novel role in LTED cell inhibition through Eleanors. In other words, LTED cells or endocrine therapy-resistant breast cancer cells may be ready for apoptosis, which can be triggered with polyphenols both in ER-dependent and ER-independent manners.
High-ranking alleviates male local competition in lek mating systems
Authors: Giavazzi Fabio , Saino Nicola , Vailati Alberto 
Published: October 2018

AbstractTerritoriality entails demanding social interactions with competing individuals, typically males. Variation in quality of males can be predicted to affect the spatial arrangement of territories. We present a model aimed at understanding the spatial properties of territories on leks, where the presence of a hierarchy in a population of males leads to the clustering of individuals around high-ranking ‘hotshot’ males. The hierarchy results in a decrease in the number of nearest neighbors interacting directly with high-ranking males, with potential socio-sexual benefits for such males.
Lipid-dependent deposition of alpha-synuclein and Tau on neuronal Secretogranin II-positive vesicular membranes with age
Authors: Brekk Oeystein R. , Moskites Alyssa , Isacson Ole , Hallett Penelope J. 
Published: October 2018

AbstractThis report demonstrates insoluble alpha-synuclein (aSYN)+ aggregates in human sporadic Parkinson’s disease (PD) midbrain that are linearly correlated with loss of glucocerebrosidase (GCase) activity. To identify early protein-lipid interactions that coincide with loss of lipid homeostasis, an aging study was carried out in mice with age-dependent reductions in GCase function. The analysis identified aberrant lipid-association by aSYN and hyperphosphorylated Tau (pTau) in a specific subset of neurotransmitter-containing, Secretogranin II (SgII)+ large, dense-core vesicles (LDCVs) responsible for neurotransmission of dopamine and other monoamines. The lipid vesicle-accumulation was concurrent with loss of PSD-95 suggesting synaptic destabilization. aSYN overexpression in the absence of lipid deregulation did not recapitulate the abnormal association with SgII+ vesicles. These results show lipid-dependent changes occur with age in neuronal vesicular membrane compartments that accumulate lipid-stabilized aSYN and pTau.
Discovering Genetic Factors for psoriasis through exhaustively searching for significant second order SNP-SNP interactions
Authors: Lee Kwan-Yeung , Leung Kwong-Sak , Tang Nelson L. S. , Wong Man-Hon 
Published: October 2018

AbstractIn this paper, we aim at discovering genetic factors of psoriasis through searching for statistically significant SNP-SNP interactions exhaustively from two real psoriasis genome-wide association study datasets (phs000019.v1.p1 and phs000982.v1.p1) downloaded from the database of Genotypes and Phenotypes. To deal with the enormous search space, our search algorithm is accelerated with eight biological plausible interaction patterns and a pre-computed look-up table. After our search, we have discovered several SNPs having a stronger association to psoriasis when they are in combination with another SNP and these combinations may be non-linear interactions. Among the top 20 SNP-SNP interactions being found in terms of pairwise p-value and improvement metric value, we have discovered 27 novel potential psoriasis-associated SNPs where most of them are reported to be eQTLs of a number of known psoriasis-associated genes. On the other hand, we have inferred a gene network after selecting the top 10000 SNP-SNP interactions in terms of improvement metric value and we have discovered a novel long distance interaction between XXbac-BPG154L12.4 and RNU6-283P which is not a long distance haplotype and may be a new discovery. Finally, our experiments with the synthetic datasets have shown that our pre-computed look-up table technique can significantly speed up the search process.
Daily HIV pre-exposure prophylaxis (PrEP) with tenofovir disoproxil fumarate-emtricitabine reduced Streptococcus and increased Erysipelotrichaceae in rectal microbiota
Authors: Dubé Michael P. , Park Sung Yong , Ross Heather , Love Tanzy M. T. , Morris Sheldon R. , Lee Ha Youn 
Published: October 2018

AbstractDaily PrEP is highly effective at preventing HIV-1 acquisition, but risks of long-term tenofovir disoproxil fumarate plus emtricitabine (TDF-FTC) include renal decline and bone mineral density decrease in addition to initial gastrointestinal side effects. We investigated the impact of TDF-FTC on the enteric microbiome using rectal swabs collected from healthy MSM before PrEP initiation and after 48 to 72 weeks of adherent PrEP use. The V4 region of the 16S ribosomal RNA gene sequencing showed that Streptococcus was significantly reduced from 12.0% to 1.2% (p = 0.036) and Erysipelotrichaceae family was significantly increased from 0.79% to 3.3% (p = 0.028) after 48–72 weeks of daily PrEP. Catenibacterium mitsuokai, Holdemanella biformis and Turicibacter sanguinis were increased within the Erysipelotrichaceae family and Streptococcus agalactiae, Streptococcus oralis, Streptococcus mitis were reduced. These changes were not associated with host factors including PrEP duration, age, race, tenofovir diphosphate blood level, any drug use and drug abuse, suggesting that the observed microbiome shifts were likely induced by daily PrEP use. Long-term PrEP resulted in increases of Catenibacterium mitsuokai and Holdemanella biformis, which have been associated with gut microbiome dysbiosis. Our observations can aid in characterizing PrEP’s side effects, which is likely to improve PrEP adherence, and thus HIV-1 prevention.
Comparative transcriptomic analysis reveals common molecular factors responsive to heat and drought stress in Agrostis stolonifera
Authors: Xu Yi , Huang Bingru 
Published: October 2018

AbstractHeat and drought stress are primary abiotic stresses confining growth of cool-season grass species during summer. The objective of this study was to identify common molecular factors and metabolic pathways associated with heat and drought responses in creeping bentgrass (Agrostis stolonifera) by comparative analysis of transcriptomic profiles between plants exposed to heat and drought stress. Plants were exposed to heat stress (35/30 °C day/night temperature) or drought stress by withholding irrigation for 21 d in growth chambers. Transcriptomic profiling by RNA-seq in A. stolonifera (cv. ‘Penncross’) found 670 commonly up-regulated and 812 commonly down-regulated genes by heat and drought stress. Transcriptional up-regulations of differentially expressed genes (DEGs) due to heat and drought stress include genes that were highly enriched in oxylipin biosynthetic process and proline biosynthetic process. Transcriptional down-regulations of genes under heat and drought stress were highly enriched and involved in thiamine metabolic process and calcium sensing receptor. These commonly-regulated genes by heat and drought stress identified in A. stolonifera suggested that drought and heat responses shared such common molecular factors and pathways, which could be potential candidate genes for genetic modification of improving plant tolerance to the combined heat and drought stress.
Genetic interactions between ABA signalling and the Arg/N-end rule pathway during Arabidopsis seedling establishment
Authors: Zhang Hongtao , Gannon Lucy , Jones Peter D. , Rundle Chelsea A. , Hassall Kirsty L. , Gibbs Daniel J. , Holdsworth Michael J. , Theodoulou Frederica L. 
Published: October 2018

AbstractThe Arg/N-end rule pathway of ubiquitin-mediated proteolysis has multiple functions throughout plant development, notably in the transition from dormant seed to photoautotrophic seedling. PROTEOLYSIS6 (PRT6), an N-recognin E3 ligase of the Arg/N-end rule regulates the degradation of transcription factor substrates belonging to Group VII of the Ethylene Response Factor superfamily (ERFVIIs). It is not known whether ERFVIIs are associated with all known functions of the Arg/N-end rule, and the downstream pathways influenced by ERFVIIs are not fully defined. Here, we examined the relationship between PRT6 function, ERFVIIs and ABA signalling in Arabidopsis seedling establishment. Physiological analysis of seedlings revealed that N-end rule-regulated stabilisation of three of the five ERFVIIs,RAP2.12,RAP2.2andRAP2.3, controls sugar sensitivity of seedling establishment and oil body breakdown following germination. ABA signalling componentsABA INSENSITIVE(ABI)4as well asABI3andABI5 were found to enhance ABA sensitivity of germination and sugar sensitivity of establishment in a background containing stabilised ERFVIIs. However, N-end rule regulation of oil bodies was not dependent on canonical ABA signalling. We propose that the N-end rule serves to control multiple aspects of the seed to seedling transition by regulation of ERFVII activity, involving both ABA-dependent and independent signalling pathways.
Micro Fabry-Pérot Interferometer at Rayleigh Range
Authors: Tsujiie Yusuke , Kawamura Yoshiyuki 
Published: October 2018

AbstractThe Fabry-Pérot interferometer is used in a variety of high-precision optical interferometry applications, such as gravitational wave detection. It is also used in various types of laser resonators to act as a narrow band filter. In addition, ultra-compact Fabry-Pérot interferometers are used in the optical resonators of semiconductor lasers and fiber-optic systems. In this work, we developed a micro-scale Fabry-Pérot interferometer that was constructed within the Rayleigh range of the optical focusing system. The high precision that is conventionally required for the optical parallelism and the surface accuracy of the mirrors was not so critical for this type of Fabry-Pérot interferometer. The interferometer was constructed using a gold-coated silicon microcantilever with reflectivity of 92% and a dielectric multilayer flat mirror with reflectivity of 85%. The focal spot size of the laser beam is 20 μm and the cavity length is approximately 20 μm. The finesse was measured to be approximately 25. The interferometric characteristics of the device were consistent with the theoretically calculated performance. The developed micro Fabry-Pérot interferometer has the potential to make a marked contribution to advances in optical measurements in various micro sensing system.