bluuebunny/crossref_metadata_2025_split huggingface dataset:
Overcoming the blood–brain barrier by Annexin A1-binding peptide to target brain tumours
Authors: Nonaka Motohiro , Suzuki-Anekoji Misa , Nakayama Jun , Mabashi-Asazuma Hideaki , Jarvis Donald L. , Yeh Jiunn-Chern , Yamasaki Kazuhiko , Akama Tomoya O. , Huang Chun-Teng , Campos Alexandre Rosa , Nagaoka Masato , Sasai Toshio , Kimura-Takagi Itsuko , Suwa Yoichi , Yaegashi Takashi , Shibata Toshiaki K. , Sugihara Kazuhiro , Nishizawa-Harada Chizuko , Fukuda Minoru , Fukuda Michiko N. 
Published: September 2020

Abstract
Background
Annexin A1 is expressed specifically on the tumour vasculature surface. Intravenously injected IF7 targets tumour vasculature via annexin A1. We tested the hypothesis that IF7 overcomes the blood–brain barrier and that the intravenously injected IF7C(RR)-SN38 eradicates brain tumours in the mouse.

Methods
(1) A dual-tumour model was generated by inoculating luciferase-expressing melanoma B16 cell line, B16-Luc, into the brain and under the skin of syngeneic C57BL/6 mice. IF7C(RR)-SN38 was injected intravenously daily at 7.0 μmoles/kg and growth of tumours was assessed by chemiluminescence using an IVIS imager. A similar dual-tumour model was generated with the C6-Luc line in immunocompromised SCID mice. (2) IF7C(RR)-SN38 formulated with 10% Solutol HS15 was injected intravenously daily at 2.5 μmoles/kg into two brain tumour mouse models: B16-Luc cells in C57BL/6 mice, and C6-Luc cells in nude mice.

Results
(1) Daily IF7C(RR)-SN38 injection suppressed tumour growth regardless of cell lines or mouse strains. (2) Daily injection of Solutol-formulated IF7C(RR)-SN38 led into complete disappearance of B16-Luc brain tumour in C57BL/6 mice, whereas this did not occur in C6-Luc in nude mice.

Conclusions
IF7C(RR)-SN38 crosses the blood–brain barrier and suppresses growth of brain tumours in mouse models. Solutol HS15-formulated IF7C(RR)-SN38 may have promoted an antitumour immune response.
Multi-omic studies on missense PLG variants in families with otitis media
Authors: Bootpetch Tori C. , Hafrén Lena , Elling Christina L. , Baschal Erin E. , Manichaikul Ani W. , Pine Harold S. , Szeremeta Wasyl , Scholes Melissa A. , Cass Stephen P. , Larson Eric D. , Chan Kenny H. , Ishaq Rafaqat , Prager Jeremy D. , Shaikh Rehan S. , Gubbels Samuel P. , Yousaf Ayesha ,   University of Washington Center for Mendelian Genomics (UW-CMG), Bamshad Michael J. , Nickerson Deborah A. , Leal Suzanne M. , Wine Todd M. , Bamshad Michael J. , Yoon Patricia J. , Jenkins Herman A. , Nickerson Deborah A. , Streubel Sven-Olrik , Friedman Norman R. , Frank Daniel N. , Einarsdottir Elisabet , Kere Juha , Riazuddin Saima , Daly Kathleen A. , Leal Suzanne M. , Ryan Allen F. , Mattila Petri S. , Ahmed Zubair M. , Sale Michele M. , Chonmaitree Tasnee , Santos-Cortez Regie Lyn P. 
Published: September 2020

AbstractOtitis media (OM), a very common disease in young children, can result in hearing loss. In order to potentially replicate previously reported associations between OM and PLG, exome and Sanger sequencing, RNA-sequencing of saliva and middle ear samples, 16S rRNA sequencing, molecular modeling, and statistical analyses including transmission disequilibrium tests (TDT) were performed in a multi-ethnic cohort of 718 families and simplex cases with OM. We identified four rare PLG variants c.112A > G (p.Lys38Glu), c.782G > A (p.Arg261His), c.1481C > T (p.Ala494Val) and c.2045 T > A (p.Ile682Asn), and one common variant c.1414G > A (p.Asp472Asn). However TDT analyses for these PLG variants did not demonstrate association with OM in 314 families. Additionally PLG expression is very low or absent in normal or diseased middle ear in mouse and human, and salivary expression and microbial α-diversity were non-significant in c.1414G > A (p.Asp472Asn) carriers. Based on molecular modeling, the novel rare variants particularly c.782G > A (p.Arg261His) and c.2045 T > A (p.Ile682Asn) were predicted to affect protein structure. Exploration of other potential disease mechanisms will help elucidate how PLG contributes to OM susceptibility in humans. Our results underline the importance of following up findings from genome-wide association through replication studies, preferably using multi-omic datasets.
Drivers of farmer-managed natural regeneration in the Sahel. Lessons for restoration
Authors: Lohbeck Madelon , Albers Peggy , Boels Laetitia E. , Bongers Frans , Morel Samuel , Sinclair Fergus , Takoutsing Bertin , Vågen Tor-Gunnar , Winowiecki Leigh A. , Smith-Dumont Emilie 
Published: September 2020

AbstractFarmer-managed natural regeneration (FMNR) is being promoted for restoration beyond its original range in the Sahel. FMNR involves farmers selecting and managing natural regeneration on their fields, while keeping them under the primary function of agricultural production. However, little is known about what regenerates in different contexts, even though this underlies potential restoration impact. Here we assess how human impact, land degradation and dispersal limitation affect structural and functional properties of regeneration across 316 plots in agroforestry parklands of Ghana and Burkina Faso. We found that intensity of land use (grazing and agricultural practices) and dispersal limitation inhibited regeneration, while land degradation did not. Functional composition of regenerating communities shifted towards shorter statured, small-seeded and conservative strategies with intensity of land use. We conclude that the presence of trees of desired species in the vicinity is a precondition for successfully implementing FMNR for restoration, and that regeneration needs to be protected from grazing. Assessment of regeneration potential is imperative for scaling out FMNR and where natural regeneration will be insufficient to achieve restoration targets, FMNR needs to be complemented with tree planting.
Engineered viral DNA polymerase with enhanced DNA amplification capacity: a proof-of-concept of isothermal amplification of damaged DNA
Authors: Ordóñez Carlos D. , Lechuga Ana , Salas Margarita , Redrejo-Rodríguez Modesto 
Published: September 2020

AbstractThe development of whole genome amplification (WGA) and related methods, coupled with the dramatic growth of sequencing capacities, has changed the paradigm of genomic and genetic analyses. This has led to a continual requirement of improved DNA amplification protocols and the elaboration of new tailored methods. As key elements in WGA, identification and engineering of novel, faithful and processive DNA polymerases is a driving force in the field. We have engineered the B-family DNA polymerase of virus Bam35 with a C-terminal fusion of DNA-binding motifs. The new protein, named B35-HhH, shows faithful DNA replication in the presence of magnesium or an optimised combination of magnesium and manganese divalent cofactors, which enhances the replication of damaged DNA substrates. Overall, the newly generated variant displays improved amplification performance, sensitivity, translesion synthesis and resistance to salt, which are of great interest for several applications of isothermal DNA amplification. Further, rolling-circle amplification of abasic site-containing minicircles provides a proof-of-concept for using B35-HhH for processive amplification of damaged DNA samples.
Standoff pump-probe photothermal detection of hazardous chemicals
Authors: Sharma Ramesh C. , Kumar Subodh , Parmar Abhishek , Mann Mohit , Prakash Satya , Thakur Surya N. 
Published: September 2020

AbstractA novel pump-probe Photothermal methodology using Quartz Tuning Fork (QTF) detector has been demonstrated for the first time. A tunable mid-IR Quantum Cascade Laser (QCL) and a CW fixed wavelength visible laser have been used as the pump and probe beam respectively. The developed Photothermal (PT) technique is based on Quartz Tuning Fork (QTF) detector for the detection of hazardous/explosive molecules adsorbed on plastic surface and also in aerosols form. PT spectra of various trace molecules in the fingerprinting mid- infrared spectral band 7–9 µm from distance of 25 m have been recorded. The PT spectra of explosives RDX, TNT and Acetone have been recorded at very low quantities. Acetone is the precursor of explosive Tri-Acetone Tri-Phosphate (TATP). The experimentations using pump and probe lasers, exhibit detection sensitivity of less than 5 μg/cm2 for RDX, TNT powders and of ~ 200 nl quantity for Nitrobenzene (NB) and Acetone (in liquid form) adsorbed on surfaces, from a distance of ~ 25 m. The sensitivity of the same order achieved from a distance of 15 m by using only a mid-IR tunable pump laser coupled to QTF detector. Thus the pump-probe PT technique is more sensitive in comparison to single tunable QCL pump beam technique and it is better suited for standoff detection of hazardous chemicals for homeland security as well as for forensic applications.
An atomic Fabry–Perot interferometer using a pulsed interacting Bose–Einstein condensate
Authors: Manju P. , Hardman K. S. , Wigley P. B. , Close J. D. , Robins N. P. , Szigeti S. S. 
Published: September 2020

AbstractWe numerically demonstrate atomic Fabry–Perot resonances for a pulsed interacting Bose–Einstein condensate (BEC) source transmitting through double Gaussian barriers. These resonances are observable for an experimentally-feasible parameter choice, which we determined using a previously-developed analytical model for a plane matter-wave incident on a double rectangular barrier system. Through numerical simulations using the non-polynomial Schödinger equation—an effective one-dimensional Gross–Pitaevskii equation—we investigate the effect of atom number, scattering length, and BEC momentum width on the resonant transmission peaks. For $$^{85}$$

85

Rb atomic sources with the current experimentally-achievable momentum width of $$0.02 \hbar k_0$$

0.02
ħ

k
0

[$$k_0 = 2\pi /(780~\text {nm})$$

k
0

=
2
π
/

(
780

nm
)

], we show that reasonably high contrast Fabry–Perot resonant transmission peaks can be observed using (a) non-interacting BECs, (b) interacting BECs of $$5 \times 10^4$$

5
×

10
4

atoms with s-wave scattering lengths $$a_s=\pm 0.1a_0$$

a
s

=
±
0.1

a
0

($$a_0$$

a
0

is the Bohr radius), and (c) interacting BECs of $$10^3$$

10
3

atoms with $$a_s=\pm 1.0a_0$$

a
s

=
±
1.0

a
0

. Our theoretical investigation impacts any future experimental realization of an atomic Fabry–Perot interferometer with an ultracold atomic source.
Global analysis of SBP gene family in Brachypodium distachyon reveals its association with spike development
Authors: Tripathi Rajiv K. , Overbeek William , Singh Jaswinder 
Published: September 2020

AbstractSQUAMOSA-promoter binding like proteins (SBPs/SPLs) are plant specific transcription factors targeted by miR156 and involved in various biological pathways, playing multi-faceted developmental roles. This gene family is not well characterized in Brachypodium. We identified a total of 18 SBP genes in B.distachyon genome. Phylogenetic analysis revealed that SBP gene family in Brachypodium expanded through large scale duplication. A total of 10 BdSBP genes were identified as targets of miR156. Transcript cleavage analysis of selected BdSBPs by miR156 confirmed their antagonistic connection. Alternative splicing was observed playing an important role in BdSBPs and miR156 interaction. Characterization of T-DNA Bdsbp9 mutant showed reduced plant growth and spike length, reflecting its involvement in the spike development. Expression of a majority of BdSBPs elevated during spikelet initiation. Specifically, BdSBP1 and BdSBP3 differentially expressed in response to vernalization. Differential transcript abundance of BdSBP1,BdSBP3,BdSBP8,BdSBP9,BdSBP14,BdSBP18 and BdSBP23 genes was observed during the spike development under high temperature. Co-expression network, protein–protein interaction and biological pathway analysis indicate that BdSBP genes mainly regulate transcription, hormone, RNA and transport pathways. Our work reveals the multi-layered control of SBP genes and demonstrates their association with spike development and temperature sensitivity in Brachypodium.
The effect of surface area on the properties of shape-stabilized phase change material prepared using palm kernel shell activated carbon
Authors: Nicholas Ahmad Fariz , Hussein Mohd Zobir , Zainal Zulkarnain , Khadiran Tumirah 
Published: September 2020

AbstractThe effect of the surface area of palm kernel shell activated carbon (PKSAC) on the properties of n-octadecane-encapsulated shape stabilized phase change material (SSPCM) for thermal energy storage (TES) application were studied. Various surface areas of the PKSAC were prepared using different amounts of H3PO4 treatment given to palm kernel shells from 0, 5, 10, 30 and 40% before the activation. The impregnation of n-octadecane into the different surface areas of PKSACs produced SSPCMs with different physico-chemical characteristics. The DSC analysis indicates that the higher the surface area of the PKSAC resulted in the higher freezing temperature due to the higher PCM loading that was encapsulated into the PKSAC pores. The results obtained from XRD, FESEM, Raman spectroscopy, TGA/DTG and leakage study indicate that the PKSAC is a good framework material for the development of n-octadecane-encapsulated SSPCM. It was also found that the surface area and porosity of the frameworks, activated carbon play an important role on the PCM loading percentage and their ability to be used as a thermal energy storage material.
Alteration of gene expression in mice after glaucoma filtration surgery
Authors: Adachi Keisuke , Asada Yosuke , Hirakata Toshiaki , Onoue Miki , Iwamoto Satoshi , Kasuga Toshimitsu , Matsuda Akira 
Published: September 2020

AbstractTo clarify the early alterations of gene expression using a mouse model of glaucoma filtration surgery, we carried out microarray expression analysis. Using BALB/c mice, a filtration surgery model was made by incision of the limbal conjunctiva, followed by the insertion of a 33G needle tip into the anterior chamber, and 11-0 nylon sutures. Subgroups of mice were treated intraoperatively with 0.4 mg/ml mitomycin-C (MMC). At day 3 after surgery the bleb was maintained. The bleb region tissue was sampled 3 days after the filtration surgery, and gene expression analysis was carried out using a mouse Agilent 8 × 60 K array. We found 755 hyperexpressed transcripts in the bleb region compared to control conjunctiva. The hyperexpressed transcripts included epithelial cell metaplasia-related (Il1b, Krt16, Sprr1b), inflammation-related (Ccl2, Il6) and wound healing-related (Lox, Timp1) genes. We also found downregulation of a goblet cell marker gene (Gp2) in the bleb conjunctiva. MMC treatment suppressed elastin (Eln) gene expression and enhanced keratinization-related gene expression (Krt1, Lor) in the bleb region. Our results suggest the importance of epithelial wound healing after filtration surgery, and this filtration surgery model will be a useful tool for further pathophysiological analysis.
Shaking culture enhances chondrogenic differentiation of mouse induced pluripotent stem cell constructs
Authors: Limraksasin Phoonsuk , Kosaka Yukihiro , Zhang Maolin , Horie Naohiro , Kondo Takeru , Okawa Hiroko , Yamada Masahiro , Egusa Hiroshi 
Published: September 2020

AbstractMechanical loading on articular cartilage induces various mechanical stresses and strains. In vitro hydrodynamic forces such as compression, shear and tension impact various cellular properties including chondrogenic differentiation, leading us to hypothesize that shaking culture might affect the chondrogenic induction of induced pluripotent stem cell (iPSC) constructs. Three-dimensional mouse iPSC constructs were fabricated in a day using U-bottom 96-well plates, and were subjected to preliminary chondrogenic induction for 3 days in static condition, followed by chondrogenic induction culture using a see-saw shaker for 17 days. After 21 days, chondrogenically induced iPSC (CI-iPSC) constructs contained chondrocyte-like cells with abundant ECM components. Shaking culture significantly promoted cell aggregation, and induced significantly higher expression of chondrogenic-related marker genes than static culture at day 21. Immunohistochemical analysis also revealed higher chondrogenic protein expression. Furthemore, in the shaking groups, CI-iPSCs showed upregulation of TGF-β and Wnt signaling-related genes, which are known to play an important role in regulating cartilage development. These results suggest that shaking culture activates TGF-β expression and Wnt signaling to promote chondrogenic differentiation in mouse iPSCs in vitro. Shaking culture, a simple and convenient approach, could provide a promising strategy for iPSC-based cartilage bioengineering for study of disease mechanisms and new therapies.
Glutamatergic modulation of auditory cortex connectivity with attentional brain networks in unpredictable perceptual environment
Authors: Kompus Kristiina , Volehaugen Vegard , Craven Alex , Specht Karsten 
Published: September 2020

AbstractIn a stable environment the brain can minimize processing required for sensory input by forming a predictive model of the surrounding world and suppressing neural response to predicted stimuli. Unpredicted stimuli lead to a prediction error signal propagation through the perceptual network, and resulting adjustment to the predictive model. The inter-regional plasticity which enables the model-building and model-adjustment is hypothesized to be mediated via glutamatergic receptors. While pharmacological challenge studies with glutamate receptor ligands have demonstrated impact on prediction-error indices, it is not clear how inter-individual differences in the glutamate system affect the prediction-error processing in non-medicated state. In the present study we examined 20 healthy young subjects with resting-state proton MRS spectroscopy to characterize glutamate + glutamine (rs-Glx) levels in their Heschl’s gyrus (HG), and related this to HG functional connectivity during a roving auditory oddball protocol. No rs-Glx effects were found within the frontotemporal prediction-error network. Larger rs-Glx signal was related to stronger connectivity between HG and bilateral inferior parietal lobule during unpredictable auditory stimulation. We also found effects of rs-Glx on the coherence of default mode network and frontoparietal network during unpredictable auditory stimulation. Our results demonstrate the importance of Glx in modulating long-range connections and wider networks in the brain during perceptual inference.
The effects of exercise treatment on learning and memory ability, and cognitive performance in diet-induced prediabetes animals
Authors: Luvuno Mluleki , Khathi Andile , Mabandla Musa V. 
Published: September 2020

AbstractChanges associated with cognitive function in the high-fat high-carbohydrate diet-induced prediabetes animal model and effect of exercise remain unclear. Rats were randomly assigned to the following groups (n = 6): non-diabetic (ND), prediabetic (PD), intermittent exercising PD (PD + IE) and regular exercising PD (PD + RE). After exercise cessation, oral glucose tolerance (OGT), Novel Object Recognition Test (NORT) and Morris-Water Maze (MWM) tests were performed to assess cognitive function. After sacrifice, malonaldehyde, glutathione peroxidase, interleukin-1β and dopamine concentration in the prefrontal cortex (PFC) and hippocampus were measured. Impaired OGT response in PD animals was accompanied by poor performance on behavioural tasks. This was associated with increased oxidative stress markers and impaired dopamine neurotransmission as evidence by elevated dopamine concentration in the PFC and hippocampal tissue. Improved OGT response by exercise was coupled with improved performance on behavioural tasks, oxidative stress markers and increased interleukin-1β concentration. In regular exercise, this was further coupled with improved dopamine neurotransmission. Cognitive function was affected during prediabetes in animals. This was partly due to oxidative stress and impaired dopamine neurotransmission. Both intermittent and regular exercise improved cognitive function. This was partly mediated by improved glucose tolerance and oxidative stress as well as a subclinical increase in interleukin-1β concentration. In regular exercise, this was further mediated by improved dopamine neurotransmission.
Swine liquid manure: a hotspot of mobile genetic elements and antibiotic resistance genes
Authors: Yang Fengxia , Han Bingjun , Gu Yanru , Zhang Keqiang 
Published: September 2020

AbstractThe overuse or abuse of antibiotics as veterinary medicine and growth promoters accelerates antibiotic resistance, creating a serious threat to public health in the world. Swine liquid manure as an important reservoir of antibiotic resistance genes (ARGs) has received much attention, but little information is known regarding the occurrence, persistence and fate of ARGs-associated mobile genetic elements (MGEs) in swine farms, especially their change patterns and removal in full-scale piggery wastewater treatment systems (PWWTSs). In this study, we searched the presence and distribution of MGEs and associated ARGs in swine farms, and addressed their fate and seasonal variation in full-scale PWWTSs by real-time quantitative PCR (qPCR). Our results revealed class 1 integrons, class 2 integrons and conjugative plasmids were prevalent in pig feces and piggery wastewater. A clear pattern of these MGE levels in swine liquid manure was also observed, i.e., intI1 > intI2 > traA (p < 0.01), and their absolute abundances in winter were all higher than that in summer with 0.07–2.23 logs. Notably, MGEs and ARGs prevailed through various treatment units of PWWTSs, and considerable levels of them were present in the treated effluent discharged from swine farms (up to 101–107 copies/mL for MGEs and 103–108 copies/mL for ARGs). There were significant correlations between most ARG abundance and MGE levels (p < 0.05), such as tetQ and traA (r = 0.775), sul1 and intI1 (r = 0.847), qnrS and inI2 (r = 0.859), suggesting the potential of ARGs—horizontal transfer. Thus the high prevalence and enrichment of MGEs and ARGs occurred in pig feces and piggery wastewater, also implicating that swine liquid manure could be a hotspot for horizontal transfer of ARGs.