bluuebunny/crossref_metadata_2025_split huggingface dataset:
Seasonal changes in network connectivity and consequences for pathogen transmission in a solitary carnivore
Authors: Gilbertson Marie L. J. , Hart S. Niamh , VanderWaal Kimberly , Onorato Dave , Cunningham Mark , VandeWoude Sue , Craft Meggan E. 
Published: October 2023

AbstractSeasonal variation in habitat use and animal behavior can alter host contact patterns with potential consequences for pathogen transmission dynamics. The endangered Florida panther (Puma concolor coryi) has experienced significant pathogen-induced mortality and continues to be at risk of future epidemics. Prior research has found increased panther movement in Florida’s dry versus wet seasons, which may affect panther population connectivity and seasonally increase potential pathogen transmission. Our objective was to determine if Florida panthers are more spatially connected in dry seasons relative to wet seasons, and test if identified connectivity differences resulted in divergent predicted epidemic dynamics. We leveraged extensive panther telemetry data to construct seasonal panther home range overlap networks over an 11 year period. We tested for differences in network connectivity, and used observed network characteristics to simulate transmission of a broad range of pathogens through dry and wet season networks. We found that panthers were more spatially connected in dry seasons than wet seasons. Further, these differences resulted in a trend toward larger and longer pathogen outbreaks when epidemics were initiated in the dry season. Our results demonstrate that seasonal variation in behavioral patterns—even among largely solitary species—can have substantial impacts on epidemic dynamics.
Short-chain fatty acid, butyrate prevents morphine-and paclitaxel-induced nociceptive hypersensitivity
Authors: Jessup Dawn , Woods Kareem , Thakker Sach , Damaj M. Imad , Akbarali Hamid I. 
Published: October 2023

AbstractNociceptive hypersensitivity is a significant side effect with the chronic administration of opioids as well as chemotherapeutics. Both opioid-induced hypersensitivity (OIH) and chemotherapy-induced hypersensitivity (CIH) are characterized by an increased sensitivity to painful stimuli which can significantly reduce the quality of life for individuals on either drug(s). Here we demonstrate the nociceptive hypersensitivity associated with repeated administration of morphine (opioid) and paclitaxel (chemotherapeutic) treatment can be reversed by oral supplementation with the short-chain fatty acid (SCFA) sodium butyrate (NaBut). In two separate mouse behavioral models for nociceptive hypersensitivity, we found that thermal hyperalgesia (for OIH) and cold allodynia (for CIH) were prevented by treatment with oral butyrate (p.o, b.i.d). Electrophysiological recordings of small diameter dorsal root ganglia (DRG) neurons from morphine and paclitaxel treated mice showed an increase in neuronal hyperexcitability in both drug models which was likewise prevented by oral butyrate treatment. Using colonic conditioned media obtained from excised colon segments we found that gut mediators of morphine treated mice can induce hyperexcitability in naïve DRG neurons, but such enhanced excitability is not present when animals are co-treated with NaBut suggesting gut derived mediators modulate neuronal hyperexcitability. In-vitro NaBut treatment did not prevent morphine-induced excitability, suggesting an indirect role of butyrate in modulating neuronal hypersensitivity. These data taken together suggest that gut derived mediators affect opioid and chemotherapeutic-induced neuronal hypersensitivity that is prevented by the SCFA butyrate.
Study on the destruction law of physical and shear properties of soil in mining disturbance
Authors: Qiao Qiya , Shi Guangming , Yang Dejun , Wang Liyuan , Zhang Xuan , Li Shichang , Bai Xue-er 
Published: October 2023

AbstractUnderground mining activities can easily trigger surface subsidence and cause damage to surface soil. However, there is still a lack of studies on damaged soil, restricting ecological remediation in mining-induced subsidence regions to a certain degree. Focusing on the particular example of No. 4 Mine in Yili, Xinjiang, China, this study comprehensively combined field sampling, laboratory experiments, and data analysis to investigate the variation rules of basic physical properties and shear characteristics of soil samples. The latter had different subsidence degrees (0, 0–20, 20–40, and above 40 cm) and various depths (0– 10, 10–20, 20– 40, 40–60, and 60–80 cm). The experimental results show that: First, the natural density and dry unit weight of shallow soil in the serious-subsidence region were more significantly affected by mining-induced subsidence than the conditions in the deep layer, which also dropped with the increase in subsidence degree (with a mean drop rate of 7%). Second, serious subsidence could greatly counteract the positive effect of slight and moderate subsidence on the soil shear strength, with a drop rate of up to 30.7%. Third, compared with soil physical indices, mining-induced subsidence more easily affected shear strength indices. In particular, the soil samples taken from 0 to  10 cm depth in the slight subsidence area and 60–80 cm depth in the moderate subsidence area were most significantly affected by mining-induced subsidence, with PCA comprehensive scores of over 1.5. The present study can con-tribute to gaining in-depth knowledge of the damage characteristics of surface soil under mining-induced subsidence and provide a theoretical foundation for formulating reasonable coal mining strategies and ecological protection measures.
Disposable facemask waste combustion emits neuroactive smoke particulate matter
Authors: Pastukhov Artem , Paliienko Konstantin , Pozdnyakova Natalia , Krisanova Natalia , Dudarenko Marina , Kalynovska Lilia , Tarasenko Alla , Gnatyuk Olena , Dovbeshko Galina , Borisova Tatiana 
Published: October 2023

AbstractTremendous deposits of disposable medical facemask waste after the COVID-19 pandemic require improvement of waste management practice according to WHO report 2022, moreover facemasks are still in use around the world to protect against numerous airborne infections. Here, water-suspended smoke preparations from the combustion of disposable medical facemasks (polypropylene fibers) were collected; size, zeta potential, surface groups of smoke particulate matter were determined by dynamic light scattering, FTIR and Raman spectroscopy, and their optical properties were characterized. Neurochemical study using nerve terminals isolated from rat cortex revealed a significant decrease in the initial rate of the uptake/accumulation of excitatory and inhibitory neurotransmitters, L-[14C]glutamate and [3H]GABA, and exocytotic release, and also an increase in the extracellular level of these neurotransmitters. Fluorescent measurements revealed that ROS generation induced by hydrogen peroxide and glutamate receptor agonist kainate decreased in nerve terminals. A decrease in the membrane potential of nerve terminals and isolated neurons, the mitochondrial potential and synaptic vesicle acidification was also shown. Therefore, accidental or intentional utilization of disposable medical facemask waste by combustion results in the release of neuroactive ultrafine particulate matter to the environment, thereby contributing to plastic-associated pollution of air and water resources and neuropathology development and expansion.
Bioplastic (poly-3-hydroxybutyrate)-producing Massilia endophytica sp. nov., isolated from Cannabis sativa L. ‘Cheungsam’
Authors: Jeon Doeun , Jiang Lingmin , Kim Ki-Hyun , Peng Yuxin , Cho Donghyun , Jeong Rae-Dong , Kim Cha Young , Jeong Jae Cheol , Lee Jiyoung 
Published: October 2023

AbstractA rod-shaped, motile, Gram-negative bacterial strain named DM-R-R2A-13T was isolated from the plant Cannabis sativa L. ‘Cheungsam’. The phylogenetic analysis of the 16S rRNA gene sequence revealed that strain DM-R-R2A-13T belongs to the family Oxalobacteraceae and is closely related to members of the genus Massilia, with Massilia flava (97.58% sequence similarity) and Massilia armeniaca (97.37% sequence similarity) being the closest members. The digital DNA-DNA hybridization (dDDH) values between strain DM-R-R2A-13T and Massilia flava CGMCC 1.10685T and Massilia armeniaca ZMN-3Twere 22.2% and 23.3%, while the average nucleotide identity (ANI) values were 78.85% and 79.63%, respectively. The DNA G+C content was measured to be 64.6 mol%. Moreover, the bacterium was found to contain polyhydroxyalkanoate (PHA) granules based on transmission electron microscopy, indicating its potential to produce bioplastic. Genome annotation revealed the presence of PHA synthase genes (phaC, phaR, phaP, and phaZ), and the biopolymer was identified as poly-3-hydroxybutyrate (PHB) based on nuclear magnetic resonance (NMR) and Fourier transform infrared spectroscopy (FTIR) analyses. Using maltose as a carbon source, the strain produced PHB of up to 58.06% of its dry cell weight. Based on the phenotypic, chemotaxonomic, and phylogenetic characteristics, it has been determined that DM-R-R2A-13T represents a novel species belonging to the genus Massilia. As such, the name Massilia endophytica sp. nov. is proposed for this newly identified species. The type strain is DM-R-R2A-13T (= KCTC 92072T = GDMCC 1.2920T).
Brief floodplain inundation provides growth and survival benefits to a young-of-year fish in an intermittent river threatened by water development
Authors: Pratt Oliver P. , Beesley Leah S. , Pusey Bradley J. , Gwinn Daniel C. , Keogh Chris S. , Douglas Michael M. 
Published: October 2023

AbstractRiverine floodplains are highly productive habitats that often act as nurseries for fish but are threatened by flow regulation. The Fitzroy River in northern Australia is facing development, but uncertainty exists regarding the extent to which floodplain habitats deliver benefits to fish, particularly given the brevity of seasonal floodplain inundation. We investigated the growth rate of young-of-year bony bream (Nematalosa erebi) in main channel and ephemeral floodplain habitats using age derived from otolith daily increments. We also investigated potential mechanisms influencing growth and modelled the consequences of differential growth rate on survival. Our results revealed higher growth occurred exclusively on the floodplain and that zooplankton biomass was the best predictor of growth rate. Modelling indicated that elevated growth rate in high-growth floodplain pools (top 25th percentile) could translate into substantial increases in survivorship. The positive effect of zooplankton biomass on growth was moderated under highly turbid conditions. Temperature had a minor influence on growth, and only in floodplain habitats. Our results indicate ephemeral floodplain habitats can deliver substantial growth and survival benefits to young-of-year fish even when floodplain inundation is brief. This study highlights the need to ensure that water policy safeguards floodplain habitats due to their important ecological role.
CANVAS-related RFC1 mutations in patients with immune-mediated neuropathy
Authors: Hirano Makito , Kuwahara Motoi , Yamagishi Yuko , Samukawa Makoto , Fujii Kanako , Yamashita Shoko , Ando Masahiro , Oka Nobuyuki , Nagano Mamoru , Matsui Taro , Takeuchi Toshihide , Saigoh Kazumasa , Kusunoki Susumu , Takashima Hiroshi , Nagai Yoshitaka 
Published: October 2023

AbstractCerebellar ataxia, neuropathy, and vestibular areflexia syndrome (CANVAS) has recently been attributed to biallelic repeat expansions in RFC1. More recently, the disease entity has expanded to atypical phenotypes, including chronic neuropathy without cerebellar ataxia or vestibular areflexia. Very recently, RFC1 expansions were found in patients with Sjögren syndrome who had neuropathy that did not respond to immunotherapy. In this study RFC1 was examined in 240 patients with acute or chronic neuropathies, including 105 with Guillain-Barré syndrome or Miller Fisher syndrome, 76 with chronic inflammatory demyelinating polyneuropathy, and 59 with other types of chronic neuropathy. Biallelic RFC1 mutations were found in three patients with immune-mediated neuropathies, including Guillain-Barré syndrome, idiopathic sensory ataxic neuropathy, or anti-myelin-associated glycoprotein (MAG) neuropathy, who responded to immunotherapies. In addition, a patient with chronic sensory autonomic neuropathy had biallelic mutations, and subclinical changes in Schwann cells on nerve biopsy. In summary, we found CANVAS-related RFC1 mutations in patients with treatable immune-mediated neuropathy or demyelinating neuropathy.
In vitro assessment of physiological traits and ROS detoxification pathways involved in tolerance of Damask rose genotypes under salt stress
Authors: Azizi Sahar , Seyed Hajizadeh Hanifeh , Aghaee Ahmad , Kaya Ozkan 
Published: October 2023

AbstractRosa damascena is one of the most important medicinal and ornamental plants in Iran which is tolerant of salinity to some extent. However, the selection of genotypes that are more tolerant to salinity will influence on Damask cultivation in salt stress-affected regions. For this purpose, a factorial experiment in a completely randomized design with three replicates was performed under in vitro conditions on four Damask rose genotypes (Atashi, Bi-Khar, Chahar-Fasl and Kashan) at 5 concentrations of NaCl (0, 25, 50, 75, and 100 mM), and the physico-chemical traits were measured 14 and 28 days after treatment.The results showed that Atashi genotype with high levels of Chl a, Chl b, total Chl content, carotenoids, relative leaf water content, proline, total soluble protein, TPC, TFC, TAA, and the highest increase in the activity of antioxidant enzymes such as GPX, APX, CAT, SOD, and POD as well as the lowest amount of hydrogen peroxide showed a better protection mechanism against oxidative damage than the other three genotypes (Bi-Khar, Chahar-Fasl and Kashan) in the 14th and 28th days by maintaining the constructive and induced activities of antioxidant enzymes, it was shown that Bi-Khar genotype had moderate tolerance and Kashan and Chahar-Fasl genotypes had low tolerance to salinity stress. In vitro selection methods can be used effectively for salt tolerant screening of Damask rose genotypes, although the same experiment should be conducted in open filed cultures to verify the in vitro experimental results.
Inactive S. aureus Cas9 downregulates alpha-synuclein and reduces mtDNA damage and oxidative stress levels in human stem cell model of Parkinson’s disease
Authors: Sastre Danuta , Zafar Faria , Torres C. Alejandra Morato , Piper Desiree , Kirik Deniz , Sanders Laurie H. , Qi L. Stanley , Schüle Birgitt 
Published: October 2023

AbstractParkinson’s disease (PD) is one of the most common neurodegenerative diseases, but no disease modifying therapies have been successful in clinical translation presenting a major unmet medical need. A promising target is alpha-synuclein or its aggregated form, which accumulates in the brain of PD patients as Lewy bodies. While it is not entirely clear which alpha-synuclein protein species is disease relevant, mere overexpression of alpha-synuclein in hereditary forms leads to neurodegeneration. To specifically address gene regulation of alpha-synuclein, we developed a CRISPR interference (CRISPRi) system based on the nuclease dead S. aureus Cas9 (SadCas9) fused with the transcriptional repressor domain Krueppel-associated box to controllably repress alpha-synuclein expression at the transcriptional level. We screened single guide (sg)RNAs across the SNCA promoter and identified several sgRNAs that mediate downregulation of alpha-synuclein at varying levels. CRISPRi downregulation of alpha-synuclein in iPSC-derived neuronal cultures from a patient with an SNCA genomic triplication showed functional recovery by reduction of oxidative stress and mitochondrial DNA damage. Our results are proof-of-concept in vitro for precision medicine by targeting the SNCA gene promoter. The SNCA CRISPRi approach presents a new model to understand safe levels of alpha-synuclein downregulation and a novel therapeutic strategy for PD and related alpha-synucleinopathies.
Designing and computational analyzing of chimeric long-lasting GLP-1 receptor agonists for type 2 diabetes
Authors: Ehsasatvatan Maryam , Baghban Kohnehrouz Bahram 
Published: October 2023

AbstractGlucagon-like peptide-1 (GLP-1) is an intestinally derived incretin that plays a vital role in engineering the biological circuit involved in treating type 2 diabetes. Exceedingly short half-life (1–2 min) of GLP-1 limits its therapeutic applicability, and the implication of its new variants is under question. Since albumin-binding DARPin as a mimetic molecule has been reported to increase the serum half-life of therapeutic compounds, the interaction of new variants of GLP-1 in fusion with DARPin needs to be examined against the GLP-1 receptor. This study was aimed to design stable and functional fusion proteins consisting of new protease-resistant GLP-1 mutants (mGLP1) genetically fused to DARPin as a critical step toward developing long-acting GLP-1 receptor agonists. The stability and solubility of the engineered fusion proteins were analyzed, and their secondary and tertiary structures were predicted and satisfactorily validated. Molecular dynamics simulation studies revealed that the predicted structures of engineered fusion proteins remained stable throughout the simulation. The relative binding affinity of the engineered fusion proteins' complex with human serum albumin and the GLP-1 receptor individually was assessed using molecular docking analyses. It revealed a higher affinity compared to the interaction of the individual GLP-1 and HSA-binding DARPin with the GLP-1 receptor and human serum albumin, respectively. The present study suggests that engineered fusion proteins can be used as a potential molecule in the treatment of type 2 diabetes, and this study provides insight into further experimental use of mimetic complexes as alternative molecules to be evaluated as new bio-breaks in the engineering of biological circuits in the treatment of type 2 diabetes.
Neuron Navigator 1 (Nav1) regulates the response to cocaine in mice
Authors: Bagley Jared R. , Tan Yalun , Zhu Wan , Cheng Zhuanfen , Takeda Saori , Fang Zhouqing , Arslan Ahmed , Wang Meiyue , Guan Yuan , Jiang Lihua , Jian Ruiqi , Gu Feng , Parada Isabel , Prince David , Jentsch J. David , Peltz Gary 
Published: October 2023

AbstractGenetic variation accounts for much of the risk for developing a substance use disorder, but the underlying genetic factors and their genetic effector mechanisms are mostly unknown. Inbred mouse strains exhibit substantial and heritable differences in the extent of voluntary cocaine self-administration. Computational genetic analysis of cocaine self-administration data obtained from twenty-one inbred strains identified Nav1, a member of the neuron navigator family that regulates dendrite formation and axonal guidance, as a candidate gene. To test this genetic hypothesis, we generated and characterized Nav1 knockout mice. Consistent with the genetic prediction, Nav1 knockout mice exhibited increased voluntary cocaine intake and had increased motivation for cocaine consumption. Immunohistochemistry, electrophysiology, and transcriptomic studies were performed as a starting point for investigating the mechanism for the Nav1 knockout effect. Nav1 knockout mice had a reduced inhibitory synapse density in their cortex, increased excitatory synaptic transmission in their cortex and hippocampus, and increased excitatory neurons in a deep cortical layer. Collectively, our results indicate that Nav1 regulates the response to cocaine, and we identified Nav1 knockout induced changes in the excitatory and inhibitory synaptic balance in the cortex and hippocampus that could contribute to this effect.
Pseudogene MAPK6P4-encoded functional peptide promotes glioblastoma vasculogenic mimicry development
Authors: Zhang Mengyang , Zhao Yubo , Liu Xiaobai , Ruan Xuelei , Wang Ping , Liu Libo , Wang Di , Dong Weiwei , Yang Chunqing , Xue Yixue 
Published: October 2023

AbstractGlioma is the most common primary malignancy of the central nervous system. Glioblastoma (GBM) has the highest degree of malignancy among the gliomas and the strongest resistance to chemotherapy and radiotherapy. Vasculogenic mimicry (VM) provides tumor cells with a blood supply independent of endothelial cells and greatly restricts the therapeutic effect of anti-angiogenic tumor therapy for glioma patients. Vascular endothelial growth factor receptor 2 (VEGFR2) and vascular endothelial cadherin (VE-cadherin) are currently recognized molecular markers of VM in tumors. In the present study, we show that pseudogene MAPK6P4 deficiency represses VEGFR2 and VE-cadherin protein expression levels, as well as inhibits the proliferation, migration, invasion, and VM development of GBM cells. The MAPK6P4-encoded functional peptide P4-135aa phosphorylates KLF15 at the S238 site, promoting KLF15 protein stability and nuclear entry to promote GBM VM formation. KLF15 was further confirmed as a transcriptional activator of LDHA, where LDHA binds and promotes VEGFR2 and VE-cadherin lactylation, thereby increasing their protein expression. Finally, we used orthotopic and subcutaneous xenografted nude mouse models of GBM to verify the inhibitory effect of the above factors on GBM VM development. In summary, this study may represent new targets for the comprehensive treatment of glioma.
Superflux of an organic adlayer towards its local reactive immobilization
Authors: Salamon David , Bukvišová Kristýna , Jan Vít , Potoček Michal , Čechal Jan 
Published: October 2023

AbstractOn-surface mass transport is the key process determining the kinetics and dynamics of on-surface reactions, including the formation of nanostructures, catalysis, or surface cleaning. Volatile organic compounds (VOC) localized on a majority of surfaces dramatically change their properties and act as reactants in many surface reactions. However, the fundamental question “How far and how fast can the molecules travel on the surface to react?” remains open. Here we show that isoprene, the natural VOC, can travel ~1 μm s−1, i.e., centimeters per day, quickly filling low-concentration areas if they become locally depleted. We show that VOC have high surface adhesion on ceramic surfaces and simultaneously high mobility providing a steady flow of resource material for focused electron beam synthesis, which is applicable also on rough or porous surfaces. Our work established the mass transport of reactants on solid surfaces and explored a route for nanofabrication using the natural VOC layer.
Stress–strain relationships and yielding of metal-organic framework monoliths
Authors: Tricarico Michele , Besnard Cyril , Cinque Gianfelice , Korsunsky Alexander M. , Tan Jin-Chong 
Published: October 2023

AbstractMetal-organic frameworks (MOFs) have emerged as a versatile material platform for a wide range of applications. However, the development of practical devices is constrained by their inherently low mechanical stability. The synthesis of MOFs in a monolithic morphology represents a viable way for the transition of these materials from laboratory research to real-world applications. For the design of MOF-based devices, the mechanical characterization of such materials cannot be overlooked. In this regard, stress-strain relationships represent the most valuable tool for assessing the mechanical response of materials. Here, we use flat punch nanoindentation, micropillar compression and Raman microspectroscopy to investigate the stress-strain behaviour of MOF monoliths. A pseudo-plastic flow is observed under indentation, where the confining pressure prevents unstable crack propagation. Material flow is accommodated by grain boundary sliding, with occasional stepwise cracking to accommodate excessive stress building up. Micropillar compression reveals a brittle failure of ZIF-8, while plastic flow is observed for MIL-68.