bluuebunny/crossref_metadata_2025_split huggingface dataset:
3D X-ray tomographic analysis reveals how coesite is preserved in Muong Nong-type tektites
Authors: Masotta Matteo , Peres Stefano , Folco Luigi , Mancini Lucia , Rochette Pierre , Glass Billy P. , Campanale Fabrizio , Gueninchault Nicolas , Radica Francesco , Singsoupho Sounthone , Navarro Enrique 
Published: November 2020

AbstractMuong Nong-type (MN) tektites are a layered type of tektite associated to the Australasian strewn field, the youngest (790 kyr) and largest on Earth. In some MN tektites, coesite is observed in association with relict quartz and silica glass within inclusions surrounded by a froth layer. The formation of coesite-bearing frothy inclusions is here investigated through a 3D textural multiscale analysis of the vesicles contained in a MN tektite sample, combined with compositional and spectroscopic data. The vesicle size distribution testifies to a post-shock decompression that induced melting and extensive vesiculation in the tektite melt. Compared to free vesicles, nucleated homogeneously in the tektite melt, froth vesicles nucleated heterogeneously on relict quartz surfaces at the margins of coesite-bearing inclusions. The rapid detachment of the froth vesicles and prompt reactivation of the nucleation site favoured the packing of vesicles and the formation of the froth structure. Vesicle relaxation time scales suggest that the vesiculation process lasted few seconds. The formation of the froth layer was instrumental for the preservation of coesite, promoting quenching of the inclusion core through the subtraction of heat during froth expansion, thereby physically insulating the inclusion until the final quench of the tektite melt.
Concerted cell and in vivo screen for pancreatic ductal adenocarcinoma (PDA) chemotherapeutics
Authors: Layeghi-Ghalehsoukhteh Somayeh , Pal Choudhuri Shreoshi , Ocal Ozhan , Zolghadri Yalda , Pashkov Victor , Niederstrasser Hanspeter , Posner Bruce A. , Kantheti Havish S. , Azevedo-Pouly Ana C. , Huang Huocong , Girard Luc , MacDonald Raymond J. , Brekken Rolf A. , Wilkie Thomas M. 
Published: November 2020

AbstractPDA is a major cause of US cancer-related deaths. Oncogenic Kras presents in 90% of human PDAs. Kras mutations occur early in pre-neoplastic lesions but are insufficient to cause PDA. Other contributing factors early in disease progression include chronic pancreatitis, alterations in epigenetic regulators, and tumor suppressor gene mutation. GPCRs activate heterotrimeric G-proteins that stimulate intracellular calcium and oncogenic Kras signaling, thereby promoting pancreatitis and progression to PDA. By contrast, Rgs proteins inhibit Gi/q-coupled GPCRs to negatively regulate PDA progression. Rgs16::GFP is expressed in response to caerulein-induced acinar cell dedifferentiation, early neoplasia, and throughout PDA progression. In genetically engineered mouse models of PDA, Rgs16::GFP is useful for pre-clinical rapid in vivo validation of novel chemotherapeutics targeting early lesions in patients following successful resection or at high risk for progressing to PDA. Cultured primary PDA cells express Rgs16::GFP in response to cytotoxic drugs. A histone deacetylase inhibitor, TSA, stimulated Rgs16::GFP expression in PDA primary cells, potentiated gemcitabine and JQ1 cytotoxicity in cell culture, and Gem + TSA + JQ1 inhibited tumor initiation and progression in vivo. Here we establish the use of Rgs16::GFP expression for testing drug combinations in cell culture and validation of best candidates in our rapid in vivo screen.
Roles of two glutathione S-transferases in the final step of the β-aryl ether cleavage pathway in Sphingobium sp. strain SYK-6
Authors: Higuchi Yudai , Sato Daisuke , Kamimura Naofumi , Masai Eiji 
Published: November 2020

AbstractSphingobium sp. strain SYK-6 is an alphaproteobacterial degrader of lignin-derived aromatic compounds, which can degrade all the stereoisomers of β-aryl ether-type compounds. SYK-6 cells convert four stereoisomers of guaiacylglycerol-β-guaiacyl ether (GGE) into two enantiomers of α-(2-methoxyphenoxy)-β-hydroxypropiovanillone (MPHPV) through GGE α-carbon atom oxidation by stereoselective Cα-dehydrogenases encoded by ligD, ligL, and ligN. The ether linkages of the resulting MPHPV enantiomers are cleaved by stereoselective glutathione (GSH) S-transferases (GSTs) encoded by ligF, ligE, and ligP, generating (βR/βS)-α-glutathionyl-β-hydroxypropiovanillone (GS-HPV) and guaiacol. To date, it has been shown that the gene products of ligG and SLG_04120 (ligQ), both encoding GST, catalyze GSH removal from (βR/βS)-GS-HPV, forming achiral β-hydroxypropiovanillone. In this study, we verified the enzyme properties of LigG and LigQ and elucidated their roles in β-aryl ether catabolism. Purified LigG showed an approximately 300-fold higher specific activity for (βR)-GS-HPV than that for (βS)-GS-HPV, whereas purified LigQ showed an approximately six-fold higher specific activity for (βS)-GS-HPV than that for (βR)-GS-HPV. Analyses of mutants of ligG, ligQ, and both genes revealed that SYK-6 converted (βR)-GS-HPV using both LigG and LigQ, whereas only LigQ was involved in converting (βS)-GS-HPV. Furthermore, the disruption of both ligG and ligQ was observed to lead to the loss of the capability of SYK-6 to convert MPHPV. This suggests that GSH removal from GS-HPV catalyzed by LigG and LigQ, is essential for cellular GSH recycling during β-aryl ether catabolism.
Genome skimming and exploration of DNA barcodes for Taiwan endemic cypresses
Authors: Wu Chung-Shien , Sudianto Edi , Hung Yu-Mei , Wang Bo-Cyun , Huang Chiun-Jr , Chen Chi-Tsong , Chaw Shu-Miaw 
Published: November 2020

AbstractCypresses are characterized by their longevity and valuable timber. In Taiwan, two endemic cypress species, Chamaecyparis formosensis and C. obtusa var. formosana, are threatened by prevalent illegal logging. A DNA barcode system is urgently needed for reforestation and conservation of these two cypresses. In this study, both plastomes and 35S rDNAs from 16, 10, and 6 individuals of C. formosensis, C. obtusa var. formosana, and C. obtusa var. obtusa were sequenced, respectively. We show that the loss of plastid trnT-GGU readily distinguishes C. formosensis from its congeneric species. We demonstrate that entire sequences of plastomes or 35S rDNAs are capable of correctly identifying cypress species and varieties, suggesting that they are effective super-barcodes. We also discover three short hypervariable loci (i.e., 3′ETS, ITS1, and trnH-psbA) that are promising barcodes for identifying cypress species and varieties. Moreover, nine species-specific indels of > 100 bp were detected in the cypress plastomes. These indels, together with the three aforementioned short barcodes, constitute an alternative and powerful barcode system crucial for identifying specimens that are fragmentary or contain degraded/poor DNA. Our sequenced data and barcode systems not only enrich the genetic reference for cypresses, but also contribute to future reforestation, conservation, and forensic investigations.
Spatio-temporal processes drive fine-scale genetic structure in an otherwise panmictic seabird population
Authors: Garrett Lucy J. H. , Myatt Julia P. , Sadler Jon P. , Dawson Deborah A. , Hipperson Helen , Colbourne John K. , Dickey Roger C. , Weber Sam B. , Reynolds S. James 
Published: November 2020

AbstractWhen and where animals breed can shape the genetic structure and diversity of animal populations. The importance of drivers of genetic diversity is amplified in island populations that tend to have more delineated gene pools compared to continental populations. Studies of relatedness as a function of the spatial distribution of individuals have demonstrated the importance of spatial organisation for individual fitness with outcomes that are conditional on the overall genetic diversity of the population. However, few studies have investigated the impact of breeding timing on genetic structure. We characterise the fine-scale genetic structure of a geographically-isolated population of seabirds. Microsatellite markers provide evidence for largely transient within-breeding season temporal processes and limited spatial processes, affecting genetic structure in an otherwise panmictic population of sooty terns Onychoprion fuscatus. Earliest breeders had significantly different genetic structure from the latest breeders. Limited evidence was found for localised spatial structure, with a small number of individuals being more related to their nearest neighbours than the rest of the population. Therefore, population genetic structure is shaped by heterogeneities in collective movement in time and to a lesser extent space, that result in low levels of spatio-temporal genetic structure and the maintenance of genetic diversity.
Maternal DOT1L is dispensable for mouse development
Authors: Liao Ji , Szabó Piroska E. 
Published: November 2020

AbstractA battery of chromatin modifying enzymes play essential roles in remodeling the epigenome in the zygote and cleavage stage embryos, when the maternal genome is the sole contributor. Here we identify an exemption. DOT1L methylates lysine 79 in the globular domain of histone H3 (H3K79). Dot1l is an essential gene, as homozygous null mutant mouse embryos exhibit multiple developmental abnormalities and die before 11.5 days of gestation. To test if maternally deposited DOT1L is required for embryo development, we carried out a conditional Dot1l knockout in growing oocytes using the Zona pellucida 3-Cre (Zp3-Cre) transgenic mice. We found that the resulting maternal mutant Dot1lmat−/+ offspring displayed normal development and fertility, suggesting that the expression of the paternally inherited copy of Dot1l in the embryo is sufficient to support development. In addition, Dot1l maternal deletion did not affect the parental allele-specific expression of imprinted genes, indicating that DOT1L is not needed for imprint establishment in the oocyte or imprint protection in the zygote. In summary, uniquely and as opposed to other histone methyltransferases and histone marks, maternal DOT1L deposition and H3K79 methylation in the zygote and in the preimplantation stage embryo is dispensable for mouse development.
New perspective for evaluating the main Camellia oleifera cultivars in China
Authors: Deng Quanen , Li Jianan , Gao Chao , Cheng Junyong , Deng Xianzhen , Jiang Dezhi , Li Liang , Yan Ping 
Published: November 2020

AbstractTo assess the adaptability of Camellia oleifera for introduction in new growth locations, this study evaluated 10 representative C. oleifera cultivars from the main areas in China where this oil-producing evergreen crop is grown. Cluster analysis, correlation analysis, and membership function analysis were used to evaluate various indices of the selected C. oleifera cultivars, including flowering phenology, cold tolerance, leaf structure, pollen characteristics, and pollen viability. The correlation analysis identified the full blossoming time, leaf palisade and spongy tissue thickness, pollen deformity rate, and pollen activity as key indices for determining the adaptability of the cultivars to new areas. The membership function analysis of the 10 C. oleifera cultivars revealed the following order of adaptability: ‘XLC25’ > ‘Changlin4hao’ > ‘Ganzhouyou8hao’ > ‘Ganzhouyou6hao’ > ‘Tiechengyihao’ > ‘Eyou465’ > ‘XLC10’ > ‘Changlin3hao’ > ‘Changlin18hao’ > ‘QY235.’ When introducing C. oleifera cultivars to new regions, the higher-ranked cultivars are more likely to be successful. The results of this study may provide a new direction for the comprehensive assessment of plant introduction and domestication potential, i.e., the assessment of the vegetative and reproductive growth, adversity resistance, and blossoming time of plants.
Ocean acidification modifies biomolecule composition in organic matter through complex interactions
Authors: Grosse Julia , Endres Sonja , Engel Anja 
Published: November 2020

AbstractThe main source of marine organic carbon (OC) is autotrophic production, while heterotrophic degradation is its main sink. Increased anthropogenic CO2 release leads to ocean acidification and is expected to alter phytoplankton community composition, primary production rates and bacterial degradation processes in the coming decades with potential consequences for dissolved and particulate OC concentration and composition. Here we investigate effects of increased pCO2 on dissolved and particulate amino acids (AA) and carbohydrates (CHO), in arctic and sub-arctic planktonic communities in two large-scale mesocosm experiments. Dissolved AA concentrations responded to pCO2/pH changes during early bloom phases but did not show many changes after nutrient addition. A clear positive correlation in particulate AA was detected in post-bloom phases. Direct responses in CHO concentrations to changing pCO2/pH were lacking, suggesting that observed changes were rather indirect and dependent on the phytoplankton community composition. The relative composition of AA and CHO did not change as a direct consequence of pCO2 increase. Changes between bloom phases were associated with the prevailing nutrient status. Our results suggest that biomolecule composition will change under future ocean conditions but responses are highly complex, and seem to be dependent on many factors including bloom phase and sampling site.
Controlled elevated temperatures during early-mid gestation cause placental insufficiency and implications for fetal growth in pregnant pigs
Authors: Zhao Weicheng , Liu Fan , Bell Alan W. , Le Hieu H. , Cottrell Jeremy J. , Leury Brian J. , Green Mark P. , Dunshea Frank R. 
Published: November 2020

AbstractIt is known that pig offspring born from pregnant pigs exposed to elevated ambient temperatures during gestation have altered phenotypes, possibly due to placental insufficiency and impaired fetal growth. Therefore, the objective of this study was to quantify the effect of maternal heat exposure during early-mid gestation, when pig placentae grow heavily, on placental and fetal development. Fifteen pregnant pigs were allocated to thermoneutral (TN; 20 °C; n = 7) or cyclic elevated temperature conditions (ET; 28 to 33 °C; n = 8) from d40 to d60 of gestation. Following euthanasia of the pigs on d60, placental and fetal morphometry and biochemistry were measured. Compared to TN fetuses, ET fetuses had increased (P = 0.041) placental weights and a lower (P = 0.013) placental efficiency (fetal/placental weight), although fetal weights were not significantly different. Fetuses from ET pigs had reduced (P = 0.032) M. longissimus fibre number density and a thicker (P = 0.017) placental epithelial layer compared to their TN counterparts. Elevated temperatures decreased (P = 0.026) placental mRNA expression of a glucose transporter (GLUT-3) and increased (P = 0.037) placental IGF-2 mRNA expression. In conclusion, controlled elevated temperatures between d40 to d60 of gestation reduced pig placental efficiency, resulting in compensatory growth of the placentae to maintain fetal development. Placental insufficiency during early-mid gestation may have implications for fetal development, possibly causing a long-term phenotypic change of the progeny.
Protective effect of influenza vaccination on cardiovascular diseases: a systematic review and meta-analysis
Authors: Zangiabadian Moein , Nejadghaderi Seyed Aria , Mirsaeidi Mehdi , Hajikhani Bahareh , Goudarzi Mehdi , Goudarzi Hossein , Mardani Masoud , Nasiri Mohammad Javad 
Published: November 2020

AbstractCardiovascular diseases (CVDs) are among the leading causes of mortality and morbidity worldwide. There are many contrasting ideas on the effectiveness of influenza vaccination on CVDs. This study aimed to investigate the association between influenza vaccination and the risk of CVDs. We systematically searched all PubMed/Medline, EMBASE, and the Cochrane library entries up to November 2019 for studies of influenza vs. the CVDs outcomes. We conducted a random-effects meta‐analysis using the inverse variance method for pooled risk ratios (RR) or odds ratios (OR) and evaluated statistical heterogeneity using the I2 statistic. We identified 17 studies (6 randomized controlled trial [RCT], 5 cohorts, and 6 case–control) with a total of 180,043 cases and 276,898 control participants. The pooled RR of developing CVDs after influenza vaccination in RCT studies was 0.55 (95% CI 0.41–0.73), which was significant (P-value = 0.00). The pooled OR of decreasing CVDs after influenza vaccination in cohort studies was 0.89 (95% CI 0.77–1.04). The pooled OR of developing CVDs after influenza vaccination by pooling case–control studies was 0.70 (95% CI 0.57–0.86, (P-value = 0.00). All of these studies suggest decreased risks of CVDs with influenza vaccination. The current study does support the protective role of influenza vaccination on CVDs events. Health authorities may develop evidence-based preventive strategies to offer influenza vaccination in patients with CVDs.
Dysfunctional accessory gene regulator (agr) as a prognostic factor in invasive Staphylococcus aureus infection: a systematic review and meta-analysis
Authors: Lee Soon Ok , Lee Shinwon , Lee Jeong Eun , Song Kyoung-Ho , Kang Chang Kyung , Wi Yu Mi , San-Juan Rafael , López-Cortés Luis E. , Lacoma Alicia , Prat Cristina , Jang Hee-Chang , Kim Eu Suk , Kim Hong Bin , Lee Sun Hee 
Published: November 2020

AbstractThe accessory gene regulator (agr) locus of Staphylococcus aureus is a quorum-sensing virulence regulator. Although there are many studies concerning the effect of dysfunctional agr on the outcomes of S. aureus infection, there is no systematic review to date. We systematically searched for clinical studies reporting outcomes of invasive S. aureus infections and the proportion of dysfunctional agr among their causative strains, and we performed a meta-analysis to obtain estimates of the odds of outcomes of invasive S. aureus infection with dysfunctional versus functional agr. Of 289 articles identified by our research strategy, 20 studies were meta-analysed for crude analysis of the impact of dysfunctional agr on outcomes of invasive S. aureus infection. Dysfunctional agr was generally associated with unfavourable outcomes (OR 1.32, 95% CI 1.05–1.66), and the impact of dysfunctional agr on outcome was more prominent in invasive methicillin-resistant S. aureus (MRSA) infections (OR 1.54, CI 1.20–1.97). Nine studies were meta-analysed for the impact of dysfunctional agr on the 30-day mortality of invasive S. aureus infection. Invasive MRSA infection with dysfunctional agr exhibited higher 30-day mortality (OR 1.40, CI 1.03–1.90) than that with functional agr. On the other hand, invasive MSSA infection with dysfunctional agr exhibited lower 30-day mortality (OR 0.51, CI 0.27–0.95). In the post hoc subgroup analysis by the site of MRSA infection, dysfunctional agr was associated with higher 30-day mortality in MRSA pneumonia (OR 2.48, CI 1.17–5.25). The effect of dysfunctional agr on the outcome of invasive S. aureus infection may vary depending on various conditions, such as oxacillin susceptibility and the site of infection. Dysfunctional agr was generally associated with unfavourable clinical outcomes and its effect was prominent in MRSA and pneumonia. Dysfunctional agr may be applicable for outcome prediction in cases of invasive MRSA infection with hardly eradicable foci such as pneumonia.
The effect of calcium electroporation on viability, phenotype and function of melanoma conditioned macrophages
Authors: Tremble Liam Friel , Heffron Cynthia C. B. B. , Forde Patrick F. 
Published: November 2020

AbstractElectroporation in combination with chemotherapy is an established treatment used on solid malignancies that results in enhanced chemotherapeutic uptake. Recent advances have begun to transition to the use of non-toxic compounds, such as calcium, in lieu of chemotherapy, which can also induce tumour cell death. While the effect of treatment on tumour cell death has been well characterized and has been shown to induce an immunogenic form of cell death, the effect of treatment on intratumoural immune cells has not been investigated. Here we present data showing the effect of calcium electroporation on immune cells, using melanoma-conditioned bone marrow-derived macrophages. Similar to tumour cells, macrophage cell membranes are susceptible to poration following treatment and subsequently reseal. Macrophages are less susceptible to calcium electroporation induced cell death in comparison to B16F10 melanoma cells. However treatment with electroporation with or without bleomycin or calcium was shown to affect macrophage phenotype and function. Coculture of calcium electroporated macrophages revealed that both the capacity of macrophages to stimulate and direct T cell responses are affected following exposure to treatment. We conclude that calcium electroporation has the potential to boost the immunogenic capacity of exposed tumour associated macrophages, and further research is warranted to determine if calcium electroporation can be optimised to generate systemic anti-cancer immune responses.
Towards better heartbeat segmentation with deep learning classification
Authors: Silva Pedro , Luz Eduardo , Silva Guilherme , Moreira Gladston , Wanner Elizabeth , Vidal Flavio , Menotti David 
Published: November 2020

AbstractThe confidence of medical equipment is intimately related to false alarms. The higher the number of false events occurs, the less truthful is the equipment. In this sense, reducing (or suppressing) false positive alarms is hugely desirable. In this work, we propose a feasible and real-time approach that works as a validation method for a heartbeat segmentation third-party algorithm. The approach is based on convolutional neural networks (CNNs), which may be embedded in dedicated hardware. Our proposal aims to detect the pattern of a single heartbeat and classifies them into two classes: a heartbeat and not a heartbeat. For this, a seven-layer convolution network is employed for both data representation and classification. We evaluate our approach in two well-settled databases in the literature on the raw heartbeat signal. The first database is a conventional on-the-person database called MIT-BIH, and the second is one less uncontrolled off-the-person type database known as CYBHi. To evaluate the feasibility and the performance of the proposed approach, we use as a baseline the Pam-Tompkins algorithm, which is a well-known method in the literature and still used in the industry. We compare the baseline against the proposed approach: a CNN model validating the heartbeats detected by a third-party algorithm. In this work, the third-party algorithm is the same as the baseline for comparison purposes. The results support the feasibility of our approach showing that our method can enhance the positive prediction of the Pan-Tompkins algorithm from $$97.84\%$$

97.84
%

/$$90.28\%$$

90.28
%

to $$100.00\%$$

100.00
%

/$$96.77\%$$

96.77
%

by slightly decreasing the sensitivity from $$95.79\%$$

95.79
%

/$$96.95\%$$

96.95
%

to $$92.98\%/$$

92.98
%
/

$$95.71\%$$

95.71
%

on the MIT-BIH/CYBHi databases.