bluuebunny/crossref_metadata_2025_split huggingface dataset:
Geodynamic Modeling of Lithospheric Removal and Surface Deformation: Application to Intraplate Uplift in Central Mongolia
Authors: Comeau Matthew J. , Stein Claudia , Becken Michael , Hansen Ulrich 
Published: March 2021

AbstractIntraplate surface deformation is enigmatic and the underlying mechanisms responsible are not fully understood. We use thermo‐mechanical numerical modeling to explore the conditions under which lithospheric removal processes can occur and investigate the timing and amplitude of consequent surface deformation. We allow lithospheric removal to develop dynamically and self‐consistently by applying a phase transition and density jump that is hypothesized to be a consequence of metamorphic eclogitization in a thickened crust, rather than simply imposing an initial dense block. By systematically varying parameters, we test their influence and control on lithospheric removal. We confirm that a weak and dense lower crust, a hot crust‐mantle boundary, and a convergent regime are critical requirements for delamination‐style removal. We apply these results to central Mongolia, which is an ideal natural laboratory for studying intraplate surface uplift because of its high topography and location in the continental interior. We determine that the physical parameters and structure inferred in this region match the conditions for delamination. Thus, model outputs are evaluated against the available observational evidence. We find that the removal of the lithosphere by delamination can explain: the dome‐shaped topographic pattern and elevated surface; the thin lithosphere and its structure; the elevated temperature at the crust‐mantle boundary. Additionally, it is hypothesized that delamination leads to magmatism due to mantle decompression melting, consistent with intraplate volcanism. Ultimately, the results suggest that lithospheric removal by delamination is a physically plausible mechanism and a potential explanation for intraplate uplift.
Thermal and Chemical Evolution of Small, Shallow Water Bodies in Europa's Ice Shell
Authors: Chivers C. J. , Buffo J. J. , Schmidt B. E. 
Published: March 2021

AbstractThe highly modified surface of Europa's ice shell hides a global, salty ocean that may hold conditions favorable for life, and cycles in the ice shell likely impact those conditions by allowing material transfer between the surface and subsurface ocean. The Galileo spacecraft observed a number of young geologic features that indicated Europa's ice shell was recently or presently active, including lenticulae. Lenticulae, a collection of quasi‐elliptically shaped surface disruptions, have been suggested to form above relatively small bodies of water (∼10 km diameter) emplaced in the ice shell as shallow as 1 km below the surface. Here, we use numerical models to quantify the longevity of small bodies of water in Europa's ice shell and explore their chemical evolution to understand how shallow water impacts the composition of the ice shell and regional surface geology over time. We find that lenticulae are more geologically transient than previously described, and that if the reservoirs contain salts, up to meters‐thick layers of salt may precipitate during the solidification process. Our results imply that, if depressions are the first signs of liquid water emplaced in the ice shell, lenticulae may be actively forming at present day, suggesting liquid water may still be present in Europa's shallow ice which could form water plumes and affect its habitability.
Endothelial progenitor cells-derived exosomal microRNA-21-5p alleviates sepsis-induced acute kidney injury by inhibiting RUNX1 expression
Authors: Zhang Yue , Huang Hongdong , Liu Wenhu , Liu Sha , Wang Xue Yan , Diao Zong Li , Zhang Ai Hua , Guo Wang , Han Xue , Dong Xiaoqun , Katilov Oleksandr 
Published: March 2021

AbstractThe role of microRNA-21-5p (miR-21-5p) in sepsis-induced acute kidney injury (AKI) has been seldom discussed. Therefore, the objective of this present study was to investigate the mechanism of endothelial progenitor cells-derived exosomes (EPCs-exos) in sepsis-induced AKI via miR-21-5p/runt-related transcription factor 1 (RUNX1) axis. miR-21-5p was downregulated and RUNX1 was upregulated in the kidney of cecal ligation and puncture (CLP) rats, and miR-21-5p targeted RUNX1. Elevation of miR-21-5p improved renal function and renal tissue pathological damage, attenuated serum inflammatory response, as well as reduced apoptosis and oxidative stress response in renal tissues, and regulated endothelial glycocalyx damage marker proteins syndecan-1 and heparanase-1 in CLP rats. Overexpression of RUNX1 abolished the impacts of elevated miR-21-5p in CLP rats. Also, EPCs-exos upregulated miR-21-5p expression, and functioned similar to elevation of miR-21-5p for CLP rats. Downregulating miR-21-5p partially reversed the effects of EPCs-exos on sepsis-induced AKI. Collectively, our study suggests that EPCs release miR-21-5p-containing exosomes to alleviate sepsis-induced AKI through RUNX1 silencing.
Genetic diversity and selection signatures in maize landraces compared across 50 years of in situ and ex situ conservation
Authors: McLean-Rodríguez Francis Denisse , Costich Denise Elston , Camacho-Villa Tania Carolina , Pè Mario Enrico , Dell’Acqua Matteo 
Published: March 2021

AbstractGenomics-based, longitudinal comparisons between ex situ and in situ agrobiodiversity conservation strategies can contribute to a better understanding of their underlying effects. However, landrace designations, ambiguous common names, and gaps in sampling information complicate the identification of matching ex situ and in situ seed lots. Here we report a 50-year longitudinal comparison of the genetic diversity of a set of 13 accessions from the state of Morelos, Mexico, conserved ex situ since 1967 and retrieved in situ from the same donor families in 2017. We interviewed farmer families who donated in situ landraces to understand their germplasm selection criteria. Samples were genotyped by sequencing, producing 74,739 SNPs. Comparing the two sample groups, we show that ex situ and in situ genome-wide diversity was similar. In situ samples had 3.1% fewer SNPs and lower pairwise genetic distances (Fst0.008–0.113) than ex situ samples (Fst0.031–0.128), but displayed the same heterozygosity. Despite genome-wide similarities across samples, we could identify several loci under selection when comparing in situ and ex situ seed lots, suggesting ongoing evolution in farmer fields. Eight loci in chromosomes 3, 5, 6, and 10 showed evidence of selection in situ that could be related with farmers’ selection criteria surveyed with focus groups and interviews at the sampling site in 2017, including wider kernels and larger ear size. Our results have implications for ex situ collection resampling strategies and the in situ conservation of threatened landraces.
Molecular organization of recombinant human-Arabidopsis chromosomes in hybrid cell lines
Authors: Liu Yikun , Liaw Yeng Mun , Teo Chee How , Cápal Petr , Wada Naoki , Fukui Kiichi , Doležel Jaroslav , Ohmido Nobuko 
Published: March 2021

AbstractAlthough plants and animals are evolutionarily distant, the structure and function of their chromosomes are largely conserved. This allowed the establishment of a human-Arabidopsis hybrid cell line in which a neo-chromosome was formed by insertion of segments of Arabidopsis chromosomes into human chromosome 15. We used this unique system to investigate how the introgressed part of a plant genome was maintained in human genetic background. The analysis of the neo-chromosome in 60- and 300-day-old cell cultures by next-generation sequencing and molecular cytogenetics suggested its origin by fusion of DNA fragments of different sizes from Arabidopsis chromosomes 2, 3, 4, and 5, which were randomly intermingled rather than joined end-to-end. The neo-chromosome harbored Arabidopsis centromeric repeats and terminal human telomeres. Arabidopsis centromere wasn’t found to be functional. Most of the introgressed Arabidopsis DNA was eliminated during the culture, and the Arabidopsis genome in 300-day-old culture showed significant variation in copy number as compared with the copy number variation in the 60-day-old culture. Amplified Arabidopsis centromere DNA and satellite repeats were localized at particular loci and some fragments were inserted into various positions of human chromosome. Neo-chromosome reorganization and behavior in somatic cell hybrids between the plant and animal kingdoms are discussed.
In situ recordings of large gelatinous spheres from NE Atlantic, and the first genetic confirmation of egg mass of Illex coindetii (Vérany, 1839) (Cephalopoda, Mollusca)
Authors: Ringvold Halldis , Taite Morag , Allcock A. Louise , Vecchione Michael , Péan Michel , Sandulli Roberto , Johnsen Geir , Fjellheim Arne , Bakke Snorre , Sannæs Hanne , Synnes Ann-Elin Wårøy , Coronel José , Hansen Martin , Olejar Peter G. , Eliassen Geir , Eliassen Anita , Klungland Karl 
Published: March 2021

AbstractIn total, 90 gelatinous spheres, averaging one meter in diameter, have been recorded from ~ 1985 to 2019 from the NE Atlantic Ocean, including the Mediterranean Sea, using citizen science. More than 50% had a dark streak through center. They were recorded from the surface to ~ 60–70 m depth, mainly neutrally buoyant, in temperatures between 8 and 24°C. Lack of tissue samples has until now, prohibited confirmation of species. However, in 2019 scuba divers secured four tissue samples from the Norwegian coast. In the present study, DNA analysis using COI confirms species identity as the ommastrephid broadtail shortfin squid Illex coindetii (Vérany, 1839); these are the first confirmed records from the wild. Squid embryos at different stages were found in different egg masses: (1) recently fertilized eggs (stage ~ 3), (2) organogenesis (stages ~ 17–19 and ~ 23), and (3) developed embryo (stage ~ 30). Without tissue samples from each and every record for DNA corroboration we cannot be certain that all spherical egg masses are conspecific, or that the remaining 86 observed spheres belong to Illex coindetii. However, due to similar morphology and size of these spheres, relative to the four spheres with DNA analysis, we suspect that many of them were made by I. coindetii.
The effect of composition, microfluidization and process parameters on formation of oleogels for ice cream applications
Authors: Silva-Avellaneda E. , Bauer-Estrada K. , Prieto-Correa R. E. , Quintanilla-Carvajal M. X. 
Published: March 2021

AbstractThe use of oleogels is an innovative and economical option for the technological development of some food products, among them ice creams. The aim of this study was to establish the best processing conditions to obtain an emulsion which form oleogels with the lowest ζ-potential and average droplet size (ADS) for use as ice cream base. Using surface response methodology (SRM), the effects of three numerical factors (microfluidization pressure, oil and whey protein concentration, WP) and four categorical factors (oil type, temperature, surfactant, and type of WP) on formation of emulsions were assessed. The response variables were ζ, ADS, polydispersity index (PDI), viscosity (η), hardness, cohesiveness and springiness. Additionally, a numerical optimization was performed. Two ice creams containing milk cream and oleogel, respectively were compared under the optimization conditions. Results suggest oleogels obtained from the microfluidization of whey and high oleic palm oil are viable for the replacement of cream in the production of ice cream.
Computerized image understanding system for reliable estimation of spinal curvature in idiopathic scoliosis
Authors: Thalengala Ananthakrishna , Bhat Shyamasunder N. , Anitha H. 
Published: March 2021

AbstractAnalysis of scoliosis requires thorough radiographic evaluation by spinal curvature estimation to completely assess the spinal deformity. Spinal curvature estimation gives orthopaedic surgeons an idea of severity of spinal deformity for therapeutic purposes. Manual intervention has always been an issue to ensure accuracy and repeatability. Computer assisted systems are semi-automatic and is still influenced by surgeon’s expertise. Spinal curvature estimation completely relies on accurate identification of required end vertebrae like superior end-vertebra, inferior end-vertebra and apical vertebra. In the present work, automatic extraction of spinal information central sacral line and medial axis by computerized image understanding system has been proposed. The inter-observer variability in the anatomical landmark identification is quantified using Kappa statistic. The resultant Kappa value computed between proposed algorithm and observer lies in the range 0.7 and 0.9, which shows good accuracy. Identification of the required end vertebra is automated by the extracted spinal information. Difference in inter and intra-observer variability for the state of the art computer assisted and proposed system are quantified in terms of mean absolute difference for the various types (Type-I, Type-II, Type-III, Type-IV, and Type-V) of scoliosis.
Comparative genomics reveals insights into genetic variability and molecular evolution among sugarcane yellow leaf virus populations
Authors: Lu Jia-Ju , He Er-Qi , Bao Wen-Qing , Chen Jian-Sheng , Sun Sheng-Ren , Gao San-Ji 
Published: March 2021

AbstractYellow leaf disease caused by sugarcane yellow leaf virus (SCYLV) is one of the most prevalent diseases worldwide. In this study, six near-complete genome sequences of SCYLV were determined to be 5775–5881 bp in length. Phylogenetic analysis revealed that the two SCYLV isolates from Réunion Island, France, and four from China were clustered into REU and CUB genotypes, respectively, based on 50 genomic sequences (this study = 6, GenBank = 44). Meanwhile, all 50 isolates were clustered into three phylogroups (G1–G3). Twelve significant recombinant events occurred in intra- and inter-phylogroups between geographical origins and host crops. Most recombinant hotspots were distributed in coat protein read-through protein (RTD), followed by ORF0 (P0) and ORF1 (P1). High genetic divergences of 12.4% for genomic sequences and 6.0–24.9% for individual genes were determined at nucleotide levels. The highest nucleotide diversity (π) was found in P0, followed by P1 and RdRP. In addition, purifying selection was a main factor restricting variability in SCYLV populations. Infrequent gene flow between Africa and the two subpopulations (Asia and America) were found, whereas frequent gene flow between Asia and America subpopulations was observed. Taken together, our findings facilitate understanding of genetic diversity and evolutionary dynamics of SCYLV.
A comprehensive evaluation of the potential of semiterrestrial isopods, Ligia exotica, as a new animal food
Authors: Xu Lele , Li Yongqin , Liu Yao , Mi Haifeng , Jiang Xiang , Sun Yulin , Zhao Haiyong , Chen Daohai , Wang Liyun 
Published: March 2021

AbstractThe semiterrestrial isopod, Ligia exotica represents one of the oldest documented species introductions of marine organisms and is known as an intermediate form between marine and strictly terrestrial isopods. In order to explore the potential value of Ligia as an animal food source, this study focused on the growth rate under laboratory rearing conditions and conducted a detailed analysis of the overall nutrient content of the species in comparison to two other marine food media (krill and fish meal). Evaluation of the growth rate of juveniles suggests it is a relatively fast-growing species of the Ligiidae family. The essential amino acids content Ligia meal is the lowest amongst the three studied media but the proportion of flavor amino acids, and in particular taurine, was higher. The most restricted amino acids of isopod meal are methionine and cysteine. The significantly unbalanced amino acid composition of Ligia meal may affect the absorption and utilization by consumers. In terms of fatty acids, the total polyunsaturated fatty acids in the isopod is very low. A total of 12 vitamins were examined. The VK1, VE, VB2, VB3, VB5 content of isopod meal were significantly higher than those of krill meal and fish meal. Similarly, most of the 11 mineral elements are highest in the isopod meal. Ligia therefore offers potential as an alternative natural food source in animal given the growth rate under culture and the overall nutrient content. But Ligia collected in most of the field would be deemed unfit for human consumption because of the relatively low nutritional value and heavy metal content exceeding the provided standard. Further study is warranted to elucidate the biological characteristics of isopods and how its diet is reflected in its nutritional value to consumers.
Integration of multi-omics approaches for functional characterization of muscle related selective sweep genes in Nanchukmacdon
Authors: Arora Devender , Srikanth Krishnamoorthy , Lee Jongin , Lee Daehwan , Park Nayoung , Wy Suyeon , Kim Hyeonji , Park Jong-Eun , Chai Han-Ha , Lim Dajeong , Cho In-Cheol , Kim Jaebum , Park Woncheoul 
Published: March 2021

AbstractPig as a food source serves daily dietary demand to a wide population around the world. Preference of meat depends on various factors with muscle play the central role. In this regards, selective breeding abled us to develop “Nanchukmacdon” a pig breeds with an enhanced variety of meat and high fertility rate. To identify genomic regions under selection we performed whole-genome resequencing, transcriptome, and whole-genome bisulfite sequencing from Nanchukmacdon muscles samples and used published data for three other breeds such as Landrace, Duroc, Jeju native pig and analyzed the functional characterization of candidate genes. In this study, we present a comprehensive approach to identify candidate genes by using multi-omics approaches. We performed two different methods XP-EHH, XP-CLR to identify traces of artificial selection for traits of economic importance. Moreover, RNAseq analysis was done to identify differentially expressed genes in the crossed breed population. Several genes (UGT8, ZGRF1, NDUFA10, EBF3, ELN, UBE2L6, NCALD, MELK, SERP2, GDPD5, and FHL2) were identified as selective sweep and differentially expressed in muscles related pathways. Furthermore, nucleotide diversity analysis revealed low genetic diversity in Nanchukmacdon for identified genes in comparison to related breeds and whole-genome bisulfite sequencing data shows the critical role of DNA methylation pattern in identified genes that leads to enhanced variety of meat. This work demonstrates a way to identify the molecular signature and lays a foundation for future genomic enabled pig breeding.
Multicenter prospective surveillance study of viral agents causing meningoencephalitis
Authors: Törün Selda Hançerli , Kaba Özge , Yakut Nurhayat , Kadayıfçı Eda Kepenekli , Kara Manolya , Yanartaş Mehpare Sarı , Somer Ayper , Duramaz Burcu Bursal , Türel Özden , Dalgıç Nazan , Alp Emel Ekşi , Salı Enes , Çakır Deniz , Önal Pınar , Çokuğraş Haluk , Aygün Fatma Deniz , Karbuz Adem , Önel Mustafa , Meşe Sevim , Ağaçfidan Ali 
Published: March 2021

AbstractThe frequency of bacterial factors causing central nervous system infections has decreased as a result of the development of our national immunization program. In this study, it is aimed to obtain the data of our local surveillance by defining the viral etiology in cases diagnosed with meningoencephalitis for 1 year. Previously healhty 186 children, who applied with findings suggesting viral meningoencephalitis to 8 different tertiary health centers between August 2018 and August 2019, in Istanbul, were included. The cerebrospinal fluid (CSF) sample was evaluated by polymerase chain reaction. The M:F ratio was 1.24 in the patient group, whose age ranged from 1 to 216 months (mean 40.2 ± 48.7). Viral factor was detected in 26.8%. Enterovirus was the most common agent (24%) and followed by Adenovirus (22%) and HHV type 6 (22%). In the rest of the samples revealed HHV type 7 (10%), EBV (6%), CMV (6%), HSV type 1 (6%), Parvovirus (4%) and VZV (2%). The most common symptoms were fever (79%) and convulsions (45.7%). Antibiotherapy and antiviral therapy was started 48.6% and 4% respectively. Mortality and sequela rate resulted 0.53% and 3.7%, respectively. This highlights the importance of monitoring trends in encephalitis in Turkey with aview to improving pathogen diagnosis for encephalitis and rapidly identifying novel emerging encephalitis-causing pathogens that demand public health action especially in national immunisation programme.
Construction of dominant rice population under dry cultivation by seeding rate and nitrogen rate interaction
Authors: Jiang Hao , Thobakgale Tebogo , Li Yunzhe , Liu Liwei , Su Qingwang , Cang Baifeng , Bai Chenyang , Li Jiayi , Song Ze , Wu Meikang , Wang Dongchao , Cui Jingjing , Wei Xiaoshuang , Wu Zhihai 
Published: March 2021

AbstractThis study used the rice cultivar Suijing 18 to investigate the effects of morphological characteristics, photosynthetic changes, yield, as well as nitrogen absorption and utilization. The interaction between seeding rate and nitrogen rate was also assessed to identify the most suitable values of the dominant population for both factors under dry cultivation. Furthermore, the photosynthetic physiological characteristics of the upper three leaves in the dominant population were also explored. The results showed that a combination of 195 kg/ha seeding rate and 140 kg/ha nitrogen rate achieved high yield, high nitrogen utilization, and moderate morphological characteristics. This was achieved by a coordination of the combined advantages of population panicle number and spikelets per panicle. The photosynthetic potential of the population was improved by coordinating the reasonable distribution of light energy in the upper three leaves, which led to the emergence of a dominant rice population under dry cultivation.
Proteomics study on the effect of silybin on cardiomyopathy in obese mice
Authors: Wang Fei , Li Zelin , Song Tiantian , Jia Yujiao , Qi Licui , Ren Luping , Chen Shuchun 
Published: March 2021

AbstractDue to the increase in the number of obese individuals, the incidence of obesity-related complications such as cardiovascular disease and type 2 diabetes is higher. The aim of the present study was to explore the effects of silybin on protein expression in obese mice. Firstly, serum was collected, and it was used to detect serum lipids and other serological indicators. Secondly, total protein from epididymal adipose tissue was extracted for differential expression analysis by quantitative tandem mass tag (TMT) combined with liquid chromatography-tandem mass spectrometry (LC–MS/MS), followed by bioinformatics and protein–protein interaction (PPI) network analyses of these proteins. Lastly, real-time polymerase chain reaction (RT-PCR) and parallel reaction monitoring (PRM) were used to further validate the expression of identified differentially expressed proteins (DEPs) at the mRNA and protein level, respectively. The results revealed that silybin could improve abnormal lipid metabolism caused by the high fat diet in obese mice. A total of 341, 538 and 243 DEPs were found in the high fat/control (WF/WC), silybin/high fat (WS/WF) and WS/WC groups, respectively. These DEPs mainly participated in lipid metabolism and energy metabolism. Notably, tropomyosin 1 (TPM1), myosin light chain 2 (MYL2), myosin heavy chain 11 (MYH11) and other DEPs were involved in hypertrophic cardiomyopathy, dilated cardiomyopathy and other pathways. Silybin could protect cardiac function by inducing the protein expression of TPM1, MYL2 and MYH11 in the adipose tissue of obese mice.