bluuebunny/crossref_metadata_2025_split huggingface dataset:
Morphology is not a reliable taxonomic tool for the genus Lernaea: molecular data and experimental infection reveal that L. cyprinacea and L. cruciata are conspecific
Authors: Hua Cong J. , Zhang Dong , Zou Hong , Li Ming , Jakovlić Ivan , Wu Shan G. , Wang Gui T. , Li Wen X. 
Published: December 2019

AbstractBackgroundSpecies belonging to the genusLernaeaare cosmopolitan parasites that can infect many different freshwater fish hosts. Due to a high degree of morphological intraspecific variability and high levels of interspecific similarities, their classification is extremely difficult and controversial. Although the suitability of the shape of cephalic horns has been questioned decades ago by some experimental infection studies, this character still plays the central role in the identification ofLernaeaspp.MethodsWe used the nominal speciesLernaea cyprinaceaandLernaea cruciatato test the hypothesis that the shape of the anchor can exhibit host-induced morphological variability, and that the two taxa may be synonymous.ResultsWe examined 517 wild or farmed specimens of five host fish species (four cyprinids and a mosquitofish), and found that all 16 parasite specimens collected from mosquitofish could be morphologically identified asL. cruciata, whereas the remaining 25 parasite specimens were all identified asL. cyprinacea. We experimentally infected goldfish and mosquitofish specimens with offspring (copepodids) of a singleL. cyprinaceaspecimen: the adult parasites from goldfish were morphologically identified asL. cyprinacea, and those from mosquitofish asL. cruciata. We then used molecular data to corroborate that all these specimens are conspecific.ConclusionsOur results suggest thatL. cyprinaceaandL. cruciatamay be synonyms, misidentified as different species as a result of host-induced morphological variation. Given the current shortage of molecular data for the genusLernaea, in order to resolve the taxonomy of this genus (determine the exact number of species), future studies should aim to sequence as much molecular data as possible, and conduct further experimental infections.
Transcriptome-based analysis of putative allergens of Chorioptes texanus
Authors: He Ran , Gu Xiao-Bin , Xie Yue , Peng Xue-Rong , Angel Christiana , Yang Guang-You 
Published: December 2019

AbstractBackgroundMites of the genusChorioptesare non-burrowing and cause mange in a wide range of domestic and wild animals including cattle, horses, sheep, goats, panda, moose, camelids, mydaus and alpacas. Molecular biology and host-parasite interactions ofChorioptes texanusare poorly understood, and only a fewC. texanusgenes and transcript sequences are available in public databases including the allergen genes.MethodsChorioptes texanusRNA was isolated from mites, and the transcriptome ofC. texanuswas analyzed using bioinformatics tools.Chorioptes texanusunigenes were compared with the allergen protein sequences from the mite allergen database website to predict the potential allergens.Chorioptes texanusputative allergen unigenes were compared with hydrolase genes by building aC. texanushydrolase gene library with the best match of the homologous sequences. Three allergen genes were cloned and expressed, their recombinant proteins were purified and their allergenic activities were preliminarily investigated.ResultsTranscriptome sequencing (RNA-Seq) ofC. texanuswas analyzed and results demonstrated that 33,138 unigenes were assembled with an average length of 751 bp. A total of 15,130 unigenes were annotated and 5598 unigenes were enriched in 262 KEGG signaling pathways. We obtained 209 putative allergen genes and 34 putative allergen-hydrolase genes. Three recombinant allergen proteins were observed to induce different degrees of allergic reactions on rabbit skin.ConclusionsThe present transcriptome data provide a useful basis for understanding the host-parasite interaction and molecular biology of theC. texanusmite. The allergenic activities of recombinantEuroglyphus maynei1-like (Eur m 1-like) protein,Dermatophagoides ptreronyssinus1-like (Der p 1-like) protein andDermatophagoides ptreronyssinus7-like (Der p 7-like) protein were preliminarily investigated by intradermal skin test. Meanwhile, differences in eosinophil counts were observed in different injected sites of the skin. The identification of putative allergen genes and hydrolase genes offers opportunities for the development of new diagnostic, prevention and treatment methods.
Nested plant LTR retrotransposons target specific regions of other elements, while all LTR retrotransposons often target palindromes and nucleosome-occupied regions: in silico study
Authors: Jedlicka Pavel , Lexa Matej , Vanat Ivan , Hobza Roman , Kejnovsky Eduard 
Published: December 2019

Abstract
Background
Nesting is common in LTR retrotransposons, especially in large genomes containing a high number of elements.

Results
We analyzed 12 plant genomes and obtained 1491 pairs of nested and original (pre-existing) LTR retrotransposons. We systematically analyzed mutual nesting of individual LTR retrotransposons and found that certain families, more often belonging to the Ty3/gypsy than Ty1/copia superfamilies, showed a higher nesting frequency as well as a higher preference for older copies of the same family (“autoinsertions”). Nested LTR retrotransposons were preferentially located in the 3’UTR of other LTR retrotransposons, while coding and regulatory regions (LTRs) are not commonly targeted. Insertions displayed a weak preference for palindromes and were associated with a strong positional pattern of higher predicted nucleosome occupancy. Deviation from randomness in target site choice was also found in 13,983 non-nested plant LTR retrotransposons.

Conclusions
We reveal that nesting of LTR retrotransposons is not random. Integration is correlated with sequence composition, secondary structure and the chromatin environment. Insertion into retrotransposon positions with a low negative impact on family fitness supports the concept of the genome being viewed as an ecosystem of various elements.
High-content screening image dataset and quantitative image analysis of Salmonella infected human cells
Authors: Antoniou Antony N. , Powis Simon J. , Kriston-Vizi Janos 
Published: December 2019

Abstract
Objectives
Salmonella bacteria can induce the unfolded protein response, a cellular stress response to misfolding proteins within the endoplasmic reticulum. Salmonella can exploit the host unfolded protein response leading to enhanced bacterial replication which was in part mediated by the induction and/or enhanced endo-reticular membrane synthesis. We therefore wanted to establish a quantitative confocal imaging assay to measure endo-reticular membrane expansion following Salmonella infections of host cells.

Data description
High-content screening confocal fluorescence microscopic image set of Salmonella infected HeLa cells is presented. The images were collected with a PerkinElmer Opera LX high-content screening system in seven 96-well plates, 50 field-of-views and DAPI, endoplasmic reticulum tracker channels and Salmonella mCherry protein in each well. Totally 93,300 confocal fluorescence microscopic images were published in this dataset. An ImageJ high-content image analysis workflow was used to extract features. Cells were classified as infected and non-infected, the mean intensity of endoplasmic reticulum tracker under Salmonella bacteria was calculated. Statistical analysis was performed by an R script, quantifying infected and non-infected cells for wild-type and ΔsifA mutant cells. The dataset can be further used by researchers working with big data of endoplasmic reticulum fluorescence microscopic images, Salmonella bacterial infection images and human cancer cells.
In vivo conversion of rat astrocytes into neuronal cells through neural stem cells in injured spinal cord with a single zinc-finger transcription factor
Authors: Zarei-Kheirabadi Masoumeh , Hesaraki Mahdi , Kiani Sahar , Baharvand Hossein 
Published: December 2019

Abstract
Background
Spinal cord injury (SCI) results in glial scar formation and irreversible neuronal loss, which finally leads to functional impairments and long-term disability. Our previous studies have demonstrated that the ectopic expression of Zfp521 reprograms fibroblasts and astrocytes into induced neural stem cells (iNSCs). However, it remains unclear whether treatment with Zfp521 also affects endogenous astrocytes, thus promoting further functional recovery following SCI.

Methods
Rat astrocytes were transdifferentiated into neural stem cells in vitro by ZFP521 or Sox2. Then, ZFP521 was applied to the spinal cord injury site of a rat. Transduction, real-time PCR, immunohistofluorescence, and function assessments were performed at 6 weeks post-transduction to evaluate improvement and in vivo lineage reprogramming of astrocytes.

Results
Here, we show that Zfp521 is more efficient in reprogramming cultured astrocytes compared with Sox2. In the injured spinal cord of an adult rat, resident astrocytes can be reprogrammed into neurons through a progenitor stage by Zfp521. Importantly, this treatment improves the functional abilities of the rats as evaluated by the Basso, Beattie, and Bresnahan (BBB) locomotor rating scale and further by calculation of its subscores. There was enhanced locomotor activity in the hind limbs, step length, toe spread, foot length, and paw area. In addition, motor evoked potential recordings demonstrated the functional integrity of the spinal cord.

Conclusions
These results have indicated that the generation of iNSCs or neurons from endogenous astrocytes by in situ reprogramming might be a potential strategy for SCI repair.

Graphical abstract
SOX19b regulates the premature neuronal differentiation of neural stem cells through EZH2-mediated histone methylation in neural tube development of zebrafish
Authors: Li Xian , Zhou Wenjuan , Li Xinyue , Gao Ming , Ji Shufang , Tian Wenyu , Ji Guangyu , Du Jingyi , Hao Aijun 
Published: December 2019

Abstract
Objective
Neural tube defects (NTDs) are the most serious and common birth defects in the clinic. The SRY-related HMG box B1 (SoxB1) gene family has been implicated in different processes of early embryogenesis. Sox19b is a maternally expressed gene in the SoxB1 family that is found in the region of the presumptive central nervous system (CNS), but its role and mechanism in embryonic neural stem cells (NSCs) during neural tube development have not yet been explored. Considering that Sox19b is specific to bony fish, we intended to investigate the role and mechanism of Sox19b in neural tube development in zebrafish embryos.

Material and methods
Morpholino (MO) antisense oligonucleotides were used to construct a Sox19b loss-of-function zebrafish model. The phenotype and the expression of related genes were analysed by in situ hybridization and immunolabelling. Epigenetic modifications were detected by western blot and chromatin immunoprecipitation.

Results
In this study, we found that zebrafish embryos exhibited a reduced or even deleted forebrain phenotype after the expression of the Sox19b gene was inhibited. Moreover, we found for the first time that knockdown of Sox19b reduced the proliferation of NSCs; increased the transcription levels of Ngn1, Ascl1, HuC, Islet1, and cyclin-dependent kinase (CDK) inhibitors; and led to premature differentiation of NSCs. Finally, we found that knockdown of Sox19b decreased the levels of EZH2/H3K27me3 and decreased the level of H3K27me3 at the promoters of Ngn1 and ascl1a.

Conclusion
Together, our data demonstrate that Sox19b plays an essential role in early NSC proliferation and differentiation through EZH2-mediated histone methylation in neural tube development. This study established the role of transcription factor Sox19b and epigenetic factor EZH2 regulatory network on NSC development, which provides new clues and theoretical guidance for the clinical treatment of neural tube defects.
A social trust and preference segmentation-based matrix factorization recommendation algorithm
Authors: Peng Wei , Xin Baogui 
Published: December 2019

AbstractA recommendation can inspire potential demands of users and make e-commerce platforms more intelligent and is essential for e-commerce enterprises’ sustainable development. The traditional social recommendation algorithm ignores the following fact: the preferences of users with trust relationships are not necessarily similar, and the consideration of user preference similarity should be limited to specific areas. To solve these problems mentioned above, we propose a social trust and preference segmentation-based matrix factorization (SPMF) recommendation algorithm. Experimental results based on the Ciao and Epinions datasets show that the accuracy of the SPMF algorithm is significantly superior to that of some state-of-the-art recommendation algorithms. The SPMF algorithm is a better recommendation algorithm based on distinguishing the difference of trust relations and preference domain, which can support commercial activities such as product marketing.
Lifestyle interventions to maternal weight loss after birth: a systematic review
Authors: Christiansen Pernille Kjaergaard , Skjøth Mette Maria , Rothmann Mette Juel , Vinter Christina Anne , Lamont Ronald Francis , Draborg Eva 
Published: December 2019

Abstract
Background
Over the past decades, there has been an increase in overweight and obesity in women of childbearing age, as well as the general population. Overweight and obesity are related to a later, increased risk of type 2 diabetes and cardiovascular diseases. Increasing weight between pregnancies has a negative impact on the development of the fetus in a subsequent pregnancy. It is also related to long-term obesity and overweight for the woman. Accordingly, weight control in women of the childbearing age is important for both women and their offspring. Information and communication technology (ICT) has become an integrated part of many peoples’ lives, and it has the potential to prevent disease. In this systematic review, we summarize the evidence from randomized controlled trials to compare effects of different ICT-based interventions to support postpartum women to achieve weight loss.

Methods
A systematic search was performed in PubMed, Embase, PsycInfo, CINAHL, Web of Science, Scopus, and Cochrane, searching on terms, such as postpartum, weight loss, telemedicine, and randomized controlled trials. Two independent researchers undertook study selection and data extraction. Results were reported narratively. The systematic review only included studies that were randomized controlled trials.

Results
Eight studies were included in the systematic review. All of them were characterized by applying one or more ICT components to assist postpartum women in weight control, and had weight loss as an outcome measure. A significant difference was found in weight loss between control group and intervention group in the majority of the studies. However, five of the studies had a relatively short follow-up period (40 days to 16 weeks), six of the studies had a relatively small sample size (18 to 66 women), and half of the studies indicated challenges with adherence to the interventions over time.

Conclusion
ICT-based interventions can support postpartum women to achieve a healthy lifestyle and weight control. Future studies should focus on larger sample sizes, longer follow-up periods, and adherence to the interventions.

Systematic review registration
PROSPERO CRD42018080731
Feasibility and acceptability of living systematic reviews: results from a mixed-methods evaluation
Authors: Millard Tanya , Synnot Anneliese , Elliott Julian , Green Sally , McDonald Steve , Turner Tari 
Published: December 2019

Abstract
Background
Living systematic reviews (LSRs) offer an approach to keeping high-quality evidence synthesis continually up to date, so the most recent, relevant and reliable evidence can be used to inform policy and practice, resulting in improved quality of care and patient health outcomes. However, they require modifications to authoring and editorial processes and pose technical and publishing challenges. Several teams within Cochrane and the international Living Evidence Network have been piloting living systematic reviews.

Methods
We conducted a mixed-methods evaluation with participants involved in six LSRs (three Cochrane and three non-Cochrane). Up to three semi-structured interviews were conducted with 27 participants involved with one or more of the pilot LSRs. Interviews explored participants’ experiences contributing to the LSR, barriers and facilitators to their conduct and opportunities for future development. Pilot team members also completed monthly surveys capturing time for key tasks and the number of citations screened for each review.

Results
Across the pilot LSRs, search frequency was monthly to three-monthly, with some using tools such as machine learning and Cochrane Crowd to screen searches. Varied approaches were used to communicate updates to readers. The number of citations screened varied widely between the reviews, from three to 300 citations per month. The amount of time spent per month by the author team on each review also varied from 5 min to 32 h. Participants were enthusiastic to be involved in the LSR pilot. They highlighted the importance of a motivated and well-organised team; the value of technology enablers to improve workflow efficiencies; the need to establish reliable and efficient processes to sustain living reviews; and the potential for saving time and effort in the long run. Participants highlighted challenges with the current publication processes, managing ongoing workload and the lack of resources to support LSRs in the long term.

Conclusions
Findings to date support feasibility and acceptability of LSR production. There are challenges that need to be addressed for living systematic reviews to be sustainable and have maximum value. The findings from this study will be used in discussions with the Cochrane community, key decision makers and people more broadly concerned with LSRs to identify and develop priorities for scale-up.
Existence of solution for 2-D time-fractional differential equations with a boundary integral condition
Authors: Kasmi Lotfi , Guerfi Amara , Mesloub Said 
Published: December 2019

AbstractIn this article, we prove the existence and uniqueness of a solution for 2-dimensional time-fractional differential equations with classical and integral boundary conditions. We start by writing this problem in the operator form and we choose suitable spaces and norms. Then we establish prior estimates from which we deduce the uniqueness of the strong solution. For the existence of solution for the fractional problem, we prove that the range of the operator generated by the considered problem is dense.
Appropriateness of antimicrobial use among septic patients managed by the critical care response team: an opportunity for improvement through de-escalation
Authors: Al-Qahtani Saad M. , Baffoe-Bonnie Henry , El-Saed Aiman , Alshamrani Majid , Algwizani Abdullah , Alaklabi Ali , AlJoudi Khuloud , Albaalharith Nahlah , Mohammed Azzam , Hussain Sajid , Balkhy Hanan H. 
Published: December 2019

Abstract
Background
Most septic patients managed by critical care response teams (CCRT) are prescribed antimicrobials. Nevertheless, data evaluating their appropriateness are lacking both locally and internationally. The objective was to assess antimicrobial use among septic and non-septic patients managed by CCRT.

Setting
Case-control design was used to compare septic (cases) and non-septic (controls) CCRT patients at tertiary care setting. The frequency of antimicrobial use was assessed before and after CCRT activation. The appropriateness of antimicrobial use was assessed at day four post-CCRT, based on standard recommendations, clinical assessment, and culture results.

Main results
A total of 157 cases and 158 controls were included. The average age was 61.1 ± 20.4 years, and 54.6% were males, with minor differences between groups. The use of any antimicrobial was 100.0% in cases and 87.3% in controls (p < 0.001). The use of meropenem (68.2% versus 34.8%, p < 0.001) and vancomycin (56.7% versus 25.9%, p < 0.001) were markedly higher in cases than controls. The overall appropriateness was significantly lower in cases than controls (50.7% versus 59.6%, p = 0.047). Individual appropriateness was lowest with meropenem (16.7%) and imipenem (25.0%), and highest with piperacillin/tazobactam (87.1%) and colistin (78.3%). Only 48.5% of antimicrobials prescribed by CCRT were de-escalated by a primary team within four days. Individual appropriateness and de-escalations were not different between groups.

Conclusions
Empiric use and inadequate de-escalation of broad-spectrum antimicrobials were major causes for inappropriate antimicrobial use in CCRT patients. Our findings highlight the necessity of urgent implementation of an antimicrobial stewardship program, including training and auditing of antimicrobial prescriptions.
Causal effect of mergers and acquisitions on EU bank productivity
Authors: Aljadani Abdussalam , Toumi Hassen 
Published: December 2019

AbstractThis paper examines the causal effect of mergers and acquisitions (M&A) on bank productivity (Q) in 23 European Union countries and the short- and long-term relationship among fixed assets (k1), liquid assets (k2), and labour (L) over the period 1990–2013 for a sample of 156 commercial banks, of which 60 entities have acquired at least one other entity. Granger causality tests on our results reveal unidirectional causality from liquid assets to fixed assets. However, the causality between K2 and L is unobservable, and the linkage between fixed assets and labour is bidirectional. The error correction term (ECT) is negative and statistically significant for all models, which denotes the presence of bidirectional relationship among all selected variables and long-term unidirectional causality from mergers and acquisitions to bank productivity. Our long-term dynamic panel estimates indicate that the strategic fit of mergers and acquisitions has the potential to create long-term productivity improvement.
Hypocenter relocation of the aftershocks of the Mw 7.5 Palu earthquake (September 28, 2018) and swarm earthquakes of Mamasa, Sulawesi, Indonesia, using the BMKG network data
Authors: Supendi Pepen , Nugraha Andri Dian , Widiyantoro Sri , Abdullah Chalid Idham , Puspito Nanang T. , Palgunadi Kadek Hendrawan , Daryono D. , Wiyono Samsul Hadi 
Published: December 2019

AbstractOn September 28, 2018, the Mw 7.5 earthquake occurred in Palu, Central Sulawesi, Indonesia. This earthquake produced strong tremors, landslides, liquefaction and a tsunami and caused thousands of fatalities and damaged houses and infrastructure. We have relocated 386 of the 554 Palu aftershocks by using the double-difference relocation method (hypoDD) from September 28 to November 22, 2018. The aftershock pattern is consistent with the crustal deformation in the area and generally shows that the events have a NW–SE trending of ~ 200 km in length and ~ 50 km in width. Most of the aftershocks are located to the east of the Palu-Koro Fault Line. Since November 2, 2018, there have been hundreds of swarm earthquakes in the area of Mamasa, West Sulawesi, which is about 230 km south of the city of Palu. Some of these earthquakes were felt, and houses were even damaged. We have relocated 535 of the 556 swarm earthquakes having a magnitude of M 2 to M 5.4. Our results show that the seismicity pattern has a dip that becomes shallower to the west (dipping at a ~ 45° angle) and extends from north to south for a length of ~ 50 km. We also conducted a focal mechanism analysis to estimate the type of fault slip for selected events of an M > 4.5 magnitude. Most of the solutions of the focal mechanism analysis show a normal fault type. This swarm earthquake probably corresponds to the activity of the fault in the local area.