bluuebunny/crossref_metadata_2025_split huggingface dataset:
Whole-genome transcriptome and DNA methylation dynamics of pre-implantation embryos reveal progression of embryonic genome activation in buffaloes
Authors: Fu Penghui , Zhang Du , Yang Chunyan , Yuan Xiang , Luo Xier , Zheng Haiying , Deng Yanfei , Liu Qingyou , Cui Kuiqing , Gao Fei , Shi Deshun 
Published: July 2023

Abstract
Background
During mammalian pre-implantation embryonic development (PED), the process of maternal-to-zygote transition (MZT) is well orchestrated by epigenetic modification and gene sequential expression, and it is related to the embryonic genome activation (EGA). During MZT, the embryos are sensitive to the environment and easy to arrest at this stage in vitro. However, the timing and regulation mechanism of EGA in buffaloes remain obscure.

Results
Buffalo pre-implantation embryos were subjected to trace cell based RNA-seq and whole-genome bisulfite sequencing (WGBS) to draw landscapes of transcription and DNA-methylation. Four typical developmental steps were classified during buffalo PED. Buffalo major EGA was identified at the 16-cell stage by the comprehensive analysis of gene expression and DNA methylation dynamics. By weighted gene co-expression network analysis, stage-specific modules were identified during buffalo maternal-to-zygotic transition, and key signaling pathways and biological process events were further revealed. Programmed and continuous activation of these pathways was necessary for success of buffalo EGA. In addition, the hub gene, CDK1, was identified to play a critical role in buffalo EGA.

Conclusions
Our study provides a landscape of transcription and DNA methylation in buffalo PED and reveals deeply the molecular mechanism of the buffalo EGA and genetic programming during buffalo MZT. It will lay a foundation for improving the in vitro development of buffalo embryos.

Graphical Abstract
New insights into phylogenetic relationships of Rhabdocoela (Platyhelminthes) including members of Mariplanellida
Authors: Vicente-Hernández Íñigo , Armonies Werner , Henze Katharina , Aguado M. Teresa 
Published: July 2023

Abstract
Background
Previous flatworm phylogenetic research has been carried out analysing 18S and 28S DNA markers. Through this methodology, Mariplanellinae subfamily has been recently re-classified as Mariplanellida status novus. This new classification implied that 3 genera belonged to Mariplanellida: Mariplanella, Lonchoplanella and Poseidoplanella. In this study, we aim to clarify some of the relationships within Rhabdocoela analysing 18S and 28S DNA markers of a total of 91 species through Maximum Likelihood and Bayesian Inference methodologies. A total of 11 species and genera, including Lonchoplanella, from the island of Sylt are included and had not previously been involved in any molecular phylogenetic analyses.

Results
Our phylogenetic results support Mariplanellida as an independent group within Rhabdocoela and its status as an infraorder. Our study suggests that Lonchoplanella axi belongs to Mariplanellida. Within Rhabdocoela, Haloplanella longatuba is nested within Thalassotyphloplanida, instead of Limnotyphloplanida. Within Kalyptorhynchia, the taxon Eukalyptorhynchia turned out to be paraphyletic including members of Schizorhynchia. These results also support the position of the genus Toia separate from Cicerinidae.

Conclusions
Lonchoplanella axi belongs to Mariplanellida, whose status as infraorder is herein confirmed. The genus Toia belongs separate from Cicerinidae. Further research is needed to clarify the phylogenetic relationships of Hoploplanella. Most of the species, genera and families included in this study with more than one terminal are monophyletic and well supported. Adding gene markers and complementary morphological studies will help to clarify those relationships that remain uncertain.
Institutional capacity to prevent and manage research misconduct: perspectives from Kenyan research regulators
Authors: Were Edwin , Kiplagat Jepchirchir , Kaguiri Eunice , Ayikukwei Rose , Naanyu Violet 
Published: July 2023

Abstract
Background
Research misconduct i.e. fabrication, falsification, and plagiarism is associated with individual, institutional, national, and global factors. Researchers' perceptions of weak or non-existent institutional guidelines on the prevention and management of research misconduct can encourage these practices. Few countries in Africa have clear guidance on research misconduct. In Kenya, the capacity to prevent or manage research misconduct in academic and research institutions has not been documented. The objective of this study was to explore the perceptions of Kenyan research regulators on the occurrence of and institutional capacity to prevent or manage research misconduct.

Methods
Interviews with open-ended questions were conducted with 27 research regulators (chairs and secretaries of ethics committees, research directors of academic and research institutions, and national regulatory bodies). Among other questions, participants were asked: (1) How common is research misconduct in your view? (2) Does your institution have the capacity to preventresearch misconduct? (3) Does your institution have the capacity to manageresearch misconduct? Their responses were audiotaped, transcribed, and coded using NVivo software. Deductive coding covered predefined themes including perceptions on occurrence, prevention detection, investigation, and management of research misconduct. Results are presented with illustrative quotes.

Results
Respondents perceived research misconduct to be very common among students developing thesis reports. Their responses suggested there was no dedicated capacity to prevent or manage research misconduct at the institutional and national levels. There were no specific national guidelines on research misconduct. At the institutional level, the only capacity/efforts mentioned were directed at reducing, detecting, and managing student plagiarism. There was no direct mention of the capacity to manage fabrication and falsification or misconduct by faculty researchers.
We recommend the development of Kenya code of conduct or research integrity guidelines that would cover misconduct.
Two-stage distributionally robust optimization-based coordinated scheduling of integrated energy system with electricity-hydrogen hybrid energy storage
Authors: Qiu Yibin , Li Qi , Ai Yuxuan , Chen Weirong , Benbouzid Mohamed , Liu Shukui , Gao Fei 
Published: July 2023

AbstractA coordinated scheduling model based on two-stage distributionally robust optimization (TSDRO) is proposed for integrated energy systems (IESs) with electricity-hydrogen hybrid energy storage. The scheduling problem of the IES is divided into two stages in the TSDRO-based coordinated scheduling model. The first stage addresses the day-ahead optimal scheduling problem of the IES under deterministic forecasting information, while the second stage uses a distributionally robust optimization method to determine the intraday rescheduling problem under high-order uncertainties, building upon the results of the first stage. The scheduling model also considers collaboration among the electricity, thermal, and gas networks, focusing on economic operation and carbon emissions. The flexibility of these networks and the energy gradient utilization of hydrogen units during operation are also incorporated into the model. To improve computational efficiency, the nonlinear formulations in the TSDRO-based coordinated scheduling model are properly linearized to obtain a Mixed-Integer Linear Programming model. The Column-Constraint Generation (C&CG) algorithm is then employed to decompose the scheduling model into a master problem and subproblems. Through the iterative solution of the master problem and subproblems, an efficient analysis of the coordinated scheduling model is achieved. Finally, the effectiveness of the proposed TSDRO-based coordinated scheduling model is verified through case studies. The simulation results demonstrate that the proposed TSDRO-based coordinated scheduling model can effectively accomplish the optimal scheduling task while considering the uncertainty and flexibility of the system. Compared with traditional methods, the proposed TSDRO-based coordinated scheduling model can better balance conservativeness and robustness.
Effects of ultrasound-guided erector spinae plane block in radical prostatectomy surgery on pain and surgical stress response
Authors: Turan Damla , Ozden Mesure Gul Nihan , Kocoglu Hasan 
Published: July 2023

Abstract
Background
Erector spina plane block, as a part of a multimodal approach in perioperative pain management, is effective in many surgical procedures on pain management. The aim of this prospective, randomized, controlled study was to investigate the effects of erector spinae plane block on pain, analgesic consumption, and surgical stress in radical prostatectomy operations.

Results
Forty-six patients operated for elective open radical prostatectomy surgery were randomly allocated to Group B (n = 23) and Group K (n = 23). Ultrasound-guided erector spinae plane block was performed bilaterally on patients in Group B, while group K was the control group. Remifentanil and tramadol consumption, rescue analgesic need, pain scores, and nausea-vomiting scores were less in Group B. While there was no difference in glucose, cortisol, insulin, and C-reactive protein values at all times between groups, postoperative 24-h prolactin values were higher in Group B. Shapiro–Wilk test, Student t-test, and Mann–Whitney U-test were used for statistical analysis.

Conclusions
Ultrasound-guided erector spinae plane block is an effective analgesic method in radical retropubic prostatectomy surgeries providing a reduction in intraoperative and postoperative opioid consumption but has limited effect on the surgical stress response.

Trial registration
ClinicalTrials NCT05170373, Registered 11/03/2021 — retrospectively registered.
Mitochondrial DNA Copy Number and Risk of Diabetes Mellitus and Metabolic Syndrome
Authors: Huang Cuihong , Chen Lifang , Li Jiangtao , Ma Juanjuan , Luo Jun , Lv Qian , Xiao Jian , Gao Pan , Chai Wen , Li Xu , Zhang Ming , Hu Fulan , Hu Dongsheng , Qin Pei 
Published: July 2023

Abstract

Context
Mitochondrial DNA (mtDNA) plays a key role in diabetes mellitus and metabolic syndrome (MetS). An increasing number of studies have reported the association between mtDNA copy number (mtDNA-CN) and the risk of diabetes mellitus and MetS; however, the associations remain conflicted and a systematic review and meta-analysis on the association between mtDNA-CN and diabetes mellitus and MetS is lacking.

Objective
We aimed to investigate the association of mtDNA-CN and diabetes mellitus and MetS using a systematic review and meta-analysis of observational studies.

Methods
PubMed, EMBASE, and Web of Science were searched up to December 15, 2022. Random-effect models were used to summarize the relative risks (RRs) and 95% CIs.

Results
A total of 19 articles were included in the systematic review and 6 articles (12 studies) in the meta-analysis involving 21 714 patients with diabetes (318 870 participants) and 5031 MetS (15 040 participants). Compared to the highest mtDNA-CN, the summary RR (95% CIs) for the lowest mtDNA-CN were 1.06 (95% CI, 1.01-1.12; I2 = 79.4%; n = 8) for diabetes (prospective study: 1.11 (1.02-1.21); I2 = 22.6%; n = 4; case-control: 1.27 (0.66-2.43); I2 = 81.8%; n = 2; cross-sectional: 1.01 (0.99-1.03); I2 = 74.7%; n = 2), and 1.03 (0.99-1.07; I2 = 70.6%; n = 4) for MetS (prospective: 2.87 (1.51-5.48); I2 = 0; n = 2; cross-sectional: 1.02 (1.01-1.04); I2 = 0; n = 2).

Conclusion
Decreased mtDNA-CN was associated with increased risk of diabetes mellitus and MetS when limited to prospective studies. More longitudinal studies are warranted.
Hyperthyroidism in Danish Pregnant Women During a 20-Year Period
Authors: Uldall Torp Nanna Maria , Liew Zeyan , Carlé Allan , Karmisholt Jesper , Pedersen Inge Bülow , Andersen Stig , Andersen Stine Linding 
Published: July 2023

Abstract

Context
Hyperthyroidism in pregnancy is a clinical concern, and surveillance of any change in the occurrence of hyperthyroidism in pregnancy is important, especially when a mandatory iodine fortification (IF) program is implemented such as in Denmark in the year 2000.

Objective
To investigate any change in the occurrence of hyperthyroidism and the use of antithyroid drugs (ATDs) in Danish pregnant women during a 20-year period before and after the implementation of IF.

Methods
A nationwide register-based cohort (1997-2016) and 2 birth cohorts with biochemical data (the Danish National Birth Cohort, 1997-2003, and the North Denmark Region Pregnancy Cohort, 2011-2015) were used to study maternal use of ATDs in pregnancy and frequency of early pregnancy biochemical hyperthyroidism during a 20-year period prior to and after the implementation of mandatory IF.

Results
In the nationwide cohort, the adjusted odds ratio (aOR) for treatment with ATDs was 1.51 (95% CI, 1.30-1.74) after mandatory IF (2001-2004) compared with baseline (1997-1999). The increase was more pronounced in the previously moderately iodine-deficient West Denmark (aOR 1.67; 95% CI, 1.36-2.04) than the mildly deficient East Denmark (aOR 1.30; 95% CI, 1.06-1.60) and returned to baseline levels at the end of follow-up in both regions. No time-related difference in early pregnancy biochemical hyperthyroidism was observed.

Conclusion
The use of ATDs in Danish pregnant women increased following the implementation of IF and then leveled out. Results comply with observations in the general Danish population and suggest that IF influences the occurrence of autoimmune hyperthyroidism in younger individuals.
Biomarkers to Guide Medical Therapy in Primary Aldosteronism
Authors: Hundemer Gregory L , Leung Alexander A , Kline Gregory A , Brown Jenifer M , Turcu Adina F , Vaidya Anand 
Published: July 2023

Abstract
Primary aldosteronism (PA) is an endocrinopathy characterized by dysregulated aldosterone production that occurs despite suppression of renin and angiotensin II, and that is non-suppressible by volume and sodium loading. The effectiveness of surgical adrenalectomy for patients with lateralizing PA is characterized by the attenuation of excess aldosterone production leading to blood pressure reduction, correction of hypokalemia, and increases in renin—biomarkers that collectively indicate a reversal of PA pathophysiology and restoration of normal physiology. Even though the vast majority of patients with PA will ultimately be treated medically rather than surgically, there is a lack of guidance on how to optimize medical therapy and on key metrics of success. Herein, we review the evidence justifying approaches to medical management of PA and biomarkers that reflect endocrine principles of restoring normal physiology. We review the current arsenal of medical therapies, including dietary sodium restriction, steroidal and nonsteroidal mineralocorticoid receptor antagonists, epithelial sodium channel inhibitors, and aldosterone synthase inhibitors. It is crucial that clinicians recognize that multimodal medical treatment for PA can be highly effective at reducing the risk for adverse cardiovascular and kidney outcomes when titrated with intention. The key biomarkers reflective of optimized medical therapy are unsurprisingly similar to the physiologic expectations following surgical adrenalectomy: control of blood pressure with the fewest number of antihypertensive agents, normalization of serum potassium without supplementation, and a rise in renin. Pragmatic approaches to achieve these objectives while mitigating adverse effects are reviewed.
Significance of Thyroglobulin Autoantibodies in Patients With Thyroid Cancer Treated With Lenvatinib
Authors: Sgrò Daniele , Rossi Piercarlo , Piaggi Paolo , Brancatella Alessandro , Lorusso Loredana , Bottici Valeria , Molinaro Eleonora , Latrofa Francesco , Elisei Rossella , Agate Laura 
Published: July 2023

Abstract

Context
Serum thyroglobulin (Tg) is a highly sensitive and specific tumor marker, employed in post-operative management of patients with differentiated thyroid carcinomas. Tumor shrinkage of radioiodine-refractory thyroid cancer (RAIR-DTC) treated with multitarget kinase inhibitors as lenvatinib, expressed according to the Response Evaluation Criteria in Solid Tumors (RECIST), is also associated with a drastic reduction of Tg levels. However, interference caused by circulating thyroglobulin autoantibodies (TgAb) represents the main limitation in the clinical use of Tg.

Objective
To evaluate if in RAIR-DTC TgAb could be considered a surrogate marker of Tg in monitoring response to treatment with lenvatinib.

Design
We retrospectively evaluated patients who had started lenvatinib and correlated serum Tg and TgAb with the radiological response across visits.

Setting
University of Pisa, Italy.

Patients
We selected 9/97 RAIR-DTC patients with detectable TgAb.

Intervention
None.

Main Outcome Measure(s)
None.

Results
Tg values correlated neither with TgAb title nor with radiological response across visits. Greater decreases in TgAb titer correlated with favorable radiological response to lenvatinib after 1 month (Spearman's correlation = 0.74, P = .021) and 6 months (correlation = 0.61, P = .079). According to RECIST, patients with partial response showed a ∼10-fold greater decrease in TgAb compared to those with stable disease at 1 month (median TgAb decrease: −142 vs −14 IU/mL, P = .01) and those with progressive disease at 6 months (median TgAb decrease: −264 vs−24 IU/mL, P = .04).

Conclusion
TgAb evaluation may represent a reliable surrogate marker for Tg trend in evaluating response of RAIR-DTC to treatment with lenvatinib. A multicentric study would be useful to confirm our results.
Synthesis of TiO2 nanoparticles and demonstration of their antagonistic properties against selected dental caries promoting bacteria
Authors: Mansoor Afsheen , Mehmood Mazhar , Ishtiaq Muhammad , Jamal Asif 
Published: July 2023

Objective: To evaluate antagonistic role of titanium oxide nanoparticles against selected dental caries promoting bacteria.
Methods: This in vitro-experimental study was conducted at Pakistan Institute of Engineering and Applied Sciences (PIEAS), National Institute of Health (NIH) and School of Dentistry (SOD), Islamabad for the period of one year from February 2022 to January 2023. Modified hydrothermal heating method was used to prepare titanium oxide nanoparticles (TiO2Nps). Size, shape, phase, band gap energy, surface and elemental composition of Nps were deciphered by application of various modern techniques including x-ray diffraction spectroscopy (XRD), scanning electron microscopy (SEM), dynamic light scattering (DLS), UV-Vis diffuse reflectance spectroscopy (DRS), atomic force microscopy (AFM), energy dispersive x-ray spectroscopy (EDX). Antimicrobial action of nanoparticles was evaluated against representatives of gram-positive (mono-derm) and Gram negative bacteria (di-derm) responsible for promoting dental caries. The zones of inhibition were calculated by disc diffusion method for each bacterial strain.
Results: Characterization revealed that TiO2Nps were having an average size of 54nm, showing anatase-rutile phase having spherical, with very few- irregularly shaped particles. TiO2Nps contained only pure titanium and oxygen in the EDX image but organic compounds in FTIR scan. Results of antimicrobial action indicated their potent bactericidal action against Pseudomonas aeruginosa (20mm), Escherichia coli (19mm) and Lactobacillus acidophilus (19nm) while comparatively less activity against Staphylococcus aureus (16mm).
Conclusion: TiO2Nps fabricated by modified protocol displayed an effective antimicrobial activity and can be used as an alternative to the contemporary chemotherapeutics against selected bacterial pathogens to prevent dental caries.
doi: https://doi.org/10.12669/pjms.39.5.7851
How to cite this: Mansoor A, Mehmood M, Ishtiaq M, Jamal A. Synthesis of TiO2 nanoparticles and demonstration of their antagonistic properties against selected dental caries promoting bacteria. Pak J Med Sci. 2023;39(5):---------. doi: https://doi.org/10.12669/pjms.39.5.7851
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
O trabalho articulado entre o AEE e a sala regular: corpos que brincam, interagem e aprendem
Authors: Peixoto Sara Maria Pinheiro , Da Silveira Ana Aparecida Tavares , Dias Maria Aparecida 
Published: July 2023

Este trabalho tem como objetivo apresentar uma revisão literária considerando a criança, o corpo e seus processos de aprendizagens no AEE. Trata-se de uma pesquisa de doutorado em andamento, realizado com um grupo de professores de um Centro Municipal de Educação Infantil da cidade do Natal, valorizando o arcabouço de uma formação continuada, considerando as dimensões dialógicas do trabalho colaborativo e articulado. Deste modo, corroboramos na assertiva que levantar o estado da arte é substancial para qualquer tipo de investigação, porque além de encontrarmos limites, lacunas, também estabelecemos um diálogo entre diversos autores, promovendo possibilidades e avanços na produção do conhecimento a respeito dessa temática. Assim, optamos metodologicamente pela pesquisa bibliográfica, de natureza qualitativa., para que pudéssemos atender tais inquietações, e por meio desta empiria estabelecermos uma relação dialógica e dialética, entre o teórico e o vivido, estabelecendo uma cadeia discursiva, permeada de sentidos e significados à prática docente, articulando saberes entre nossos matizes instituídas: infância, inclusão, corpo e AEE, compreendendo esse corpo com meio desse processo de aprendizagem das crianças público-alvo da Educação Especial.
Surface repair of the femoral head using press-osteochondral autograft transfer
Authors: Passaplan Caroline , Hanauer Matthieu , Gautier Lucienne , Stetzelberger Vera M. , Schwab Joseph M. , Tannast Moritz , Gautier Emanuel 
Published: July 2023

AimsHyaline cartilage has a low capacity for regeneration. Untreated osteochondral lesions of the femoral head can lead to progressive and symptomatic osteoarthritis of the hip. The purpose of this study is to analyze the clinical and radiological long-term outcome of patients treated with osteochondral autograft transfer. To our knowledge, this study represents a series of osteochondral autograft transfer of the hip with the longest follow-up.MethodsWe retrospectively evaluated 11 hips in 11 patients who underwent osteochondral autograft transfer in our institution between 1996 and 2012. The mean age at the time of surgery was 28.6 years (8 to 45). Outcome measurement included standardized scores and conventional radiographs. Kaplan-Meier survival curve was used to determine the failure of the procedures, with conversion to total hip arthroplasty (THA) defined as the endpoint.ResultsThe mean follow-up of patients treated with osteochondral autograft transfer was 18.5 years (9.3 to 24.7). Six patients developed osteoarthritis and had a THA at a mean of 10.3 years (1.1 to 17.3). The cumulative survivorship of the native hips was 91% (95% confidence interval (CI) 74 to 100) at five years, 62% (95% CI 33 to 92) at ten years, and 37% (95% CI 6 to 70) at 20 years.ConclusionThis is the first study analyzing the long-term results of osteochondral autograft transfer of the femoral head. Although most patients underwent conversion to THA in the long term, over half of them survived more than ten years. Osteochondral autograft transfer could be a time-saving procedure for young patients with devastating hip conditions who have virtually no other surgical options. A larger series or a similar matched cohort would be necessary to confirm these results which, in view of the heterogeneity of our series, seems difficult to achieve.Cite this article: Bone Jt Open 2023;4(7):523–531.