bluuebunny/crossref_metadata_2025_split huggingface dataset:
Gametophytic degradation of CENH3 - a synthetic biology approach for haploid induction in plants
Authors: Houben Andreas , Somasundaram Saravanakumar , Fuchs Jörg , Cuacos Maria , Weiß Oda , Kochevenko Andriy , Lamb Jonathan 
Published: February 2025

Abstract

Double haploid technology is a critical tool for accelerating plant breeding. The manipulation of centromere-specific histone H3 (CENH3) has previously been shown to induce haploid progeny in both the model plant Arabidopsis and certain crop species. However, a universally applicable strategy for CENH3-based haploid induction across diverse crop species is still lacking. Here, we demonstrate that extreme asymmetry in centromeric CENH3 levels between parental chromosomes is a causal factor for eliminating chromosomes with ‘weaker’ centromeres during early embryogenesis. Consequently, engineered E3-ligases were utilized to selectively degrade CENH3 in the egg cell to induce wild-type paternal haploids. Also, we attempted to optimize the CENH3 degradation using E3-ligases of plant-origin. Our findings provide valuable insights to enhance the haploid induction efficiency further. The gametophytic CENH3 degradation approach leverages engineering principles and represents a potentially universal strategy for engineering CENH3-based haploid inducers in crop plants.
Impact of Public Interest on Agricultural CommodityPrices
Authors: Park Sangmin , Ha Mijin , Yi Seungheon , Kim Donghyun , Yoon Ji-Hun , Lee Hyojung , Jung Il-Hyo 
Published: February 2025

Abstract

As financial markets grow more complex and sophisticated, the use of diverse data sources has become essential for accurate market analysis and prediction. This study leverages Google Trends data, representing public search interest, and combines it with a long short-term memory (LSTM) model to explore its impact on futures prices for major agricultural commodities. By applying the model to commodities such as corn, wheat, cocoa, and coffee, we analyze how fluctuations in public interest influence price volatility. The results confirm that periods of heightened search frequency for specific words often correspond to changes in futures price behavior, indicating that public sentiment plays a role in market dynamics. This study demonstrates that integrating social data, like Google Trends, into financial forecasting frameworks can enhance predictive accuracy and market insights, analyzing that the relationship between investors’ sentiment and commodity prices in the financial market quantitatively.
Improved Birth Rates via Rehydration of Mouse Freeze-Dried Spermatozoa using High-Temperature Ultrapure Water
Authors: Yamaji Kango , Wakayama Sayaka , Ushigome Natsuki , Ito Daiyu , Wakayama Teruhiko 
Published: February 2025

Abstract

Freeze-drying (FD) is a promising method for achieving the long-term, low-cost, and safe preservation of mammalian sperm at room temperature (RT). However, the birth rate of embryos fertilized with FD sperm is reduced to less than half compared to those fertilized with fresh sperm. Moreover, the underlying causes and potential solutions remain unclear. In this study, we investigated a previously unexamined rehydration process using FD sperm to determine its effects on sperm DNA damage. We also attempted to optimize this rehydration method to improve birth rates. Initially, we examined the effects of slowing water infiltration into FD sperm using a high osmolarity or viscosity solution, but this increased DNA damage and decreased birth rates. Next, to accelerate infiltration speed, we performed rehydration of FD sperm using ultrapure water heated up to as hot as 90℃. However, we found that the DNA damage of the FD sperm decreased as the temperature increased. The level of DNA damage in the male pronucleus at the zygote stage and of abnormal chromosome segregation (ACS) at the two-cell stage were also decreased at 37℃ or 50℃. Finally, the birth rates of embryos derived from FD sperm also significantly improved when rehydration was performed using 50℃ ultrapure water (37%) compared with the RT control (21%). Taken together, the results of this study demonstrate that the DNA of FD sperm can be damaged during the rehydration process and that rapid rehydration significantly improves the birth rate.
Does height matter? The Embodied impacts of tallness, slab thickness, building code and design tranches.
Authors: Hoffer Avery , Bentz Evan , Saxe Shoshanna 
Published: February 2025

Abstract

Societies across the globe are simultaneously trying to build significantly more housing to meet the needs of a growing population and emit significantly less greenhouse gas emissions to meet the pressures of the climate crisis. This is precipitating debates about the nature of sustainable housing. ‘Conventional wisdom’ holds that tall buildings are bad for the environment coinciding with longstanding skepticism of such buildings, yet the research and data on this question is often anecdotal or incomplete and contradictory. In this paper we wade into the debate on how to build sustainable housing, particularly with regards to building design and height. This paper examines the effects of building height on embodied greenhouse gas emissions for 5-to-20 storey reinforced concrete buildings. We find that while height does minimally increase embodied emissions per rentable area, the impact is within the noise of other design choices, particularly slab thickness and design tranches – number of storeys with identical design. These results show that the debate around tall buildings and sustainability is too often focused on the wrong question and opportunities to design much better buildings are being overlooked.
Integrating wavelet transform and support vector machine for improved drought forecasting based on standardized precipitation index
Authors: Rezaiy Reza , Shabri Ani 
Published: February 2025

ABSTRACT

This study proposes a hybrid discrete wavelet transform (DWT) and support vector machine (SVM) model (W-SVM) to enhance drought prediction accuracy compared to traditional SVM and autoregressive integrated moving average (ARIMA) models using the Standardized Precipitation Index (SPI). Fifty years of historical average monthly precipitation data from the Kabul province, Afghanistan, are analysed. The data are split into training and testing sets at an 80/20 ratio. Daubechies order 2 (db2) is selected as the mother wavelet function with three decomposition levels for SPI-3, -6, -9, and -12. Each decomposed element, including detail components (D1, D2, D3) and approximation (A3), is forecasted with an SVM model, and the final forecast is obtained by summing all levels. Statistical metrics such as root mean square error (RMSE), mean absolute error (MAE), and correlation coefficient (R2) are used for evaluation. Results demonstrate that W-SVM outperforms benchmark models, achieving lower RMSE and MAE values and higher R2 across all SPI values. These findings highlight DWT's effectiveness in enhancing SVM's capability for SPI pattern recognition. The proposed model provides accurate and timely drought predictions, making it a valuable tool for real-time drought monitoring and management, enabling informed decision-making to reduce drought impacts.
Enhancing accuracy in streamflow prediction under climate change scenarios based on an integrated machine learning–metaheuristic optimization approach
Authors: Heshamati Sara , Nazari Bijan , Nikoo Mohamad Reza 
Published: February 2025

ABSTRACT

In this study, the impact of climate change on streamflow is investigated using the adaptive neuro-fuzzy inference system (ANFIS) model and integrating it with metaheuristic optimization algorithms, including particle swarm optimization (PSO) and genetic algorithm (GA) under four models: MPI-ESML-2HR, MIROC6, IPSL-CM6A-IL, GFDL-ESM4, and scenarios: SSP1-26, SSP3-70, SSP5-85, for time periods (2026–2100) for which the Qazvin Plain salt marsh was investigated. LARSWG8 was used for downscaling and then bias-corrected with the quantile mapping (QM) method. Mann–Kendall and Sen's slope tests were utilized to identify the trends of climatic observational parameters. The results generally showed that among the models used, ANFIS–PSO and ANFIS–GA, respectively, showed better performance compared with ANFIS, with correlation coefficient, root mean square error (m3/s), Nash–Sutcliffe, and Kling–Gupta coefficients of 0.98, 0.19, 0.91 and 0.97 in the training period and 0.97, 0.20, 0.83 and 0.95 in the testing period. The results also indicated that streamflow will decrease under all climate change scenarios, especially during the first four months of the year in future periods. This reduction in streamflow could have widespread consequences, including negative impacts on ecosystems, economic conditions, and social structures. Therefore, optimal water-resource management, adaptation to new conditions, and precise planning for the future are essential.
Higher Selective Targeting of Telomeric Multimeric G-quadruplex by Natural Product Berberine
Authors: Chen Jixin , He Yi , Xu Yang , Umer Muhammad , Anwar Naureen , Wei Shiya , Liu Wenbin , Wang Zhangqian , Gao Chao 
Published: February 2025

Introduction:
G-quadruplexes (G4s) are non-classical high-level structures
that are formed by DNA/RNA sequences and have been a promising target for developing
antitumor drugs. However, it is still a challenge to find a ligand that binds to a particular
G4 with selectivity. Telomeric multimeric G4s are more accessible for screening for
specific ligands due to their higher-order structure compared with telomeric monomeric
G4s.

Method:
In this study, the natural product berberine was found to exhibit a higher selectivity
for telomeric multimeric G4 in comparison with other G4s. The mechanism of
interaction between telomeric G4s and berberine was further investigated by fluorescence
spectra measurements, job plot analysis, and UV titrations. We found that there
are three binding sites for berberine on telomeric dimeric G-quadruplex Tel45, which
are located at the 5' and 3' terminal G-quartet surfaces and the pocket between the two
quadruplex units of Tel45. It was worth noting that the berberine preferred to interact
within the interfacial cavity between two G4 units.

Results:
Moreover, via dynamic light scattering (DLS) and native polyacrylamide gel
electrophoresis (Native-PAGE) assays, it was found that the particle size of the telomeric
multimeric G4s conformation was significantly increased by the addition of berberine.
In contrast, the particle sizes of Tel21 did not change significantly after the addition
of berberine. An immunofluorescence assay indicated that berberine induced the formation
of endogenous telomeric G4 structures along with the related telomeric DNA damage
response.

Conclusion:
This study provides a hypothetical basis for the development of natural
products targeting telomeric G4 as antitumor drugs.
An Emerging Prospective of Antipsychotics for Treating Neurodegenerative Disorders
Authors: Kumar Bhavna , Sahoo Arpita , Singhal Manmohan , varshney Garima , Haldar Tripti , Bali Vikas 
Published: February 2025

Abstract:
CNS illnesses specified by slow deprivation of especially preganglionic neurons, as opposed to the
selective static neuronal loss caused by a toxic or metabolic condition, are known as Neurodegenerative disorders.
Neurodegenerative disorders are differentiated clinically by behavioral or cognitive problems. The management
and treatment of neurodegenerative disorders pose significant challenges, necessitating a multidimensional
approach. While primarily designed for psychiatric conditions, antipsychotics have shown potential
in ameliorating behavioral and psychological symptoms in neurodegenerative disorders such as Alzheimer's
and Parkinson's diseases. This review explores the existing literature, highlighting the potential benefits, risks,
and considerations associated with incorporating antipsychotics into the treatment paradigm for neurodegenerative
disorders. Additionally, it discusses the evolving landscape of personalized treatment strategies, emphasizing
the need for a multidisciplinary approach to optimize patient outcomes in the complex realm of neurodegenerative
disorder management.
Biological Evaluation and Computational Modelling Studies on N-acyl Hydrazone and 2,5-Substituted 1,3,4-Oxadiazole Derivatives as Non-toxic Antimicrobial Agents
Authors: Giray Betül , Kaya Nil , Fiabane Martina , Buyuk Ayse Seyma , Küçük Hatice Başpinar , Sardas Semra , Mori Mattia 
Published: February 2025

Introduction:
The increasing use of antibiotics coupled with the lack of innovative and effective
antimicrobial agents has increased the development of antimicrobial resistance (AMR) worldwide. To overcome
the AMR-associated prolonged disease duration and increased mortality rates, new antimicrobial agents
are in high demand. In this context, hydrazone and oxadiazole derivatives are endowed with remarkable biocidal
activity, becoming profitable scaffolds in the design of antimicrobial candidates.

Method:
In this study, the antimicrobial effects of N-acyl hydrazones 1-15 and 2,5-substituted 1,3,4-
oxadiazoles 16-27 against Escherichia coli ATCC 25922, Staphylococcus aureus ATCC 29213, Bacillus subtilis
ATCC 6633, and clinically isolated Shigella sonnei, Klebsiella pneumoniae, and Candida albicans were
evaluated. For this purpose, Kirby-Bauer disc diffusion and MIC tests were carried out, indicating that most of
these compounds were active against tested microorganisms. Particularly, several compounds proved active
against E. coli, whereas S. aureus showed higher resistance. The genotoxic potential of most active compounds
was determined by in vitro alkaline comet assay, and they were found to be non-toxic at studied concentrations.

Results:
Finally, molecular docking and dynamics (MD) studies identified four compounds as potential inhibitors
of bacterial DNA gyrase B (GyrB).

Conclusion:
Further exploration of molecular determinants revealed favourable drug-like properties, highlighting
the potential of these molecules for subsequent hit-to-lead optimization studies.
Causal Mediation Analysis of the Effect of Dietary Habits on Sleep Apnea Risk
Authors: Yingying-Li  , Wu Liang , Wenbo-Chen  
Published: February 2025

Objective:
Diet is a modifiable factor that influences several chronic diseases, making
lifelong dietary interventions critically important for reducing disease risk. Hence, this study
aims to assess the potential causal relationship between diet and sleep apnea (SA).

Methods:
We analyzed genome-wide association study (GWAS) data from approximately
450,000 individuals, focusing on 8 dietary intakes and GWAS statistics for 249 metabolites from
the UK Biobank. Sleep apnea-related phenotypic data from 16,761 participants were sourced
from the FinnGen Biobank. Furthermore, we conducted a series of two-sample Mendelian Randomization
(two-sample MR) to explore the causality between diet and SA. Sensitivity analyses
were conducted to assess the robustness of the two-sample MR results, and reverse MR analysis
was performed to examine potential reverse causality. Multivariate MR (MVMR) analysis and
mediation effect estimation were employed to evaluate the mediating roles of metabolites.

Results:
Two-sample MR analyses revealed significant causal associations between bread intake
(OR=0.56, 95% CI 0.35–0.89, P =0.014), cheese intake (OR=0.67, 95% CI 0.50–0.89, P
=0.006), and dried fruit intake (OR=0.61, 95% CI 0.39–0.95, P =0.029) with SA. Reverse MR
analysis indicated a causal effect of SA on dried fruit intake (P < 0.05). Univariate MR analyses
further identified significant causal effects of bread and cheese intakes on 2 and 32 metabolites,
respectively (P < 0.05). Subsequent MVMR analysis demonstrated direct causal effects of bread
and cheese intake on SA, independent of metabolite mediation (P < 0.05). Furthermore, the mediating
effect of cheese intake on SA through glucose was estimated at 0.023 (90% CI 0.01–
0.046), whereas other modeled mediation effects were not statistically significant.

Conclusion:
The MR analysis in this study offers genetic evidence indicating that heightened
genetic susceptibility to cheese and bread intake potentially reduces SA risk. These findings underscore
and validate the significance of diet in preventing SA.
The Suicide Gene System Cytosine Deaminase::Uracylphosphoribosyltransferase/
5-fluorocytosine Displays a Strong Cytotoxic
Effect on Human Melanoma Cells
Authors: Bernabei-Cornejo Sofía Gala , Glikin Gerardo Claudio , Finocchiaro Liliana María Elena 
Published: February 2025

Introduction:
Melanoma is considered the deadliest form of skin cancer.
While monoclonal-antibodies and molecular targets marked milestones in melanoma therapy,
more research is needed to overcome the advanced stages of this disease.

Objective:
To explore the possible use of the yeast cytosine deaminase::uracil phosphoribosyltransferase
fusion enzyme/5-fluorocytosine (CD::UPRT/5FC) suicide gene (SG) system for human
melanoma.

Methods:
In eight metastatic human melanoma cell lines, we determined: cytotoxicity, lipofection
efficiencies, colony forming capacity and bystander effects due to soluble and/or particulate
factors secreted to the conditioned media after treatments.

Results:
CD::UPRT induced cell death in a prodrug (5FC) concentration-dependent manner and
was able to eliminate the sub-population of surviving cells with clonogenic capacity. Compared
with human interferon-β gene transfer or the herpes simplex virus thymidine kinase/ganciclovir
system, at 100 μM 5FC, CD::UPRT was more efficient in inducing cell death. The strong cytotoxic
response contrasted with the low lipofection efficiencies (<5%), indicating a potent bystander
effect. We analyzed the contribution of soluble and particulate factors released by SG
lipofected cells to the conditioned media (CM) finding that they were able to deliver CD::UPRT
genetic information and/or recombinant enzyme to recipient cells. When exposed to 5FC, the
cells that received either supernatant or 12000×g pellet fractions of CM, efficiently activated the
prodrug because of the acquired CD::UPRT activity and caused cell death.

Conclusion:
This suicide gene therapy approach, amplified by the release of free 5-fluorouracil
and soluble and particulate factors containing CD::UPRT genetic information and/or enzyme,
could have a great clinical potential for malignant melanoma.
Linking Processed and Red Meat Consumption to Specific Lung Cancer
Subtypes: A Mendelian Randomization Analysis
Authors: Wen Kang , Wang Zhaoxia 
Published: February 2025

Objective:
The aim of this study was to elucidate the causal relationship between the
consumption of processed and red meats (specifically pork, beef, and mutton) and susceptibility
to various lung cancer types.

Background:
Previous observational studies have indicated a potential cancer risk associated
with red and processed meat consumption. However, a clear causal relationship remains undetermined.

Purpose:
Refining the study of the association between processed and red meat and lung cancer
using a Mendelian randomization study.

Method:
We harnessed the robustness of Two-Sample Mendelian Randomization, integrating
data from the esteemed UK Biobank, capturing dietary habits with oncological datasets from the
Transdisciplinary Research In Cancer of the Lung. The analytical approach was anchored in the
inverse variance weighted (IVW) method, enriched by sensitivity analyses for result validation.

Result:
Genetic predispositions favoring processed meat consumption are linked to heightened
risks of lung cancer [IVW analysis, OR=1.8203, 95%CI [1.1115,2.9811], p=0.0173], and in
LUSC [IVW analysis, OR=2.9274, 95%CI [1.4810,5.7863], p=0.0020]. Beef was more important
in lung cancer [IVW analysis, OR=4.6739, 95% CI [2.4947, 8.7570], p=0.000001], in
LUSC [IVW analysis, OR=3.3251, 95%CI [1.2055,9.1717], p=0.0203] and in LUAD [IVW
analysis, OR=7.1480, 95%CI [3.0074,16.9893], p=0.000008]. However, no significant links
were identified between mutton or pork intake and lung cancer.

Conclusion:
Processed meat and beef consumption may elevate lung cancer risk. Additional
research is warranted to investigate potential links between mutton or pork consumption and the
risk of lung cancer.
CD1B Expression in Triple-Negative Breast Cancer: Its Implications for Prognosis and Immunotherapy Outcomes
Authors: Jin Hongwei , Wan Mengting , Pan Shuaikang , Wang Ziqi , Wang Wei , Zhang Jinguo , Han Xinghua 
Published: February 2025

Introduction:
The absence of the estrogen receptor (ER), progesterone receptor (PR),
and human epidermal growth factor receptor 2 (HER2) is a hallmark of triple-negative breast cancer
(TNBC), which results in fewer treatment options and inferior clinical outcomes. The major histocompatibility
complex family includes CD1B. By exposing T cells to lipid antigens, it alters immunological
responses. Although the function of CD1B has been investigated in a number of malignancies,
its relevance in TNBC has not been fully investigated.

Method:
In this study, immunohistochemistry (IHC) analysis of tissue samples and public databases
was carried out to examine the expression of CD1B and its implications for prognosis in TNBC.

Result:
Compared to normal tissues, TNBC tissues demonstrated significantly higher levels of
CD1B expression. Better overall survival, including survival without distant metastases and survival
without recurrence, was found to be associated with higher levels. Additionally, more immune
cells, primarily memory B cells and regulatory T cells, entering the TNBC region were found to be
associated with greater levels of CD1B. It was found that the immunological microenvironment of
TNBC was significantly affected by CD1B. The association between CD1B and immune-related
pathways was also identified by examining functional enrichment. Drug sensitivity can be used to
identify potential CD1B-targeting therapies. According to these results, CD1B might be a useful
prognostic indicator and a possible target for treatment in TNBC.

Conclusion:
Nevertheless, additional experimental verification is required to verify the clinical significance
of CD1B.
In vivo and In Silico Pharmacokinetics Studies on Coumarinolignoid Cliv-92: Unraveling its Effect on Rifampicin-Induced Hepatic Damage
Authors: Kumar Ajay , Alam Sarfaraz , Tandon Sudeep , Shanker Karuna , Khan Feroz , Saikia Dharmendra 
Published: February 2025

Background:
Drug-induced hepatotoxicity is a major concern and is caused by all classes
of medications, indicating a key area of research. Antitubercular drugs have a beneficial effect
but cause hepatotoxicity on prolonged use.

Aim:
The present work aimed to investigate the role of rifampicin-induced hepatic damage and the
effect of Cliv-92 on rifampicin-induced alteration in rats.

Methods:
Rats were administered with rifampicin, Cliv-92, and silymarin (standard) orally in
0.5% carboxymethyl cellulose (CMC) suspension, in doses of 100 mg/kg, once daily for fourteen
days, one hour before the administration of rifampicin. Control animals were treated with 0.5%
CMC. On the 14th day, 1hr after the last drug administration, tissue was collected, homogenized,
and various parameters, viz. SOD, CAT, GPX, and cytochromes, were estimated from rat liver
supernatant and compared with the control group. Blood serum parameters were also measured.
Simultaneously, antioxidant activity and in silico studies were performed. The constituent
isoforms of Cliv-92 and silymarin and their metabolites were analyzed for different pharmacokinetic
characteristics. Silymarin was used as a standard drug.

Result:
The result of the study suggests that the hepatoprotective potential of Cliv-92 is due to its
antioxidant property and inhibitory effect on hepatoproteins, cytochromes (CPY450). An in-silico
finding validates the safety profile of Cliv-92, its metabolites, and the standard drug silymarin and
also explains that the drug is non-mutagenic.

Conclusion:
The result of this study indicated that both Cliv-92 and silymarin could be used to
avoid drug-induced overload and hepatic damage.