bluuebunny/crossref_metadata_2025_split huggingface dataset:
High cell density cultivation by anaerobic respiration
Authors: Maråk Marte Mølsæter , Kellermann Ricarda , Bergaust Linda Liberg , Bakken Lars Reier 
Published: November 2024

Abstract
Background
Oxygen provision is a bottleneck in conventional aerobic high cell density culturing (HCDC) of bacteria due to the low O2 solubility in water. An alternative could be denitrification: anaerobic respiration using nitrogen oxides as terminal electron acceptors. Denitrification is attractive because NO3− is soluble in water, the end-product (N2) is harmless, and denitrification is widespread among bacteria, hence suitable organisms for most purposes can be found. The pH must be controlled by injection of an inorganic acid to compensate for the pH increase by NO3−-consumption, resulting in salt accumulation if feeding the bioreactor with NO3− salt. We avoid this with our novel pH–stat approach, where the reactor is supplied with 5 M HNO3 to compensate for the alkalization, thus sustaining NO3−-concentration at a level determined by the pH setpoint. Here we present the first feasibility study of this method, growing the model strain Paracoccus denitrificans anaerobically to high densities with glucose as the sole C-source and NO3− as the N-source and electron acceptor.

Results
Our fed-batch culture reached 20 g cell dry weight L−1, albeit with slower growth rates than observed in low cell density batch cultures. We explored reasons for slow growth, and the measured trace element uptake indicates it is not a limiting factor. Bioassays with spent medium excluded accumulation of inhibitory compounds at high cell density as the reason for the slow growth. The most plausible reason is that high metabolic activity led to CO2/H2CO3 accumulation, thus suppressing pH, leading to a paucity in HNO3-feeding until N2-sparging had removed sufficient CO2. The three free intermediates in the denitrification pathway (NO3− → NO2− → NO → N2O → N2) can all reach toxic concentrations if the electron flow is unbalanced, and this did occur if cells were glucose-limited. On the other hand, accumulation of polyhydroxyalkanoates occurred if the cells were NO3−-limited. Carefully balancing glucose provision according to the HNO3 injected is thus crucial.

Conclusions
This work provides a proof of concept, while also identifying CO2/H2CO3 accumulation as a hurdle that must be overcome for further development and optimization of the method.
Spectrum of IDH-mutant tumors in Ollier-Maffucci disease: the triple interaction theory
Authors: Mandonnet Emmanuel , Funck-Brentano Thomas , Hugnot Jean-Philippe , Touat Mehdi 
Published: November 2024

AbstractWe propose to refine our understanding of the pathophysiology underlying the tumor spectrum observed in patients with Ollier disease (OD) and Maffucci syndrome (MS). On one hand, assuming that all IDH-mutated tumors (as well as enchondromas) observed in OD-MS patients derive from one IDH-mutant cell giving rise to different lineages, the observation of different tumors arising in organs deriving from the neuroectoderm, mesoderm and endoderm points towards a very early post-zygotic event for the IDH mutation. To explain then that the spectrum of IDH-mutated tumors is restricted to some types of tumors, we propose the following hypothesis: - First, we posit that not every mutated cell of the lineage will “express” the IDH mutant phenotype. This can be due i/ to the disappearance in some tissue of the IDH-mutated clone due to negative selection pressure later in embryo development ii/ to the lack of expression of the IDH1 protein in specific cell types iii/ to a functional cell state not leading to the accumulation of the oncometabolite D-2-hydroxyglutarate (D-2HG) in that tissue/organ. - Second, generalizing the recent understanding of the gliomagenesis in the general population bearing the rs55705857 G-allele variant at 8q24.21, we postulate that OD-MS patients with an inheritable predisposing single nucleotide polymorphism (SNP) are more likely to develop a malignancy, with a specific SNP for each kind of tumor/organ. In summary, our theory provides a new understanding of IDH-mutated tumors in OD-MS patients, as arising from the triple interaction within the same cell of a developmental defect (the somatic mutation that occurs early during the embryogenesis), an organ-specific functional state “expressing” the IDH mutation and leading to an accumulation of D-2HG, and an inheritable predisposing factor (a risky SNP, also specific to each organ). We discuss how this theory could guide future research in OD-MS patients and, more generally, in patients harboring sporadic IDH-mutated tumors.
Technical variability across the 450K, EPICv1, and EPICv2 DNA methylation arrays: lessons learned for clinical and longitudinal studies
Authors: Lussier Alexandre A. , Schuurmans Isabel K. , Großbach Anna , Maclsaac Julie , Dever Kristy , Koen Nastassja , Zar Heather J. , Stein Dan J. , Kobor Michael S. , Dunn Erin C. 
Published: November 2024

AbstractDNA methylation (DNAm) is the most commonly measured epigenetic mechanism in human populations, with most studies using Illumina arrays to assess DNAm levels. In 2023, Illumina updated their DNAm arrays to the EPIC version 2 (EPICv2), building on prior iterations, namely the EPIC version 1 (EPICv1) and 450K arrays. Whether DNAm measurements are stable across these three generations of arrays has yet not been investigated, limiting the ability of researchers—especially those with longitudinal data—to compare and replicate results across arrays. Here, we present results from a study of 30 child participants (15 male; 15 female) from the Drakenstein Child Health Study, who had DNAm measured on all three of the latest arrays: 450K, EPICv1, and EPICv2. Using these data, we created an annotation of probe quality across arrays, which includes the intraclass correlations, interquartile ranges, correlations, and array bias (i.e., the extent to which DNAm levels were explained by array type) of all CpGs. We also present results from an analysis of sex differences, where we found that CpGs with lower replicability across arrays had higher array-based variance, suggesting this variance metric help guide replication efforts. We also showed that epigenetic age estimates across arrays were more stable when using the principal component versions of epigenetic clocks. Ultimately, this collection of results provides a framework for investigating the replicability and longitudinal stability of epigenetic changes across multiple versions of Illumina DNAm arrays.
Percutaneous cryoablation of abdominal wall endometriosis: a systematic literature review of safety and efficacy
Authors: Bodard Sylvain , Razakamanantsoa Leo , Geevarghese Ruben , O’Gorman Julianne , Dohan Anthony , Marcelin Clement , Cornelis François H. 
Published: November 2024

Abstract
Purpose
To investigate over 10 years the safety and efficacy of percutaneous cryoablation for the treatment of abdominal wall endometriosis (AWE).

Methods
A systematic review was conducted of literature published between March 2014 and March 2024. Inclusion criteria focused on treatment efficacy studies, while exclusion criteria targeted case reports and studies lacking pertinent outcome data. Methodological quality was assessed using the Newcastle-Ottawa Scale for cohort studies.

Results
A total of eight studies were included. Local pain scores decreased from a median of 8/10 (interquartile range (IQR) 7–9) on the visual analog scale to 1/10 (IQR 0–2) at the last follow-up (p < 0.0001). Median complete local pain response rates ranged from 80% to 100%, with median local pain-free survival rates reaching 76.8% (IQR 55.3–83.8) at the longest follow-up. Notably, no patient reported a post-procedure pain score higher than that they reported pre-cryoablation. The studies indicated minor complications in 3.5 to 11% of cases, with major complications occurring in less than 2% of cases, graded following the guidelines of the Society of Interventional Radiology.

Conclusion
In the last decade, percutaneous image-guided cryoablation has offered consistent results and appears to be a promising, minimally invasive option for AWE treatment. Prospective trials are now essential to establish cryoablation as a new standard in patient care for AWE.

Critical relevance statement
Over a decade-long study, percutaneous cryoablation has proven to be a safe and effective minimally invasive treatment for abdominal wall endometriosis, significantly reducing pain with minimal complications.

Key Points

Percutaneous cryoablation significantly reduced local pain scores for abdominal wall endometriosis.

The procedure demonstrated a favorable safety profile with minor complications.

Cryoablation has emerged as a minimally invasive alternative to traditional treatments.

Graphical Abstract
Reprogrammed human lateral ganglionic eminence precursors generate striatal neurons and restore motor function in a rat model of Huntington’s disease
Authors: McCaughey-Chapman Amy , Burgers Anne Lieke , Combrinck Catharina , Marriott Laura , Gordon David , Connor Bronwen 
Published: November 2024

Abstract
Background
Huntington’s disease (HD) is a genetic neurological disorder predominantly characterised by the progressive loss of GABAergic medium spiny neurons in the striatum resulting in motor dysfunction. One potential strategy for the treatment of HD is the development of cell replacement therapies to restore neuronal circuitry and function by the replacement of lost neurons. We propose the generation of lineage-specific human lateral ganglionic eminence precursors (hiLGEP) using direct reprogramming technology provides a novel and clinically viable cell source for cell replacement therapy for HD.

Methods
hiLGEPs were derived by direct reprogramming of adult human dermal fibroblasts (aHDFs) using chemically modified mRNA (cmRNA) and a defined reprogramming medium. hiLGEPs were differentiated in vitro using an optimised striatal differentiation medium. Acquisition of a striatal precursor and neural cell fate was assessed through gene expression and immunocytochemical analysis of key markers. hiLGEP-derived striatal neuron functionality in vitro was demonstrated by calcium imaging using Cal-520. To investigate the ability for hiLGEP to survive, differentiate and functionally integrate in vivo, we transplanted hiLGEPs into the striatum of quinolinic acid (QA)-lesioned rats and performed behavioural assessment using the cylinder test over the course of 14 weeks. Survival and differentiation of hiLGEPs was assessed at 8 and 14-weeks post-transplant by immunohistochemical analysis.

Results
We demonstrate the capability to generate hiLGEPs from aHDFs using cmRNA encoding the pro-neural genes SOX2 and PAX6, combined with a reprogramming medium containing Gö6983, Y-27,632, N-2 and Activin A. hiLGEPs generated functional DARPP32 + neurons following 14 days of culture in BrainPhys™ media supplemented with dorsomorphin and Activin A. We investigated the ability for hiLGEPs to survive transplantation, differentiate to medium spiny-like striatal neurons and improve motor function in the QA lesion rat model of HD. Fourteen weeks after transplantation, we observed STEM121 + neurons co-expressing MAP2, DARPP32, GAD65/67, or GABA. Rats transplanted with hiLGEPs also demonstrated reduction in motor function impairment as determined by spontaneous exploratory forelimb use when compared to saline transplanted animals.

Conclusion
This study provides proof-of-concept and demonstrates for the first time that aHDFs can be directly reprogrammed to hiLGEPs which survive transplantation, undergo neuronal differentiation to generate medium spiny-like striatal neurons, and reduce functional impairment in the QA lesion rat model of HD.
Avian influenza virus circulation and immunity in a wild urban duck population prior to and during a highly pathogenic H5N1 outbreak
Authors: Wight Jordan , Rahman Ishraq , Wallace Hannah L. , Cunningham Joshua T. , Roul Sheena , Robertson Gregory J. , Russell Rodney S. , Xu Wanhong , Zhmendak Dmytro , Alkie Tamiru N. , Berhane Yohannes , Hargan Kathryn E. , Lang Andrew S. 
Published: November 2024

AbstractHighly pathogenic avian influenza (HPAI) H5N1 clade 2.3.4.4b viruses were first detected in St. John’s, Canada in late 2021. To investigate the patterns of avian influenza virus (AIV) infection and immune responses subsequent to the arrival of H5N1, we sampled the wild urban duck population in this area for a period of 16 months after the start of the outbreak and compared these findings to those from archived samples. Antibody seroprevalence was relatively stable before the outbreak (2011–2014) at 27.6% and 3.9% for anti-AIV (i.e., NP) and H5-specific antibodies, respectively. During the winter of 2022, AIV-NP and H5-specific antibody seroprevalence both reached 100%, signifying a population-wide infection event, which was observed again in late February 2023 following a second H5N1 incursion from Eurasia. As expected, population-level immunity waned over time, with ducks seropositive for anti-AIV-NP antibodies for approximately twice as long as for H5-specific antibodies, with the population seronegative to the latter after approximately six months. We observed a clear relationship of increasing antibody levels with decreasing viral RNA loads that allowed for interpretation of the course of infection and immune response in infected individuals and applied these findings to two cases of resampled ducks to infer infection history. Our study highlights the value of applying both AIV surveillance and seroprevalence monitoring to provide a better understanding of AIV dynamics in wild populations, which may be crucial following the global dissemination of clade 2.3.4.4b H5Nx subtypes to assess the threats they pose to both wild and domestic animals, and to humans.
Splicing factor SRSF1 attenuates cardiomyocytes apoptosis via regulating alternative splicing of Bcl2L12
Authors: Xie Yilin , Yang Zhenbo , Chen Wenxian , Zhong Changsheng , Li Mengyang , Zhang Lei , Cheng Ting , Deng Qin , Wang Huifang , Ju Jin , Du Zhimin , Liang Haihai 
Published: November 2024

Abstract
Background
Aberrant alternative splicing (AS) events, triggered by the alterations in serine/arginine splicing factor 1 (SRSF1), a member of the SR protein family, have been implicated in various pathological processes. However, the function and mechanism of SRSF1 in cardiovascular diseases remain unclear.

Results
In this study, we found that the expression of SRSF1 was significantly down-regulated in the hearts of mice with acute myocardial infarction (AMI) and H9C2 cells exposed to H2O2. Moreover, in vivo experiments utilizing adeno-associated virus serotype 9-mediated SRSF1 overexpression improved cardiac function and reduced infarct size in AMI mice. Mechanistically, we employed RNA-seq assay to identify AS aberrations associated with altered SRSF1 level in cardiomyocytes, and found that SRSF1 regulates the splice switching of Bcl2L12. Further study showed that silencing SRSF1 inhibits the inclusion of exon7 in Bcl2L12. Importantly, the truncated Bcl2L12 lacked the necessary structural elements and failed to interact with p53, thus compromising its ability to suppress apoptosis.

Conclusions
Our study unraveled the role of SRSF1 as a splicing factor involved in the regulation of Bcl2L12 splice switching, thereby exerting an anti-apoptotic effect through the p53 pathway, which provides new insights into potential approaches targeting cardiomyocyte apoptosis in cardiovascular diseases.
Assessment of the safety and hepatic lipid-lowering effects of Lactobacillus delbrueckii subsp. lactis CKDB001
Authors: Joung Hyunchae , Chu Jaeryang , Kwon Yoo Jin , Kim Kyung Hwan , Shin Chang Hun , Ha Jung-Heun 
Published: November 2024

AbstractProbiotics have been shown to provide health benefits for several metabolic diseases, including obesity, type 2 diabetes, and metabolic dysfunction-associated steatotic liver disease (MASLD), by modulating the gut microbiota. In this study, we evaluated the safety and efficacy of Lactobacillus delbrueckii subsp. lactis CKDB001 as a potential therapeutic candidate for the treatment of MASLD. We evaluated antibiotic resistance, hemolytic, gelatinase, and bile salt hydrolase activities, and the production of biogenic amines and D-lactate using in vitro analyses. We found that L. lactis CKDB001 treatment resulted in significant anti-adipogenic properties in the HepG2 cell line, reducing lipid accumulation and improving lipid profiles through mechanisms involving the upregulation of SIRT1 and PPARα, and downregulation of CD36 and ELOVL6. These results suggest that L. lactis CKDB001 is a safe and effective probiotic for managing MASLD. Further in vivo studies and clinical trials are required to validate these effects and fully elucidate their therapeutic potential and safety profiles.
Research on the micro-structure and water effect of excavated ivory from sacrificial pit No.7 at the Sanxingdui Ruins
Authors: Xiang Shilin , Jiang Lang , Wang Yi , Li Sifan , Jiang Luman , Wang Ning , Zhu Liping , Zhao Lijuan , Hong Jing 
Published: November 2024

Abstract
The excavation of ivory and other artifacts from the Sanxingdui Ruins holds profound research significance in tracing of both the ancient Shu and Chinese civilizations. After being unearthed, a large quantity of ivory encountered issues such as dehydration, pulverization, and cracking, resulting from poor preservation conditions. To establish effective long-term conservation strategies for the excavated ivory, this paper takes the dentin of excavated ivory from the No.7 Sacrificial Pit (K7) at the Sanxingdui Ruins as the research object, focusing on the primary correlation between its microscopic porous structure and moisture states. The results show that the organic collagen protein component of the excavated ivory has already undergone basically diagenetic degradation. The remaining main mineral phases are hydroxyapatite and carbonated hydroxyapatite, exhibiting a mixed crystal structure with mainly needle-like and secondary lamellar. The porosity of the excavated ivory, as measured by dry and wet methods, is approximately 62 and 60%, respectively. The pore size distributions are primarily concentrated in the ranges of 5–100 nm for the dry method and 10–200 nm for the wet method. These diverse and heterogeneous pore structures store approximately 35–38% of water as free water and adsorbed water. Free water is primarily found in dentinal tubules, interlayer gaps and cracks, providing volume support and stabilizing equilibrium with the external environment. Adsorbed water is mainly present in the pores (d < 100 nm), providing support function through intermolecular forces and hydrogen bonding. The deterioration of excavated ivory is positively correlated with the loss of moisture. This is due to irreversible structural damage caused by the loss of water’s supportive, bonding, and stabilizing effects. Among them, the rapid migration and evaporation of free water affect the expansion of cracks and the formation of new fissures. This study offer a robust scientific basis and valuable insights for the subsequent conservation of excavated ivory, and also provide guidance for the research of other fragile bone and horn relics.
Inclusive FinTech, open banking, and bank performance: evidence from China
Authors: Liu Zhuang , Li Xingyi , Li Zhongfei 
Published: November 2024

AbstractOpen banking is an emerging business model that is representative of FinTech. To explore whether inclusive FinTech can improve bank performance and identify the underlying mechanisms by which this occurs, we investigate a sample of Chinese commercial banks involved in open banking during 2011–2020. The results show that inclusive FinTech can improve bank performance by improving the bank’s lending rate and liability structure, and that this positive effect is more pronounced in national and rural banks. The results indicate that inclusive FinTech has the greatest impact among banks serving the largest population and those who are excluded from the traditional financial system, and that financial inclusion does not detract from bank performance. However, the results do not provide evidence that inclusive FinTech improves bank performance by reducing risk-taking, suggesting a greater need for inclusive FinTech to focus on risk management. This study adds empirical evidence regarding the role of inclusive FinTech in banks. To promote inclusive FinTech and bank performance, developing economies like China should strengthen digital financial innovations, focus on risk management, and promote cooperation under the open finance framework.
Women on the move? Mainstreaming gender in policies and legal frameworks addressing climate-induced migration
Authors: Serraglio Diogo Andreolla , Thornton Fanny 
Published: November 2024

AbstractClimate change impacts are gendered. This is also true for climate-induced migration, which affects men and women differently. On account of this difference, legal instruments and policies seeking to address and support climate-induced migration need to be gender-focused to address differentiated needs and outcomes. This paper looks at existing policies and legal instruments for the inclusion of gender aspects of climate-related migration. We focus on Ethiopia, India, and Peru, all of them with developed instruments to address the human mobility-climate change nexus. We investigate the scope of provisions concerning gender in relevant instruments in the three country contexts, their likely impact to tackle gender-specific vulnerabilities arising with climate-induced migration and suggest strategies and priorities for enhancing gender-inclusion in policy development and application broadly.
Enhanced anomaly traffic detection framework using BiGAN and contrastive learning
Authors: Yu Haoran , Yang Wenchuan , Cui Baojiang , Sui Runqi , Wu Xuedong 
Published: November 2024

AbstractAbnormal traffic detection is a crucial topic in the field of network security. However, existing methods face many challenges when processing complex high-dimensional traffic data. Especially in dealing with redundant features, data sparsity and nonlinear features, traditional methods often suffer from high computational complexity and low detection efficiency. It is challenging to capture potential patterns in complex data effectively and cannot fully meet the needs of practical applications. To address these challenges, this paper proposes an enhanced anomaly traffic detection framework using bidirectional generative adversarial networks (BiGAN) and contrastive learning. This method preprocesses high-dimensional data through steps such as data cleaning, normalization, and clustering to improve data quality. It uses BiGAN and contrastive learning technology to enhance the model's feature representation capabilities. Experimental results show that the method proposed in this paper performs well on multiple traffic data sets and significantly improves the accuracy and efficiency of anomaly detection. Overall, the solution proposed in this paper effectively overcomes the limitations of existing methods in high-dimensional data processing and provides a more advanced abnormal traffic detection strategy.