bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantifying the abundance and survival rates of island-associated spinner dolphins using a multi-state open robust design model
Authors: McPherson Liah , Badger Janelle , Fertitta Kyleigh , Gordanier Madison , Nemeth Cameron , Bejder Lars 
Published: June 2024

AbstractSpinner dolphins (Stenella longirostris subsp.) occupy the nearshore waters of several Hawaiian Islands. Due to their constrained behavioral pattern and genetic isolation, they are vulnerable to anthropogenic threats. Their occurrence and behavior are well-described, yet a lack of data on their abundance and survival rates hinders optimal conservation action. Using design-based photo-identification surveys, this study estimated the abundance, apparent survival, and emigration of spinner dolphins off the Waiʻanae Coast of Oʻahu through multi-state open robust design (MSORD) and POPAN modelling. Eight seasonal field seasons, (two winter, spring, summer, and autumn) each comprised of six surveys of the study area, were completed during two consecutive years. Seasonal abundance estimates derived from the best fitting model ranged from 140 (± 36.8 SE, 95% CI 84–232) to 373 (± 60.0, 95% CI 273–509) individuals and were lowest during winter seasons. The MSORD estimated a survival rate of 0.95 (± 0.02 SE) and a Markovian pattern of temporary emigration. POPAN modelling estimated a super-population size of 633 (± 78 SE, 95% CI 492–798), reflecting the total number of individual dolphins that used the study area during the entire study period. Additional research on circum- and inter-island dolphin movements around and between Oʻahu and the Maui Nui region may shed light on both seasonal movement patterns and overall abundance for the Oʻahu/4-Islands stock. This work represents the first systematic mark-recapture effort to assess the abundance and survival rates of these highly exposed dolphins, providing valuable insights for conservation and management.
A meta-analysis comparing the performance of narrowband CE-Chirp and 500 Hz tone burst stimuli in recording cervical vestibular evoked myogenic potential (cVEMP)
Authors: Zakaria Mohd Normani , Abdallatif Athar Mazen Rasmi , Wan Mohamad Wan Najibah , Rashid Mohd Fadzil Nor , Patuzzi Robert , Abdullah Baharudin , Salim Rosdan , Omar Marniza 
Published: June 2024

AbstractDue to contradictory outcomes in the literature, the aim of this meta-analysis is to verify whether the narrowband (NB) CE-Chirp stimulus (centred at 500 Hz) would produce more robust cervical vestibular evoked myogenic potential (cVEMP) responses relative to the conventional 500 Hz tone burst. The literature search was conducted using PubMed, Scopus, and Web of Science databases and the terms used were “vestibular evoked myogenic potential” and “chirp”. The cVEMP parameters to be analysed were P1 latency, N1 latency, and P1–N1 amplitude. A total of 59 potential articles were obtained from the database search. Eventually, five articles were found to be eligible for the meta-analysis (with n = 222). As found, P1 and N1 latencies of cVEMP were significantly shorter for the chirp stimulus (p < 0.001), with substantially large effect sizes. On the other hand, P1–N1 amplitude values were found to be not statistically different between the two stimuli (p = 0.189), with a small effect size. It appears that there is no indication to support the superiority of the NB CE-Chirp stimulus (centred at 500 Hz) in the cVEMP testing (relative to the conventional 500 Hz tone burst). In particular, both stimuli produce comparable P1–N1 amplitude values. Even though P1 and N1 latencies are statistically shorter for the chirp stimulus, this may not reflect that it should be the preferred stimulus for recording cVEMP responses (and the reasons for this are discussed accordingly).
NMR-based metabolomics identification of potential serum biomarkers of disease progression in patients with multiple sclerosis
Authors: Alwahsh Mohammad , Nimer Refat M. , Dahabiyeh Lina A. , Hamadneh Lama , Hasan Aya , Alejel Rahaf , Hergenröder Roland 
Published: June 2024

AbstractMultiple sclerosis (MS) is a chronic and progressive neurological disorder, characterized by neuroinflammation and demyelination within the central nervous system (CNS). The etiology and the pathogenesis of MS are still unknown. Till now, no satisfactory treatments, diagnostic and prognostic biomarkers are available for MS. Therefore, we aimed to investigate metabolic alterations in patients with MS compared to controls and across MS subtypes. Metabolic profiles of serum samples from patients with MS (n = 90) and healthy control (n = 30) were determined by Nuclear Magnetic Resonance (1H-NMR) Spectroscopy using cryogenic probe. This approach was also utilized to identify significant differences between the metabolite profiles of the MS groups (primary progressive, secondary progressive, and relapsing–remitting) and the healthy controls. Concentrations of nine serum metabolites (adenosine triphosphate (ATP), tryptophan, formate, succinate, glutathione, inosine, histidine, pantothenate, and nicotinamide adenine dinucleotide (NAD)) were significantly higher in patients with MS compared to control. SPMS serum exhibited increased pantothenate and tryptophan than in PPMS. In addition, lysine, myo-inositol, and glutamate exhibited the highest discriminatory power (0.93, 95% CI 0.869–0.981; 0.92, 95% CI 0.859–0.969; 0.91, 95% CI 0.843–0.968 respectively) between healthy control and MS. Using NMR- based metabolomics, we identified a set of metabolites capable of classifying MS patients and controls. These findings confirmed untargeted metabolomics as a useful approach for the discovery of possible novel biomarkers that could aid in the diagnosis of the disease.
Towards a better understanding of idiopathic epilepsy through metabolic fingerprinting of cerebrospinal fluid in dogs
Authors: Verdoodt Fien , Bhatti Sofie F. M. , Kragic Karla , Van Ham Luc , Vanhaecke Lynn , Hesta Myriam , Hemeryck Lieselot Y. 
Published: June 2024

AbstractCerebrospinal fluid metabolomics is a promising research technology in the elucidation of nervous system disorders. Therefore, in this work, a cerebrospinal fluid (CSF) metabolomics method using liquid chromatography coupled to mass spectrometry was optimized and validated to cover a wide range of metabolites. An acceptable coefficient of variance regarding instrumental, within-lab and intra-assay precision was found for 95, 70 and 96 of 102 targeted metabolites, together with 1256, 676 and 976 untargeted compounds, respectively. Moreover, approximately 75% of targeted metabolites and 50% of untargeted compounds displayed good linearity across different dilution ranges. Consequently, metabolic alterations in CSF of dogs with idiopathic epilepsy (IE) were studied by comparing CSF of dogs diagnosed with IE (Tier II) to dogs with non-brain related disease. Targeted metabolome analysis revealed higher levels of cortisol, creatinine, glucose, hippuric acid, mannose, pantothenol, and 2-phenylethylamine (P values < 0.05) in CSF of dogs with IE, whereas CSF of dogs with IE showed lower levels of spermidine (P value = 0.02). Untargeted CSF metabolic fingerprints discriminated dogs with IE from dogs with non-brain related disease using Orthogonal Partial Least Squares Discriminant Analysis (R2(Y) = 0.997, Q2(Y) = 0.828), from which norepinephrine was putatively identified as an important discriminative metabolite.
Fluorescence excitation-scanning hyperspectral imaging with scalable 2D–3D deep learning framework for colorectal cancer detection
Authors: Oswald Willaim , Browning Craig , Yasmin Ruthba , Deal Joshua , Rich Thomas C. , Leavesley Silas J. , Gong Na 
Published: June 2024

AbstractColorectal cancer is one of the top contributors to cancer-related deaths in the United States, with over 100,000 estimated cases in 2020 and over 50,000 deaths. The most common screening technique is minimally invasive colonoscopy using either reflected white light endoscopy or narrow-band imaging. However, current imaging modalities have only moderate sensitivity and specificity for lesion detection. We have developed a novel fluorescence excitation-scanning hyperspectral imaging (HSI) approach to sample image and spectroscopic data simultaneously on microscope and endoscope platforms for enhanced diagnostic potential. Unfortunately, fluorescence excitation-scanning HSI datasets pose major challenges for data processing, interpretability, and classification due to their high dimensionality. Here, we present an end-to-end scalable Artificial Intelligence (AI) framework built for classification of excitation-scanning HSI microscopy data that provides accurate image classification and interpretability of the AI decision-making process. The developed AI framework is able to perform real-time HSI classification with different speed/classification performance trade-offs by tailoring the dimensionality of the dataset, supporting different dimensions of deep learning models, and varying the architecture of deep learning models. We have also incorporated tools to visualize the exact location of the lesion detected by the AI decision-making process and to provide heatmap-based pixel-by-pixel interpretability. In addition, our deep learning framework provides wavelength-dependent impact as a heatmap, which allows visualization of the contributions of HSI wavelength bands during the AI decision-making process. This framework is well-suited for HSI microscope and endoscope platforms, where real-time analysis and visualization of classification results are required by clinicians.
Mitigating sub-synchronous oscillation using intelligent damping control of DFIG based on improved TD3 algorithm with knowledge fusion
Authors: Liu Ge , Liu Jun , Liu Andong 
Published: June 2024

AbstractThe occurrence of sub-synchronous oscillation (SSO) phenomenon in doubly-fed induction generators (DFIGs)-based wind turbines threatens the secure and stable operation of the power grid. Conventional sub-synchronous damping controllers encounter challenges in adapting to the dynamic operating conditions of power systems. This paper introduces an Intelligent Sub-Synchronous Damping Controller (I-SSDC) for DFIGs that integrates deep reinforcement learning (DRL) and knowledge to address the limitations of conventional methods for SSO mitigation. The initial step involves formulating a framework for I-SSDC using the improved twin delayed deep deterministic policy gradient (TD3) algorithm incorporating Softmax. Following this, a surrogate model is constructed, employing Weighted Linear Regression and regularization. This model is designed to identify the predominant influencing factors of SSO, focusing on the selection of the output signal (installation position) to optimize decision-making in I-SSDC. The objective is to enhance the controller’s environmental adaptability and interpretability. Moreover, knowledge and experience related to SSOs are integrated into agent training to improve the exploration efficiency of the agent. Case studies under various operating conditions of the test power system validate the efficacy of the proposed I-SSDC in suppressing SSOs.
Sperm handling and management in the teleost model fish Japanese medaka (Oryzias latipes)
Authors: Sayyari Amin , Krogenæs Anette Kristine , Mayer Ian , Labbé Catherine 
Published: June 2024

AbstractJapanese medaka (Oryzias latipes) has been used as a model organism in different research fields, including reproductive physiology. Sperm motility is the most important marker for male fertility in fish and, thus, reproduction success. However, because of small volume of ejaculate and short motility duration, it is still challenging to manage the sperm collection and analysis in small model fish. In the present study, we aimed to investigate sperm motility and to optimize sperm collection, short-term sperm storage, and cryopreservation in Japanese medaka (Oryzias latipes). Using two different approaches for sperm collection: testes dissection and abdominal massage, different housing conditions and activating the sperm with different activation solutions, we investigated immediate sperm motility. In the second part of this study, we used different osmolalities of immobilization solution, Hank's Balanced Salt Solution (HBSS) for sperm storage at 0, 2 and 3 h after sperm collection. Finally, the sperm were cryopreserved using methanol as cryoprotectant and HBSS as extender at two different osmolalities, and post-thaw sperm motility was investigated. The highest post-activating sperm motility was achieved in the groups activated by the extender at 300 mOsm/kg. The quality of sperm remained unaffected by co-housing with females or with males only. Furthermore, Hanks’ Balanced Salt Solution (HBSS) with an osmolality of 600 mOsm/kg demonstrated its efficacy as a suitable extender for sperm storage, preserving motility and progressivity for 3 h. The highest post-thaw motility was around 35%. There were no significant differences between post-thaw motility in different groups. We also found that post-thaw incubation on ice can maintain the motility of the sperm for up to one hour after thawing.
An analytical characterization study on biofuel obtained from pyrolysis of Madhuca longifolia residues
Authors: Thiru S. , Kola Ramesh , Thimmaraju Manish Kumar , Dhanalakshmi C. Sowmya , Sharma Vipin , Sakthi P. , Maguluri Lakshmana Phaneendra , Ranganathan L. , Lalvani J. Isaac JoshuaRamesh 
Published: June 2024

AbstractThe current study focuses on examining the characteristics of biofuel obtained from the pyrolysis of Madhuca longifolia residues, since the selected forest residue was primarily motivated by its greater volatile matter content. The study used several analytical techniques to describe pyrolysis oil, char, and gas obtained from slow pyrolysis process conducted between 350 and 600 °C in a fixed-bed reactor. Initially, the effect of process temperature on product distribution was assessed to motivate maximum pyrolysis oil yield and found to be 44.2 wt% at pyrolysis temperature of 475 °C, while the yields of char and gas were 22.1 wt% and 33.7 wt%, respectively. In order to determine the suitability of the feedstock, the Madhuca longifolia residues were analyzed by TGA and FT-IR, which revealed that the feedstock could be a feasible option as an energy source. The characterization of pyrolysis oil, char, and gas has been done through various analytical methods like FT-IR, GC-MS, and gas chromatography. The physicochemical characteristics of the pyrolysis oil sample were examined, and the results showed that the oil is a viscous liquid with a lower heating value than conventional diesel. The FT-IR and GC-MS analysis of pyrolysis oil revealed the presence of increased levels of oxygenated chemicals, acids, and phenol derivatives. The findings of the FT-IR analysis of char indicated the existence of aromatic and aliphatic hydrocarbons. The increased carbon content in the char indicated the possibility of using solid fuel. Gas chromatography was used to examine the chemical structure of the pyrolysis gas, and the results showed the existence of combustible elements.
Elicitors directed in vitro growth and production of stevioside and other secondary metabolites in Stevia rebaudiana (Bertoni) Bertoni
Authors: Ghazal Bushra , Fareed Amna , Ahmad Nisar , Azra  , Salmen Saleh H. , Ansari Mohammad Javed , Zeng Yawen , Farid Abid , Jenks Matthew A. , Qayyum Abdul 
Published: June 2024

AbstractStevia rebaudiana (stevia) is a plant in the Asteraceae that contains several biologically active compounds including the antidiabetic diterpene glycosides (e.g. stevioside, rebaudioside and dulcoside) that can serve as zero-calorie sugar alternatives. In this study, an elicitation strategy was applied using 5% polyethylene glycol (PEG), sodium chloride (NaCl; 50 and 100 mM) and gibberellic acid (2.0 and 4.0 mg/L GA3) to investigate their effect on shoot morphogenesis, and the production of phenolics, flavonoids, total soluble sugars, proline and stevioside, as well as antioxidant activity, in shoot cultures of S. rebaudiana. Herewith, the media supplemented with 2 mg/L and 4 mg/L GA3 exhibited the highest shooting response (87% and 80%). The augmentation of lower concentrations of GA3 (2 mg/L) in combination with 6-benzylaminopurine (BAP) resulted in the maximum mean shoot length (11.1 cm). The addition of 100 mM NaCl salts to the media led to the highest observed total phenolics content (TPC; 4.11 mg/g-DW compared to the control 0.52 mg/g-DW), total flavonoids content (TFC; 1.26 mg/g-DW) and polyphenolics concentration (5.39 mg/g-DW) in shoots cultured. However, the maximum antioxidant activity (81.8%) was observed in shoots raised in media treated with 50 mM NaCl. The application of 2 mg/L of GA3 resulted in the highest accumulation of proline (0.99 μg/mL) as compared to controls (0.37 μg/mL). Maximum stevioside content (71 µL/mL) was observed in cultures supplemented with 100 mM NaCl and 5% PEG, followed by the 4 mg/L GA3 treatment (70 µL/mL) as compared to control (60 µL/mL). Positive correlation was observed between GA3 and stevioside content. Notably, these two compounds are derived from a shared biochemical pathway. These results suggest that elicitation is an effective option to enhance the accumulation of steviosides and other metabolites and provides the groundwork for future industrial scale production using bioreactors.
Genome-wide association study identifies host genetic variants influencing oral microbiota diversity and metabolic health
Authors: Stankevic Evelina , Kern Timo , Borisevich Dmitrii , Poulsen Casper Sahl , Madsen Anne Lundager , Hansen Tue Haldor , Jonsson Anna , Schubert Mikkel , Nygaard Nikoline , Nielsen Trine , Belstrøm Daniel , Ahluwalia Tarunveer S. , Witte Daniel R. , Grarup Niels , Arumugam Manimozhiyan , Pedersen Oluf , Hansen Torben 
Published: June 2024

AbstractThe microbial communities of the oral cavity are important elements of oral and systemic health. With emerging evidence highlighting the heritability of oral bacterial microbiota, this study aimed to identify host genome variants that influence oral microbial traits. Using data from 16S rRNA gene amplicon sequencing, we performed genome-wide association studies with univariate and multivariate traits of the salivary microbiota from 610 unrelated adults from the Danish ADDITION-PRO cohort. We identified six single nucleotide polymorphisms (SNPs) in human genomes that showed associations with abundance of bacterial taxa at different taxonomical tiers (P < 5 × 10–8). Notably, SNP rs17793860 surpassed our study-wide significance threshold (P < 1.19 × 10–9). Additionally, rs4530093 was linked to bacterial beta diversity (P < 5 × 10–8). Out of these seven SNPs identified, six exerted effects on metabolic traits, including glycated hemoglobin A1c, triglyceride and high-density lipoprotein cholesterol levels, the risk of type 2 diabetes and stroke. Our findings highlight the impact of specific host SNPs on the composition and diversity of the oral bacterial community. Importantly, our results indicate an intricate interplay between host genetics, the oral microbiota, and metabolic health. We emphasize the need for integrative approaches considering genetic, microbial, and metabolic factors.
Effects of aeolian deposition on soil properties and microbial carbon metabolism function in farmland of Songnen Plain, China
Authors: Mo Jixian , Song Ziwei , Che Yanjing , Li Jie , Liu Tianyi , Feng Jingyi , Wang Ziying , Rong Jiandong , Gu Siyu 
Published: June 2024

AbstractThe effects of wind erosion, one of the crucial causes of soil desertification in the world, on the terrestrial ecosystem are well known. However, ecosystem responses regarding soil microbial carbon metabolism to sand deposition caused by wind erosion, a crucial driver of biogeochemical cycles, remain largely unclear. In this study, we collected soil samples from typical aeolian deposition farmland in the Songnen Plain of China to evaluate the effects of sand deposition on soil properties, microbial communities, and carbon metabolism function. We also determined the reads number of carbon metabolism-related genes by high-throughput sequencing technologies and evaluated the association between sand deposition and them. The results showed that long-term sand deposition resulted in soil infertile, roughness, and dryness. The impacts of sand deposition on topsoil were more severe than on deep soil. The diversity of soil microbial communities was significantly reduced due to sand deposition. The relative abundances of Nitrobacteraceae, Burkholderiaceae, and Rhodanobacteraceae belonging to α-Proteobacteria significantly decreased, while the relative abundances of Streptomycetaceae and Geodermatophilaceae belonging to Actinobacteria increased. The results of the metagenomic analysis showed that the gene abundances of carbohydrate metabolism and carbohydrate-activity enzyme (GH and CBM) significantly decreased with the increase of sand deposition amount. The changes in soil microbial community structure and carbon metabolism decreased soil carbon emissions and carbon cycling in aeolian deposition farmland, which may be the essential reasons for land degradation in aeolian deposition farmland.
Implications of mitochondrial membrane potential gradients on signaling and ATP production analyzed by correlative multi-parameter microscopy
Authors: Gottschalk Benjamin , Koshenov Zhanat , Malli Roland , Graier Wolfgang F. 
Published: June 2024

AbstractThe complex architecture and biochemistry of the inner mitochondrial membrane generate ultra-structures with different phospholipid and protein compositions, shapes, characteristics, and functions. The crista junction (CJ) serves as an important barrier separating the cristae (CM) and inner boundary membranes (IBM). Thereby CJ regulates the movement of ions and ensures distinct electrical potentials across the cristae (ΔΨC) and inner boundary (ΔΨIBM) membranes. We have developed a robust and flexible approach to visualize the CJ permeability with super-resolution microscopy as a readout of local mitochondrial membrane potential (ΔΨmito) fluctuations. This method involves analyzing the distribution of TMRM fluorescence intensity in a model that is restricted to the mitochondrial geometry. We show that mitochondrial Ca2+ elevation hyperpolarizes the CM most likely caused by Ca2+ sensitive increase of mitochondrial tricarboxylic acid cycle (TCA) and subsequent oxidative phosphorylation (OXPHOS) activity in the cristae. Dynamic multi-parameter correlation measurements of spatial mitochondrial membrane potential gradients, ATP levels, and mitochondrial morphometrics revealed a CJ-based membrane potential overflow valve mechanism protecting the mitochondrial integrity during excessive cristae hyperpolarization.