bluuebunny/crossref_metadata_2025_split huggingface dataset:
Structural basis for DNA proofreading
Authors: Buchel Gina , Nayak Ashok R. , Herbine Karl , Sarfallah Azadeh , Sokolova Viktoriia O. , Zamudio-Ochoa Angelica , Temiakov Dmitry 
Published: December 2023

AbstractDNA polymerase (DNAP) can correct errors in DNA during replication by proofreading, a process critical for cell viability. However, the mechanism by which an erroneously incorporated base translocates from the polymerase to the exonuclease site and the corrected DNA terminus returns has remained elusive. Here, we present an ensemble of nine high-resolution structures representing human mitochondrial DNA polymerase Gamma, Polγ, captured during consecutive proofreading steps. The structures reveal key events, including mismatched base recognition, its dissociation from the polymerase site, forward translocation of DNAP, alterations in DNA trajectory, repositioning and refolding of elements for primer separation, DNAP backtracking, and displacement of the mismatched base into the exonuclease site. Altogether, our findings suggest a conserved ‘bolt-action’ mechanism of proofreading based on iterative cycles of DNAP translocation without dissociation from the DNA, facilitating primer transfer between catalytic sites. Functional assays and mutagenesis corroborate this mechanism, connecting pathogenic mutations to crucial structural elements in proofreading steps.
Longitudinal imaging of murine atherosclerosis with 2-deoxy-2-[18F]fluoro-D-glucose and [18F]-sodium fluoride in genetically modified Apolipoprotein E knock-out and wild type mice
Authors: Khare Harshvardhan A. , Binderup Tina , Hag Anne Mette Fisker , Kjaer Andreas 
Published: December 2023

AbstractIn a longitudinal design, four arterial segments in mice were followed by positron emission tomography/computed tomography (PET/CT) imaging. We aimed to determine how the tracers reflected the development of atherosclerosis via the uptake of 2-deoxy-2-[18F]fluoro-D-glucose ([18F]FDG) for imaging inflammation and [18F]-sodium fluoride (Na[18F]F) for imaging active microcalcification in a murine model of atherosclerosis. Apolipoprotein E knock-out (ApoE) mice and C57 BL/6NtaC (B6) mice were divided into four groups. They received either normal chow (N = 7, ApoE mice and N = 6, B6 mice) for 32 weeks or a high-fat diet (N = 6, ApoEHFD mice and N = 9, B6HFD mice) for 32 weeks. The mice were scanned with [18F]FDG and Na[18F]F using a dedicated small animal PET/CT scanner at three timepoints. The tracer uptakes in four aortic segments (abdominal aorta, aortic arch, ascending aorta, and thoracic aorta) were measured and reported as SUVmax values. The uptake of [18F]FDG (SUVmax: 5.7 ± 0.5 vs 1.9 ± 0.2, 230.3%, p =  < 0.0001) and Na[18F]F (SUVmax: 9.6 ± 1.8 vs 4.0 ± 0.3, 175%, p = 0.007) was significantly increased in the abdominal aorta of ApoEHFD mice at Week 32 compared to baseline abdominal aorta values of ApoEHFD mice. [18F]FDG uptake in the aortic arch, ascending aorta and the thoracic aorta of B6HFD mice at Week 32 showed a robust resemblance to the abdominal aorta uptake whereas the Na[18F]F uptake only resembled in the thoracic aorta of B6HFD mice at Week 32 compared to the abdominal aorta. The uptake of both [18F]FDG and Na[18F]F increased as the disease progressed over time, and the abdominal aorta provided a robust measure across mouse strain and diet. Therefore, it seems to be the preferred region for image readout. For [18F]FDG-PET, both B6 and ApoE mice provide valuable information and either mouse strain may be used in preclinical cardiovascular studies, whereas for Na[18F]F -PET, ApoE mice should be preferred.
Comparing accuracy in voice-based assessments of biological speaker traits across speech types
Authors: Sorokowski Piotr , Groyecka-Bernard Agata , Frackowiak Tomasz , Kobylarek Aleksander , Kupczyk Piotr , Sorokowska Agnieszka , Misiak Michał , Oleszkiewicz Anna , Bugaj Katarzyna , Włodarczyk Małgorzata , Pisanski Katarzyna 
Published: December 2023

AbstractNonverbal acoustic parameters of the human voice provide cues to a vocaliser’s sex, age, and body size that are relevant in human social and sexual communication, and also increasingly so for computer-based voice recognition and synthesis technologies. While studies have shown some capacity in human listeners to gauge these biological traits from unseen speakers, it remains unknown whether speech complexity improves accuracy. Here, in over 200 vocalisers and 1500 listeners of both sexes, we test whether voice-based assessments of sex, age, height and weight vary from isolated vowels and words, to sequences of vowels and words, to full sentences or paragraphs. We show that while listeners judge sex and especially age more accurately as speech complexity increases, accuracy remains high across speech types, even for a single vowel sound. In contrast, the actual heights and weights of vocalisers explain comparatively less variance in listener’s assessments of body size, which do not vary systematically by speech type. Our results thus show that while more complex speech can improve listeners’ biological assessments, the gain is ecologically small, as listeners already show an impressive capacity to gauge speaker traits from extremely short bouts of standardised speech, likely owing to within-speaker stability in underlying nonverbal vocal parameters such as voice pitch. We discuss the methodological, technological, and social implications of these results.
Obesity-induced PARIS (ZNF746) accumulation in adipose progenitor cells leads to attenuated mitochondrial biogenesis and impaired adipogenesis
Authors: Hachiya Kazuki , Deguchi Yusuke , Hirata Takuro , Arikawa Tomoya , Fukai Hiroto , Esashi Tatsuhiro , Nagasawa Kota , Mizunoe Yuhei , Nozaki Yuka , Kobayashi Masaki , Higami Yoshikazu 
Published: December 2023

AbstractWhite adipose tissue (WAT) is critical for whole-body energy metabolism, and its dysfunction leads to various metabolic disorders. In recent years, many studies have suggested that impaired mitochondria may contribute to obesity-related decline in adipose tissue function, but the detailed mechanisms remain unclear. To investigate these mechanisms, we carried out a comprehensive analysis of WAT from mice with diet-induced obesity. We discovered the transcription factor Parkin interactive substrate (PARIS or ZNF746), which suppresses the expression of peroxisome proliferator-activated receptor γ coactivator-1α (PGC-1α), a key regulator of mitochondrial biogenesis, to be accumulated in adipose progenitor cells from obese mice. Furthermore, we demonstrated that 3T3-L1 preadipocytes with overexpression of PARIS protein exhibited decreased mitochondrial biogenesis and impaired adipogenesis. Our results suggest that the accumulation of PARIS protein may be a novel component in the pathogenesis of obesity-related dysfunction in WAT.
Real-time multi-contrast magnetic particle imaging for the detection of gastrointestinal bleeding
Authors: Mohn Fabian , Szwargulski Patryk , Kaul Michael G. , Graeser Matthias , Mummert Tobias , Krishnan Kannan M. , Knopp Tobias , Adam Gerhard , Salamon Johannes , Riedel Christoph 
Published: December 2023

AbstractGastrointestinal bleeding, as a potentially life-threatening condition, is typically diagnosed by radiation-based imaging modalities like computed tomography or more invasively catheter-based angiography. Endoscopy enables examination of the upper gastrointestinal tract and the colon but not of the entire small bowel. Magnetic Particle Imaging (MPI) enables non-invasive, volumetric imaging without ionizing radiation. The aim of this study was to evaluate the feasibility of detecting gastrointestinal bleeding by single- and multi-contrast MPI using human-sized organs. A 3D-printed small bowel phantom and porcine small bowel specimens were prepared with a defect within the bowel wall as the source of a bleeding. For multi-contrast MPI, the bowel lumen was filled with an intestinal tracer representing an orally administered tracer. MPI was performed to evaluate the fluid exchange between the vascular compartment of the bowel wall and the lumen while a blood pool tracer was applied. Leakage of the blood pool tracer was observed to the bowel lumen. Multi-contrast MPI enabled co-registration of both tracers at the same location within the bowel lumen indicating gastrointestinal bleeding. Single- and multi-contrast MPI are feasible to visualize gastrointestinal bleeding. Therefore, MPI might emerge as a useful tool for radiation-free detection of bleeding within the entire gastrointestinal tract.
A novel double-sheath negative-pressure versus conventional minimally invasive percutaneous nephrolithotomy for large kidney stone
Authors: Tuoheti Kuer-Ban , Wang Xing-Huan , Wang Ting , Wang Yong-Zhi , Liu Tong-Zu , Wu Zhong-Hua 
Published: December 2023

AbstractThis study aims to evaluate the therapeutic efficacy of a novel double-sheath negative-pressure minimally invasive percutaneous nephrolithotomy (D-mPCNL) compared to conventional minimally invasive percutaneous nephrolithotomy (C-mPCNL) for large kidney stones. A total of 132 patients diagnosed with large kidney stones in our hospital were included in the study. Among them, sixty-eight patients underwent D-mPCNL, while sixty-four underwent C-mPCNL. Parameters such as operative duration, stone-free rate, incidence of postoperative complications, and the need for auxiliary procedures were evaluated between the two groups. Compared to the C-mPCNL group, the D-mPCNL group demonstrated a significantly shorter operative time (41.97 ± 8.24 min vs. 52.30 ± 13.72 min; P < 0.000), lower rates of auxiliary procedures (5.9% vs. 17.2%; P = 0.041), and lower fever rates (2.9% vs. 14.1%; P = 0.021). The group also had a significantly higher primary stone-free rate (85.3% vs. 70.3%; P = 0.038). However, there were no statistically significant advantages in terms of the final stone-free rate, hemoglobin drops, and stone composition in the D-mPCNL group (P > 0.05). D-mPCNL is a novel surgical method that is safe and effective, reducing operative time, improving stone-free efficiency, and decreasing postoperative complications.
The thrombin generation capability of the Chacma baboon (Papio ursinus): implications for haemostatic disease models
Authors: Joubert J. , Meiring S. M. , Janse van Rensburg W. J. 
Published: December 2023

AbstractBaboon models are often used to investigate haemostatic diseases, such as acquired thrombotic thrombocytopenic purpura or bacterial sepsis-induced disseminated intravascular coagulation, and their potential treatment with novel drugs. Thrombin generation is vital for these models, and an important potential therapeutic target. We investigated the thrombin generation profile of the Chacma baboon (Papio ursinus – a common pre-clinical model) including the effects of sex and ABO blood group. Thrombin generation curves, lag times, peak heights, times-to-peak, velocity indexes and Endogenous Thrombin Potentials (ETPs) of 40 adult Chacma baboons were assessed and compared with normal human plasma, using a low concentration of tissue factor (1 pM) and phospholipids. Reference intervals were calculated, and results compared between O and non-O ABO blood groups, and between males and females. Lag times of all baboons fell within the human reference interval. Most animals (n = 32; 80%) had times-to-peak above, and velocity indexes and peak heights markedly below (n = 27; 68%) the human range. However, 97.5% of baboons had an ETP above the human reference interval, indicating greater overall thrombin generation. ABO blood group had no effect, but males (n = 14; 35%) had less potent thrombin generation than females (n = 26; 65%), with significantly longer lag times (p = 0.0475), lower peak thrombin concentrations (p = 0.0203), and lower ETPs (p = 0.0238). Chacma baboons have greater overall endogenous thrombin generation potentials than humans, which is even more prominent in females. This should be considered when designing future baboon model experiments involving the haemostatic system, or when evaluating novel therapies in these animals.
A novel deep learning model for a computed tomography diagnosis of coronary plaque erosion
Authors: Park Sangjoon , Yuki Haruhito , Niida Takayuki , Suzuki Keishi , Kinoshita Daisuke , McNulty Iris , Broersen Alexander , Dijkstra Jouke , Lee Hang , Kakuta Tsunekazu , Ye Jong Chul , Jang Ik-Kyung 
Published: December 2023

AbstractPatients with acute coronary syndromes caused by plaque erosion might be managed conservatively without stenting. Currently, the diagnosis of plaque erosion requires an invasive imaging procedure. We sought to develop a deep learning (DL) model that enables an accurate diagnosis of plaque erosion using coronary computed tomography angiography (CTA). A total of 532 CTA scans from 395 patients were used to develop a DL model: 426 CTA scans from 316 patients for training and internal validation, and 106 separate scans from 79 patients for validation.Momentum Distillation-enhanced Composite Transformer Attention (MD-CTA), a novel DL model that can effectively process the entire set of CTA scans to diagnose plaque erosion, was developed. The novel DL model, compared to the convolution neural network, showed significantly improved AUC (0.899 [0.841–0.957] vs. 0.724 [0.622–0.826]), sensitivity (87.1 [70.2–96.4] vs. 71.0 [52.0–85.8]), and specificity (85.3 [75.3–92.4] vs. 68.0 [56.2–78.3]), respectively, for the patient-level prediction. Similar results were obtained at the slice-level prediction AUC (0.897 [0.890–0.904] vs. 0.757 [0.744–0.770]), sensitivity (82.2 [79.8–84.3] vs. 68.9 [66.2–71.6]), and specificity (80.1 [79.1–81.0] vs. 67.3 [66.3–68.4]), respectively. This newly developed DL model enables an accurate CT diagnosis of plaque erosion, which might enable cardiologists to provide tailored therapy without invasive procedures.Clinical Trial Registration:http://www.clinicaltrials.gov, NCT04523194.
GPR15-mediated T cell recruitment during acute viral myocarditis facilitated virus elimination and improved outcome
Authors: Stoffers Bastian , Wolf Hanna , Bacmeister Lucas , Kupsch Svenja , Vico Tamara , Marchini Timoteo , Brehm Maria A. , Yan Isabell , Becher P. Moritz , Ardeshirdavani Armin , Escher Felicitas , Kim Sangwon V. , Klingel Karin , Kirchhof Paulus , Blankenberg Stefan , Zeller Tanja , Wolf Dennis , Hilgendorf Ingo , Westermann Dirk , Lindner Diana 
Published: December 2023

AbstractViral myocarditis is characterized by infiltration of mononuclear cells essential for virus elimination. GPR15 has been identified as a homing receptor for regulatory T cells in inflammatory intestine diseases, but its role in inflammatory heart diseases is still elusive. Here we show that GPR15 deficiency impairs coxsackievirus B3 elimination, leading to adverse cardiac remodeling and dysfunction. Delayed recruitment of regulatory T cells in GPR15-deficient mice was accompanied by prolonged persistence of cytotoxic and regulatory T cells. In addition, RNA sequencing revealed prolonged inflammatory response and altered chemotaxis in knockout mice. In line, we identified GPR15 and its ligand GPR15L as an important chemokine receptor–ligand pair for the recruitment of regulatory and cytotoxic T cells. In summary, the insufficient virus elimination might be caused by a delayed recruitment of T cells as well as delayed interferon-γ expression, resulting in a prolonged inflammatory response and an adverse outcome in GPR15-deficient mice.
Continuing Education Needs of Speech-Language Pathologists for Assessing and Treating Children With Cleft Palate: A National Analysis Across Areas of Varying Population Density
Authors: Kotlarek Katelyn J. , Rogers Katelan , Mason Kazlin N. 
Published: December 2023

Purpose:
The purpose of this study was to identify training gaps and continuing education (CE) needs for speech-language pathologists (SLPs) in evaluating and treating children with cleft palate across and among areas of varying population density.

Method:
An anonymous 35-question survey lasting approximately 10–15 min was created in Qualtrics based on a previously published study. The survey information and link were electronically distributed to American Speech-Language-Hearing Association (ASHA)–certified SLPs through ASHA listservs, social media, individual-state SLP organizations, and an e-mail list of publicly listed SLPs. A total of 359 survey responses were collected.

Results:
Respondents varied in terms of age, type of certification, practice location, and clinical experience with cleft palate, with the largest percentage (46.7%) of respondents in a school-based setting. Only 28.5% reported currently feeling comfortable treating children with cleft palate. Respondents reported conventions/conferences (25.4%) and webinars (23.2%) were the most helpful resources, but DVDs were frequently not used for CE. Information from the child's cleft team (84.4%) and mentors/colleagues (70%) were considered high-quality resources. Respondents indicated information on treatment of articulation (79.2%) and resonance (78.4%) disorders as well as specific therapy techniques (76.9%) would be very helpful for clinical practice. Population density significantly influenced how respondents ranked the perceived helpfulness and quality of different resources as well as desired topics for future resources.

Conclusions:
There is a continued need for adequate training and CE opportunities for SLPs, particularly related to assessing and treating children with cleft palate. Increased access to high-quality CE resources will be key to filling educational gaps present for SLPs, especially in areas of low-population density.

Supplemental Material:

https://doi.org/10.23641/asha.24891423
Lessons learned: Symbiotic autonomous robot ecosystem for nuclear environments
Authors: Mitchell Daniel , Emor Baniqued Paul Dominick , Zahid Abdul , West Andrew , Nouri Rahmat Abadi Bahman , Lennox Barry , Liu Bin , Kizilkaya Burak , Flynn David , Francis David John , Pulgarin Erwin Jose Lopez , Zhao Guodong , Kivrak Hasan , Blanche Jamie Rowland Douglas , David Jennifer , Wang Jingyan , Bolarinwa Joseph , Yao Kanzhong , Groves Keir , Qi Liyuan , Shawky Mahmoud A. , Giuliani Manuel , Sandison Melissa , Popoola Olaoluwa , Marjanovic Ognjen , Bremner Paul , Harper Samuel Thomas , Nandakumar Shivoh , Watson Simon , Agrawal Subham , Lim Theodore , Johnson Thomas , Ahmad Wasim , Xu Xiangmin , Meng Zhen , Jiang Zhengyi 
Published: December 2023

AbstractNuclear facilities have a regulatory requirement to measure radiation levels within Post Operational Clean Out (POCO) around nuclear facilities each year, resulting in a trend towards robotic deployments to gain an improved understanding during nuclear decommissioning phases. The UK Nuclear Decommissioning Authority supports the view that human‐in‐the‐loop (HITL) robotic deployments are a solution to improve procedures and reduce risks within radiation characterisation of nuclear sites. The authors present a novel implementation of a Cyber‐Physical System (CPS) deployed in an analogue nuclear environment, comprised of a multi‐robot (MR) team coordinated by a HITL operator through a digital twin interface. The development of the CPS created efficient partnerships across systems including robots, digital systems and human. This was presented as a multi‐staged mission within an inspection scenario for the heterogeneous Symbiotic Multi‐Robot Fleet (SMuRF). Symbiotic interactions were achieved across the SMuRF where robots utilised automated collaborative governance to work together, where a single robot would face challenges in full characterisation of radiation. Key contributions include the demonstration of symbiotic autonomy and query‐based learning of an autonomous mission supporting scalable autonomy and autonomy as a service. The coordination of the CPS was a success and displayed further challenges and improvements related to future MR fleets.
Joint optimization of reconfiguration and traffic planning in time‐triggered networks
Authors: Li Ji , Li Qiao , Xiong Huagang 
Published: December 2023

AbstractThe existing research on time‐triggered network reconfiguration neglects redundant traffic states, posing a challenge in effectively balancing traffic performance and reconfiguration efficiency in practical deployments. In response to these limitations, a novel joint optimization approach is introduced for reconfiguration and traffic planning. Initially, the efficiency of reconfiguration solutions is enhanced by sacrificing the delay performance of redundant flows and prioritizing compressed yet tailored constraints. Subsequently, a tabu‐based optimization algorithm is employed to provide more flexible enhancements to the delay performance of network‐wide traffic. The outcomes demonstrate that the proposed method significantly outperforms incremental reconfiguration, improving the solution efficiency of the reconfiguration recovery phase by over 75.38%. Furthermore, through multiple rounds of reconfiguration, the approach achieves an 8.38% improvement in the average delay performance of all flows, even with redundant flows sacrificed.
High-resolution ultrasound of the supra- and infraclavicular levels of the brachial plexus including the axillary nerve: imaging anatomy based on multiplanar reconstructions and technical guide
Authors: Bruckmoser Ralf , Antoniadis Gregor , Strowitzki Martin , Leister Iris , Katzensteiner Moritz , Wutte Christof , Schlagheck Julian , Stuby Fabian M. 
Published: December 2023

Abstract
Purpose The diagnosis of peripheral nerve injuries remains challenging. Electromyography and nerve conduction studies do not allow precise localization of the lesion and differentiation between lesions in continuity and non-continuity in cases with complete axonotmesis. Improved ultrasound technology allows the examination of almost the entire peripheral nervous system. The complex sono-anatomy of the brachial plexus outside of the standard scanning planes makes it difficult to access this region.
Methods On the basis of the Visible Human Project of the National Institutes of Health (NIH), multiplanar reconstructions were created with the 3D Slicer open-source software in the various planes of the ultrasound cross-sections. The ultrasound examination itself and the guidance of the ultrasound probe in relation to the patient were recorded as video files and were synchronized through the audio channel. Subsequently, image matching was performed.
Results Multiplanar reconstructions facilitate visualization of anatomical regions which are challenging to access thereby enabling physicians to evaluate the course of the peripheral nerve of interest in dynamic conditions. Sonographically visible structures could be reproducibly identified in single-frame analysis.
Conclusion With precise knowledge of the ultrasound anatomy, the nerve structures of the brachial plexus can also be dynamically assessed almost in their entire course. An instructional video on ultrasound of the brachial plexus supplements this manuscript and has been published on Vimeo.com.