bluuebunny/crossref_metadata_2025_split huggingface dataset:
Microplastics pollution modulating soil biological health – A review
Authors: Kumar Manish , Kumar Rakesh , Sharma Shailja , Mukherjee Santanu , Bolan Shiv , Shrivastava Anamika , Hettiarachchi Mala , Siddique Kadaombot H. M. , Bolan Nanthi 
Published: January 2025

AbstractMicroplastics (MPs) reach the soil environment through the application of recycled water, biosolids, and compost and the in‐situ weathering of plastic mulch used in agriculture. This review provides an overview of the sources of MP input to soil and their interactions with soil biota, thereby impacting soil biological health. MPs contain various chemical additives and can be ingested by soil biota, thereby impacting their activity and function. MPs also serve as a vector for inorganic and organic contaminants. These chemical additives and environmental contaminants can be released into soil porewater during the weathering of MPs in soil and impact soil biota. Overall, MPs can also alter soil's physical and chemical properties thereby impacting the habitat for soil microorganisms. Soil microorganisms can use MPs as a carbon source and porous habitat for proliferation. Future research needs to focus on the genomic and functional diversity of soil microbes as impacted by MP contamination, thereby enabling us to develop strategies to mitigate the impacts of MP on soil biological health.
Enhancing the Life Cycle Management of Built Environment With Integrated Land Administration Functions Based on BIM/IFC and LADM
Authors: Korkmaz Özlem , Yılmaz Okan , Basaraner Melih , Alkan Mehmet 
Published: January 2025

ABSTRACTThe maintenance of physical and legal data related to development in different formats necessitates the manual verification of construction projects' compliance with legal requirements and regulations. However, supporting the BIM/IFC standard, which models the design and construction process of buildings, with legal models has the potential to facilitate compliance with legal requirements and regulations, provide clarity in ownership and boundary management, oversee project approval and control, and ensure that legal areas are secured in 3D. This study focuses on the design of an integrated legal model based on the land administration domain model (LADM) standard, considering the functions of land administration in Türkiye, and explores the possibilities of mapping this model to the IFC data format. The study aims to represent land administration functions in BIM/IFC projects and integrate these processes with physical development. The findings from testing the proposed framework's applicability on an existing BIM project reveal opportunities for the integrated management of legal processes that create rights, restrictions, and responsibilities (RRRs) in spatial entities with physical processes.
Solid‐phase red cell adherence versus gel column agglutination: Is there any difference for the detection of alloantibodies associated with the JK system?
Authors: Cupaiolo Roberto , Mahadeb Bhavna , Barreau Isabelle , El Kenz Hanane 
Published: January 2025

AbstractBackgroundDetection of alloantibodies associated with the JK system may be tricky. They are nevertheless associated with transfusion reactions and their detection is crucial.Study Design and MethodsRetrospectively and over a period of 7 years, we compared the results obtained using two different assays for antibody detection. We performed antibody detection testing with solid‐phase red cell adherence (SPRCA). If positive, the antibody identification was carried out with the SPRCA and confirmed with the gel method in Coombs medium. In case of discrepant results occurring in recently transfused patients, we investigated these patients during the post‐transfusion period.ResultsFifty‐five patients with anti‐JK1 or anti‐JK2 were identified out of which 41 were further analyzed. Both techniques clearly identified 10 alloantibodies. In 22 cases, the alloantibody identified by SPRCA was not observed with the gel method because of negative detection tests. In one case, none of the techniques identified the alloantibody and in 8 cases, the final result was inconclusive (1/41 with the SPRCA and 8/41 with the gel method). Two patients having a highly probable delayed hemolytic transfusion reaction (DHTR) were identified among the discrepant results. For both cases, anti‐JK2 was clearly identified by the SPRCA but showed inconclusive reactions with the gel method.DiscussionThis study shows that in 29 out of 41 cases, the anti‐JK1 or anti‐JK2 identified with the SPRCA method were not with the gel method in Coombs medium. Eleven cases (11/29) were clinically significant and among them, 4 likely DHTRs and 2 highly probable DHTRs occurred.
Hydrogel‐based metal–organic frameworks doped into Mn/Ni oxide for the effective removal of ciprofloxacin antibiotic from water
Authors: Almas  , Shahzadi Tayyaba , Riaz Tauheeda , Zaib Maria , Kashif Uddin Mohammad 
Published: January 2025

AbstractThis study aimed to synthesize and evaluate the adsorption properties of a novel, recyclable, and environmentally friendly nanocomposite containing metal–organic frameworks (MOFs) and a biopolymer hydrogel infused with a nanocatalyst. Copper MOFs were prepared via aqueous synthesis. A green nanocatalyst composed of Mn/Ni oxide was synthesized utilizing the Dalbergia sissoo plant. Hydrogel‐based Mn/Ni oxide doped CuMOFs (doped‐CuMOFs/Hy) were finally prepared. The structure and composition of doped‐CuMOFs/Hy have been confirmed through various characterization analyses. The doped‐CuMOFs/Hy effectively removed 99% of the ciprofloxacin (CIP) from the aqueous solution under optimal conditions of pH 8, a 60‐minute duration, an adsorbent dose of 0.03 g, and a CIP concentration of 25 mg/L. It had a maximum adsorption capacity of 4525.29 mg/g. The mechanism was summarized by linear and non‐linear isotherm and kinetic models. The reusability test after five cycles showed 81% CIP removal. Successfully implementing this material in industrial water systems could have a significant impact on environmental research. Additionally, its cost‐effectiveness would provide substantial benefits to global economy.
Development of a Finite Element Model of the Human Wrist Joint With Radial and Ulnar Axial Force Distribution and Radiocarpal Contact Validation
Authors: Mena Andres , Wollstein Ronit , Yang James 
Published: January 2025

Abstract
This study presents a comprehensive finite element (FE) model for the human wrist, constructed from a CT scan of a 68-year-old male (type 1 wrist). This model intricately captures the bone and soft tissue geometries to study the biomechanics of wrist axial loading through tendon-driven simulations and grasping biomechanics using metacarpal loads. Validation is carried out by assessing the radial and ulnar axial loading distribution, radiocarpal articulation contact patterns, and other standard finite element metrics. The results show radial transmission of the load, consistent with results from wrist finite element models conducted in the last decade and other experimental studies. Our results confirm the model's efficacy in reproducing key known biomechanical aspects, laying the groundwork for future investigations into ongoing wrist biomechanics challenges and pathology mechanism studies.
An Adjustable Elastic Support Structure for Vibration Suppression of Rotating Machinery
Authors: Jin Fuyi , Zang Chaoping , Yue Lin 
Published: January 2025

Abstract
The dynamic characteristic of a rotor-support system plays a crucial role in the operational efficiency and longevity of rotating machinery such as gas turbines. Traditional support structures with the fixed-parameter elastic stiffness have difficulties in adapting to the diverse and complex working conditions of flexible rotating machinery, particularly those that pass through multiple critical speeds. To address rotor resonance and enhance structural reliability, an innovative adjustable elastic support (AES) structure designed to improve the mechanical adaptability of rotors across various speed ranges is investigated in this paper. The AES structure is built upon the conventional squirrel cage elastic support by incorporating a stepper motor. By adjusting the rotation angle of the motor, the effective length of the cage bar can be modified, allowing real-time changes in the support state during rotor operation. This mechanism enables seamless transitions among multiple states: a constant stiffness elastic support, a separate state, or a variable stiffness dynamic absorber that modulates frequencies in real-time by altering the cage bar length. This dynamic capability effectively suppresses resonance peaks caused by mass imbalances. The design and implementation of the AES structure, along with a speed feedback-based adjustment scheme to accommodate the rotor's dynamic characteristics, are discussed. Experimental validation of a multisupport flexible rotor system demonstrates that a maximum vibration can be reduced up to 75%, highlighting its promising potential for engineering applications.
Determination and Sensitivity Analysis of Target Flaw Sizes for Performance Demonstration of Cast Austenitic Stainless Steel Pipe by Probabilistic Fracture Mechanics
Authors: Takagoshi Daiki , Momotani Yuji , Nomura Yuichiro , Nishi Wataru , Hirota Takatoshi , Hojo Kiminobu 
Published: January 2025

Abstract
The material of primary coolant pipe of nuclear power plants is cast austenitic stainless steel (CASS), which has a coarse crystal structure and its anisotropy causes low permeability of ultrasonic waves and low detectability. Also, the material strength and fracture toughness of CASS are affected by thermal aging depending on ferrite content, chemical compositions and casting process. The ASME Section XI Code Case N-838 provides the target flaw sizes for performance demonstration (PD) examination system of ultrasonic testing (UT) based on probabilistic fracture mechanics (PFM) analysis incorporated a thermal aging model. In this study, the target flaw sizes for Japanese pressurized water reactor (PWR) plants were investigated by using the PFM analysis code “PREFACE.” Thermal aging prediction models for tensile strength and fracture toughness of CASS were incorporated into the PREFACE Code depending on not only ferrite content and chemical compositions but also the casting process, centrifugal casting, or static casting. Those parameters were input as probabilistic variables, which were based on the material database from the Japanese PWR plants. The PFM analysis revealed that static CASS pipes have smaller target flaw sizes than centrifugal CASS pipes and the obtained target flaw sizes were very close to those in ASME Code Case N-838.
An MR-Safe Pneumatic Stepper Motor: Design, Control, and Characterization
Authors: Li Gang , Yarmolenko Pavel , Cleary Kevin , Monfaredi Reza 
Published: January 2025

Abstract
Magnetic resonance imaging (MRI) can provide high contrast soft tissue visualization without ionizing radiation, which makes it an attractive imaging modality for interventional procedures. However, the strong magnetic and radio frequency (RF) fields impose significant challenges to the development of robotic systems within the magnetic resonance environment. Consequently, designing MRI-compatible actuators is crucial for advancing MRI-guided robotic systems. This paper reports the design, control, and characterization of a gear-based pneumatic stepper motor. The motor is designed with three actuating piston units and a geared rotor. The three actuating pistons are driven sequentially by compressed air to push the geared rotor and to generate bidirectional stepwise motion. Experiments were conducted to characterize the motor in terms of torque, speed, control, and MRI compatibility. The results demonstrate that the motor can deliver a maximum continuous torque of 1300 mNm at 80 pounds per square inch (PSI) (0.55 MPa) with 9 m air hoses. The closed-loop control evaluation demonstrates the steady-state error of position tracking was 0.81±0.52 deg. The MRI compatibility study indicated negligible image quality degradation. Therefore, the proposed pneumatic stepper motor can effectively serve as an actuator for MRI-guided robotic applications.
In-Situ Monitoring and Its Correlation to Mechanical Properties in Additively Manufactured 718 Ni Alloy
Authors: Stegman Benjamin , Raj Anant , Owen Charlie , Abdel-Khalik Hany , Sutherland John W. , Zhang Xinghang 
Published: January 2025

Abstract
Additive manufacturing has found its niche in critical component applications in the aerospace and nuclear industries. For these industries, there is an increasing need for a cost-effective quality assurance method. For laser powder bed fusion (LPBF), in-situ sensing has shown promise with various forms of defect detection but has only shown limited success in microstructural characterization. Utilizing concurrent in-situ data collection from a complementary metal oxide semiconductor (CMOS) and photodiode sensor, this work establishes a relationship between in-situ sensor monitoring, crystallographic texture, and mechanical properties through machine learning (ML). By combining the in-situ monitoring data, ML, and a dataset of over 100 samples, including X-ray diffraction and tensile testing results, the model successfully predicts textures of 718 Ni alloy with up to 90% accuracy and identifies the correlation between texture and mechanical properties. Furthermore, three key characteristic samples were investigated via electron backscatter diffraction to delve deeper into mechanical property differences brought by microstructural features. While the model requires future datasets to improve reliability, it opens a pathway to use in-situ processing data to predict the microstructure and mechanical properties of LPBF materials.
Methylation of foreign DNA overcomes the restriction barrier of
Flavobacterium psychrophilum
and allows efficient genetic manipulation
Authors: Sloboda Seada , Ge Xinwei , Jiang Daqing , Su Lin , Wiens Gregory D. , Beveridge Carly A. , Duchaud Eric , McBride Mark J. , Rochat Tatiana , Zhu Yongtao 
Published: January 2025

ABSTRACT

Flavobacterium psychrophilum
causes bacterial cold-water disease (BCWD) in salmonids and other fish, resulting in substantial economic losses in aquaculture worldwide. The mechanisms
F. psychrophilum
uses to cause disease are poorly understood. Despite considerable effort, most strains of
F. psychrophilum
have resisted attempts at genetic manipulation.
F. psychrophilum
restriction-modification (R-M) systems may contribute to this resistance. Restriction endonucleases (REases) rapidly degrade nonself DNA if it is not properly methylated by their cognate DNA methyltransferases (MTases). We used comparative genomics to show that R-M systems are abundant in
F. psychrophilum
and that strain-specific variations partially align with phylogeny. We identified two critical type II R-M systems, HpaII-like (FpsJI) and ScrFI-like (FpsJVI), that are conserved in most of the sequenced strains. Protection of foreign DNA against HpaII and ScrFI was achieved by expression of the MTases M.FpsJI and M.FpsJVI in
Escherichia coli
. Furthermore, deleting the two REase genes from
F. psychrophilum
resulted in efficient conjugative DNA transfer from
E. coli
into the otherwise genetically intractable
F. psychrophilum
strain CSF259-93. This allowed us to construct a CSF259-93 mutant lacking
gldN
, a core component of the type IX protein secretion system. The pre-methylation system developed in this study functions in all tested
F. psychrophilum
strains harboring HpaII-like and ScrFI-like REases. These newly developed genetic tools may allow the identification of key virulence factors and facilitate the development of live attenuated vaccines or other measures to control BCWD.

IMPORTANCE

Bacterial cold-water disease (BCWD) caused by
Flavobacterium psychrophilum
is a problem for salmonid aquaculture worldwide, and current control measures are inadequate. An obstacle in understanding and controlling BCWD is that most
F. psychrophilum
strains resist DNA transfer, thus limiting genetic studies of their virulence mechanisms.
F. psychrophilum
restriction enzymes that destroy foreign DNA were suspected to contribute to this problem. Here, we used
F. psychrophilum
DNA methyltransferases to modify and protect foreign DNA from digestion. This allowed efficient conjugative DNA transfer into nine diverse
F. psychrophilum
strains that had previously resisted DNA transfer. Using this approach, we constructed a gene deletion mutant that failed to cause disease in rainbow trout. Further genetic studies could help determine the molecular factors involved in pathogenesis and may aid development of innovative BCWD control strategies.
Host cell lectins ASGR1 and DC-SIGN jointly with TMEM106B confer ACE2 independence and imdevimab resistance to SARS-CoV-2 pseudovirus with spike mutation E484D
Authors: Arora Prerna , Zhang Lu , Nehlmeier Inga , Kempf Amy , Graichen Luise , Kreitz Eike , Sidarovich Anzhalika , Rocha Cheila , Gärtner Sabine , Winkler Michael , Schulz Sebastian , Jäck Hans-Martin , Hoffmann Markus , Pöhlmann Stefan 
Published: January 2025

ABSTRACT

The naturally occurring mutation E484D in the spike (S) protein of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) can render viral entry ACE2 independent and imdevimab resistant. Here, we investigated whether the cellular proteins ASGR1, DC-SIGN, and TMEM106B, which interact with the viral S protein, can contribute to these processes. Employing S protein-pseudotyped particles, we found that expression of ASGR1 or DC-SIGN jointly with TMEM106B allowed for robust entry of mutant E484D into otherwise non-susceptible cells, while this effect was not observed upon separate expression of the single proteins and upon infection with SARS-CoV-2 wild type (WT). Furthermore, expression of ASGR1 or DC-SIGN conferred ACE2 independence and imdevimab resistance to entry of mutant E484D but not WT, and entry under those conditions was dependent on endogenous TMEM106B. These results suggest that engagement of certain cellular lectins can direct SARS-CoV-2 mutant E484D to an ACE2-independent, TMEM106B-dependent entry pathway that is not inhibited by imdevimab.

IMPORTANCE
The interaction of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike protein with the ACE2 receptor determines the viral cell tropism and is the key target of the neutralizing antibody response. Here, we show that SARS-CoV-2 with a single, naturally occurring mutation in the spike protein, E484D, can use the cellular lectins ASGR1 and DC-SIGN in conjunction with TMEM106B for ACE2-independent entry and evasion of therapeutic antibodies. These results suggest that engagement of cellular lectins might modulate target cell choice of SARS-CoV-2 and might allow evasion of certain neutralizing antibodies.
The coronavirus nsp14 exoribonuclease interface with the cofactor nsp10 is essential for efficient virus replication and enzymatic activity
Authors: Grimes Samantha L. , Heaton Brook E. , Anderson Mackenzie L. , Burke Katie , Stevens Laura , Lu Xiaotao , Heaton Nicholas S. , Denison Mark R. , Anderson-Daniels Jordan 
Published: January 2025

ABSTRACT

Coronaviruses (CoVs) encode non-structural proteins (nsp’s) 1–16, which assemble to form replication-transcription complexes that function in viral RNA synthesis. All CoVs encode a proofreading 3′−5′ exoribonuclease in non-structural protein 14 (nsp14-ExoN) that mediates proofreading and high-fidelity replication and is critical for other roles in replication and pathogenesis. The
in vitro
enzymatic activity of nsp14-ExoN is enhanced in the presence of the cofactor nsp10. We introduced alanine substitutions in nsp14 of murine hepatitis virus (MHV) at the nsp14-nsp10 interface and recovered mutant viruses with a range of impairments in replication and
in vitro
biochemical exonuclease activity. Two of these substitutions, nsp14 K7A and D8A, had impairments intermediate between wild type-MHV nsp14 and the known ExoN(-) D89A/E91A nsp14 catalytic inactivation mutant. All introduced nsp14-nsp10 interface alanine substitutions impaired
in vitro
exonuclease activity. Passage of the K7A and D8A mutant viruses selected second-site non-synonymous mutations in nsp14 associated with improved mutant virus replication and exonuclease activity. These results confirm the essential role of the nsp14-nsp10 interaction for efficient enzymatic activity and virus replication, identify proximal and long-distance determinants of nsp14-nsp10 interaction, and support targeting the nsp14-nsp10 interface for viral inhibition and attenuation.

IMPORTANCE

Coronavirus replication requires assembly of a replication transcription complex composed of nsp’s, including polymerase, helicase, exonuclease, capping enzymes, and non-enzymatic cofactors. The coronavirus nsp14 exoribonuclease mediates several functions in the viral life cycle including genomic and subgenomic RNA synthesis, RNA recombination, RNA proofreading and high-fidelity replication, and native resistance to many nucleoside analogs. The nsp-14 exonuclease activity
in vitro
requires the non-enzymatic cofactor nsp10, but the determinants and importance of the nsp14-nsp10 interactions during viral replication have not been defined. Here we show that for the coronavirus murine hepatitis virus, nsp14 residues at the nsp14-nsp10 interface are essential for efficient viral replication and
in vitro
exonuclease activity. These results shed new light on the requirements for protein interactions within the coronavirus replication transcription complex, and they may reveal novel non-active-site targets for virus inhibition and attenuation.