bluuebunny/crossref_metadata_2025_split huggingface dataset:
Influence of distance from source population and seasonality in eDNA detection of white‐clawed crayfish, through qPCR and ddPCR assays
Authors: Baudry Thomas , Laffitte Maud , Noizat Charlotte , Delaunay Carine , Ricou Grégoire , Vasselon Valentin , Grandjean Frédéric 
Published: June 2023

AbstractThe white‐clawed crayfish (Austropotamobius pallipes) is an emblematic taxon of European rivers, found mainly in oxygenated streams, known to be an excellent indicator of river quality. Since several decades, the population of A. pallipes declined in relation to anthropogenic pressure, habitat loss, and competition with pests (invasive crayfish, crayfish plague). This endangered species is now submitted to conservation strategies by freshwater managers in order to survey and protect the remaining populations. In France, traditional surveys in freshwater environments were performed by electric fishing, kick‐net fishing, or trapping, particularly disruptive for the environment and very time‐consuming. However, with the rise of molecular genetic technology, new methods based on the detection of environmental DNA (eDNA) have emerged. We present here the results of an optimized study for the detection of the endangered crayfish Austropotamobius pallipes in France, considering certain environmental co‐factors and comparing two PCR methods (qPCR and ddPCR). After improving laboratory procedures, we were able to detect the presence of the crayfish up to 2 km downstream from a known point of presence and unfortunately highlight the disappearance of a historical population, after sampling two consecutive years. Such a level of precision is interesting because it makes it possible to precise the presence of specimens in a relatively restricted area and to orient traditional prospecting, necessary for certain additional studies. During our study, we observed better probabilities of detection during the summer period, but in a growing context of climate change, we advise to adapt the sampling year by year. That said, this methodology is a very useful tool for the detection of rare and/or endemic species and we did not observe any difference between the two PCR methods used.
Functionalization of Pyridine and Quinoline Scaffolds by Using Organometallic Li‐, Mg‐ and Zn‐Reagents
Authors: Dhayalan Vasudevan , Sharma Deepika , Chatterjee Rana , Dandela Rambabu 
Published: June 2023

AbstractThis Review discusses the various methods for functionalizing pyridine and quinoline scaffolds, including direct selective metalation (DoM), halogen/metal exchange reactions, Li, Mg, and Zn insertion, and trans‐metalation approaches, which are then followed by cross‐coupling reactions of the Kumada or Negishi types. Selective deprotonation of aryl or pyridyl/quinolinyl derivatives can be performed using n‐BuLi, LDA, and TMP‐based different organolithium, ‐magnesium, and ‐zinc reagents. The functionalized pyridine and quinoline‐based heterocyclic compounds were prepared by selectively deprotonating with presenting a directing functional group substituted pyridine/quinoline analogues in the presence of TMP‐bases (TMP−Li, Mg, Zn reagents). Different aryl or alkyl Li, Mg, and Zn reagents with electron‐donating and electron‐withdrawing substituents undergo transition metal‐catalyzed C(sp2)−C(sp2) and C(sp2)−C(sp3) types of cross‐coupling reactions with pyridine/quinoline halides under mild conditions with the sustainable process producing complex N‐heterocycles. Using moderate and sustainable reaction conditions, sensitive functional group tolerance, and inexpensive and low toxic chemicals, highly functionalization of pyridine and quinoline‐based bioactive therapeutic scaffolds and natural products was accomplished. Therefore, in this article, we provide a succinct overview of the numerous synthetic strategies and practical methods used by various authors between 2010 and 2023 to functionalize pyridine and quinoline analogues using diverse Li, Mg, and Zn organometallic reagents.
Model building of urban energy system and effect analysis of green low‐carbon transition under the background of carbon peaking and carbon neutrality
Authors: Zhao Hongyuan , Liu Pingkuo , Hou Jianchao 
Published: June 2023

AbstractUnder the carbon peaking and carbon neutrality goals background in China, cities are the main force of energy consumption and carbon emission, and their low‐carbon transition development has become the primary task of urban planning. The transitional development of cities not only puts forward higher requirements for the output proportion of new energy, but also puts forward higher requirements for the flexibility of energy system. This paper proposes an optimization model of urban energy system considering the uncertainty output of new energy and new energy vehicles. The uncertainty and operational flexibility of electric vehicles are taken into account at the planning level by using stochastic optimization method. The model considers the expansion and retirement of new energy units and various conversion devices in urban energy system, and ensures the achievement of carbon peaking and carbon reduction goals by imposing constraints on electric vehicles. The case results show that this model can effectively improve the economy and new energy consumption rate of urban energy system, and can meet the carbon reduction demand.
Seizure features and outcomes in 50 children with GATOR1 variants: A retrospective study, more favorable for epilepsy surgery
Authors: Wang Hao , Liu Wenwei , Zhang Yuehua , Liu Qingzhu , Cai Lixin , Jiang Yuwu 
Published: June 2023

AbstractObjectivesTo summarize the clinical features of epilepsy related to DEPDC5, NPRL2, and NPRL3 genes encoding the GATOR1 complex in children and to evaluate the factors affecting the prognosis of these epilepsies.MethodsIn this retrospective study, we reviewed the clinical and genetic characteristics of children with epilepsy related to GATOR1 variants who were admitted to the Peking University First Hospital between January 2016 and December 2021. Potential prognostic factors were assessed by comparing children with and without ongoing seizures.ResultsFifty probands, including 31 boys and 19 girls were recruited. The median age at onset of epilepsy was 4 months, and 64% of patients had early‐onset epilepsy (≤1 year). The most frequent epileptic seizure type was focal seizure (86%). Among the 50 patients, only six were with de novo variants. According to the novel classification framework for GATOR1 variants, 36 patients were with pathogenic variants and 14 with likely pathogenic variants. DEPDC5 variants were found in 37 patients, NPRL3 in 9, and NPRL2 in 4. The phenotype was similar among the probands, with variants in DEPDC5, NRPL2, or NPRL3. 76% (38/50) of epilepsy related to GATOR1 variants was neuroimaging positive, including brain MRI positive in 31 patients, and MRI combined F‐18‐fluorodeoxyglucose positron emission tomography positive in the other seven patients. Twenty‐seven patients underwent epilepsy surgery. In total, after initial antiseizure medications alone, 92% (46/50) of patients were drug‐resistant epilepsies, only 8% (4/50) of the probands became seizure‐free but seizure‐free (≥6 m) occurred in 92.6% (25/27) of patients with drug‐resistant epilepsy after epilepsy surgery at the last follow‐up. Patients undergoing epilepsy surgery had better epilepsy prognosis.SignificanceEpilepsy related to GATOR1 variants had high possibility to be drug‐resistant epilepsy and to have positive neuroimaging finding. Epilepsy surgery is the only favorable factor for better seizure prognosis in this kind epilepsy.
Geodynamic control on Pleistocene coral reef development: Insights from northwest Sumba Island (Indonesia)
Authors: De Gelder Gino , Solihuddin Tubagus , Utami Dwi Amanda , Hendrizan Marfasran , Rachmayani Rima , Chauveau Denovan , Authemayou Christine , Husson Laurent , Cahyarini Sri Yudawati 
Published: June 2023

AbstractThe fossil record of Quaternary reef systems, as expressed in uplifted regions by sequences of stacked terraces, has been extensively used either to understand their morphodynamics or to unravel sea level variations. Yet, because these two aspects are intimately linked, Quaternary reef analysis is often underdetermined because the analysis often focuses on single sequences, along one‐dimensional profiles. Here, we take advantage of the lateral variations of coral reef sequences by documenting the morphological variations of the reef sequence on Sumba Island. Near Tambolaka, northwest Sumba, we analysed a reef transect, topography, and associated sedimentological record to obtain a precise coral reef stratigraphy and geomorphic patterns that can be compared with the well‐documented eastern counterpart. In Tambolaka, the reef sequence displays four lower layers of bedded chalky limestone units with a weakly cemented sandy matrix, which we attribute to the Middle Miocene to Pliocene Wakabukak formation based on calcareous nannofossils and planktonic foraminifers. The uppermost layer is a calcretized reefal limestone unit with a well‐lithified sandy matrix, which we attribute to the Plio–Pleistocene reef sequence of the Kalianga formation. Seven marine terraces imprint the regional morphology, four of which we correlate with Marine Isotope Stage (MIS) 5e, MIS 7e, MIS 9e, and MIS 11c terraces of Cape Laundi, northeast Sumba. When scrutinized at the light of numerical models of reef development, these results indicate that the morphodynamics of reefal sequences is strongly impacted by the tectonic evolution. The geodynamic context sets both the extrinsic conditions of reef development, such as the morphology of the basement and hydrodynamics, and the intrinsic properties, in particular reef growth rate. While the morphodynamic evolution of the sequence is at first‐order representative of the interplay between uplift rates and sea level oscillations, the detailed assemblage of the reef units drastically varies along the coastline.
A 20‐year life history of a pool‐riffle couplet from formation to demise
Authors: Thompson Douglas M. , Hall Sarah J. , Spitzer Ava B. 
Published: June 2023

AbstractPool‐riffle couplet maintenance results from an unknown balance between hydraulic influences and sedimentological processes. Periodic monitoring of a study reach on the Blackledge River in Connecticut from 1999 to 2022 provides a unique data set that includes the full evolutionary history of a pool‐riffle couplet formed by a large‐wood (LW) jam. Displacement of the key LW forcing element during a 2021 event provides an opportunity to evaluate the relative importance of hydraulic versus sedimentological pool‐riffle maintenance mechanisms. A comparison of channel‐bed topographic and sedimentological data shows that hydraulic processes associated with the LW constriction dominated pool maintenance along this 90‐m reach. The existing pool lost more than half its residual‐pool depth and width and nearly 80% of the residual‐pool volume in response to changes in hydraulic conditions. The reduction in pool‐riffle amplitude was associated with a decrease in sediment sorting and homogenization of channel‐bed embeddedness. The results show that critical processes maintaining the forced pool‐riffle couplet for more than a decade ceased to operate when the key LW piece was removed by high flows.
Different driving mechanisms of spatial heterogeneity at the community and landscape levels in the wetland ecosystem dominated by hydro‐ecological processes
Authors: Zhao Dong‐liang , Guo Chao‐fan , Wu Dong‐li , Guo Xiao‐yu 
Published: June 2023

AbstractThe analysis of wetland patterns and their driving mechanisms is the research focus of discussion in wetland ecology. In this study, we tried to analyse the spatial differentiation patterns of community and landscape levels dominated by hydro‐ecological processes. The spatial differentiation patterns of landscape patterns and their driving mechanisms were explored in focus. This study was based on 30‐year land cover data of Baiyangdian Wetland Nature Reserve in North China Plain, China, constructing an ecological response relationship matrix between inundation frequency and vegetation cover frequency for the spatial divide at the community and landscape level. By constructing a landscape index set and analysing the index set using clustering, non‐metric multidimensional scale analysis, discriminant and redundancy analysis, we finally obtained the differentiation characteristics of wetland landscape patterns and their driving mechanisms. The spatial differentiation of community levels along the water level gradient showed a banded distribution pattern of submerged‐floating‐emerge to meadow shrubs, but the stability of the hydrological regime dominated the spatial differentiation of landscape levels. Wetland landscapes along the stability gradient of the hydrological regime were divided into stable and fluctuating zones. The stable zone had the landscape pattern characteristics of low fragmentation, simple and regular shape and high numbers of different patch types; the landscape pattern of the fluctuating zone was characterized by a high fragmentation and complex shape, with a small number of different patch types and a non‐uniform distribution. The analysis of the driving mechanism showed that the stability of the hydrological regime was the only reason for the formation of the landscape pattern of the stable zone. The combined effect of human‐dominated and natural‐supplemented effects jointly drove the formation of the landscape pattern of the fluctuating zone. The influence of human on the landscape pattern of the fluctuating zone showed a trend of spatial expansion from high areas to shallow water areas. The combination of traditional landscape indices and aquatic ecological processes characterized the spatial differentiation of wetland landscape patterns, and also verified the feasibility of this method. This study was a successful example of conducting ecological process‐oriented landscape level spatial differentiation analysis. The results of the study are intended to provide recommendations for the rational and effective use and precise conservation of wetland plant and animal resources and the restoration of wetland ecosystems.
Toxicological effects assessment for wildlife in the 21st century: Review of current methods and recommendations for a path forward
Authors: Bean Thomas G. , Beasley Val R. , Berny Philippe , Eisenreich Karen M. , Elliott John E. , Eng Margaret L. , Fuchsman Phyllis C. , Johnson Mark S. , King Mason D. , Mateo Rafael , Meyer Carolyn B. , Salice Christopher J. , Rattner Barnett A. 
Published: June 2023

Abstract
Model species (e.g., granivorous gamebirds, waterfowl, passerines, domesticated rodents) have been used for decades in guideline laboratory tests to generate survival, growth, and reproductive data for prospective ecological risk assessments (ERAs) for birds and mammals, while officially adopted risk assessment schemes for amphibians and reptiles do not exist. There are recognized shortcomings of current in vivo methods as well as uncertainty around the extent to which species with different life histories (e.g., terrestrial amphibians, reptiles, bats) than these commonly used models are protected by existing ERA frameworks. Approaches other than validating additional animal models for testing are being developed, but the incorporation of such new approach methodologies (NAMs) into risk assessment frameworks will require robust validations against in vivo responses. This takes time, and the ability to extrapolate findings from nonanimal studies to organism- and population-level effects in terrestrial wildlife remains weak. Failure to adequately anticipate and predict hazards could have economic and potentially even legal consequences for regulators and product registrants. In order to be able to use fewer animals or replace them altogether in the long term, vertebrate use and whole organism data will be needed to provide data for NAM validation in the short term. Therefore, it is worth investing resources for potential updates to existing standard test guidelines used in the laboratory as well as addressing the need for clear guidance on the conduct of field studies. Herein, we review the potential for improving standard in vivo test methods and for advancing the use of field studies in wildlife risk assessment, as these tools will be needed in the foreseeable future. Integr Environ Assess Manag 2024;20:699–724. © 2023 His Majesty the King in Right of Canada and The Authors. Integrated Environmental Assessment and Management published by Wiley Periodicals LLC on behalf of Society of Environmental Toxicology & Chemistry (SETAC). Reproduced with the permission of the Minister of Environment and Climate Change Canada. This article has been contributed to by U.S. Government employees and their work is in the public domain in the USA.
Development and internal validation of a multifactorial risk prediction model for gallbladder cancer in a high‐incidence country
Authors: Boekstegers Felix , Scherer Dominique , Barahona Ponce Carol , Marcelain Katherine , Gárate‐Calderón Valentina , Waldenberger Melanie , Morales Erik , Rojas Armando , Munoz César , Retamales Javier , de Toro Gonzalo , Barajas Olga , Rivera María Teresa , Cortés Analía , Loader Denisse , Saavedra Javiera , Gutiérrez Lorena , Ortega Alejandro , Bertrán Maria Enriqueta , Bartolotti Leonardo , Gabler Fernando , Campos Mónica , Alvarado Juan , Moisán Fabricio , Spencer Loreto , Nervi Bruno , Carvajal‐Hausdorf Daniel , Losada Héctor , Almau Mauricio , Fernández Plinio , Olloquequi Jordi , Fuentes‐Guajardo Macarena , Gonzalez‐Jose Rolando , Bortolini Maria Cátira , Acuña‐Alonzo Victor , Gallo Carla , Linares Andres Ruiz , Rothhammer Francisco , Lorenzo Bermejo Justo 
Published: June 2023

AbstractSince 2006, Chile has been implementing a gallbladder cancer (GBC) prevention program based on prophylactic cholecystectomy for gallstone patients aged 35 to 49 years. The effectiveness of this prevention program has not yet been comprehensively evaluated. We conducted a retrospective study of 473 Chilean GBC patients and 2137 population‐based controls to develop and internally validate three GBC risk prediction models. The Baseline Model accounted for gallstones while adjusting for sex and birth year. Enhanced Model I also included the non‐genetic risk factors: body mass index, educational level, Mapuche surnames, number of children and family history of GBC. Enhanced Model II further included Mapuche ancestry and the genotype for rs17209837. Multiple Cox regression was applied to assess the predictive performance, quantified by the area under the precision‐recall curve (AUC‐PRC) and the number of cholecystectomies needed (NCN) to prevent one case of GBC at age 70 years. The AUC‐PRC for the Baseline Model (0.44%, 95%CI 0.42‐0.46) increased by 0.22 (95%CI 0.15‐0.29) when non‐genetic factors were included, and by 0.25 (95%CI 0.20‐0.30) when incorporating non‐genetic and genetic factors. The overall NCN for Chileans with gallstones (115, 95%CI 104‐131) decreased to 92 (95%CI 60‐128) for Chileans with a higher risk than the median according to Enhanced Model I, and to 80 (95%CI 59‐110) according to Enhanced Model II. In conclusion, age, sex and gallstones are strong risk factors for GBC, but consideration of other non‐genetic factors and individual genotype data improves risk prediction and may optimize allocation of financial resources and surgical capacity.
Il‐6 and UGT1A1 variations may related to furosemide resistance in heart failure patients
Authors: Koprululu Kucuk G. , Guney A. I. , Sunbul M. , Guctekin T. , Koç G. , Kirac D. 
Published: June 2023

AbstractFurosemide is a diuretic and is used for the treatment of patients with heart failure (HF). It has been found that in some HF patients, the drug does not treat patients efficiently. This condition is named as furosemide resistance. In this study, it is aimed to investigate the relationship between UDP‐glucuronosyltransferase 1 (UGT1A1) and interleukine‐6 (IL‐6) variations with furosemide resistance in HF patients. Sixty HF patients using furosemide (patient group) and 30 healthy individuals (control group) were enrolled in this study. Patients were divided into two subgroups as non‐responders (furosemide resistant) group (n = 30) and the responders (non‐resistant) group (n = 30) according to the presence of furosemide resistance (n = 30). Variations in the first exon of UGT1A1 and rs1800795 and rs1800796 variations in IL‐6 were analyzed by direct sequencing and real‐time polymerase chain reaction (RT‐PCR), respectively. The effects of newly detected mutations on 3‐D protein structure were analyzed by in silico analysis. At the end of the study, 11 variations were detected in UGT1A1, of which nine of them are novel and eight of them cause amino acid change. Also, rs1800795 and rs1800796 variations were detected in all the groups. When patient and control groups were compared with each other, rs1800796 mutation in IL‐6 was found statistically high in the patient group (p = 0.027). When the three groups were compared with each other, similarly, rs1800796 mutation in IL‐6 was found statistically high in the non‐responders group (p = 0.043). When allele distributions were compared between the patient and control groups, the C allele of rs1800795 mutation in IL‐6 was found statistically high in the patient group (p = 0.032). When allele distributions were compared between the three groups, 55T‐insertion in UGT1A1 was found statistically high in the non‐responders group (p = 0.017). According to in silico analysis results, two variations were found deleterious and six variations were detected as probably damaging to protein functions. Our study may contribute to the elucidation of pharmacogenetic features (drug response–gene relationship) and the development of individual‐specific treatment strategies in HF patients using furosemide.