bluuebunny/crossref_metadata_2025_split huggingface dataset:
Clonal architecture evolution in Myeloproliferative Neoplasms: from a driver mutation to a complex heterogeneous mutational and phenotypic landscape
Authors: Maslah Nabih , Benajiba Lina , Giraudier Stephane , Kiladjian Jean-Jacques , Cassinat Bruno 
Published: April 2023

AbstractMyeloproliferative neoplasms are characterized by the acquisition at the hematopoietic stem cell level of driver mutations targeting the JAK/STAT pathway. In addition, they also often exhibit additional mutations targeting various pathways such as intracellular signalling, epigenetics, mRNA splicing or transcription. The natural history of myeloproliferative neoplasms is usually marked by a chronic phase of variable duration depending on the disease subtype, which can be followed by an accelerated phase or transformation towards more aggressive diseases such as myelofibrosis or acute leukemia. Besides, recent studies revealed important new information about the rates and mechanisms of sequential acquisition and selection of mutations in hematopoietic cells of myeloproliferative neoplasms. Better understanding of these events has been made possible in large part with the help of novel techniques that are now available to precisely decipher at the single cell level both the clonal architecture and the mutation-induced cell modifications. In this review, we will summarize the most recent knowledge about the mechanisms leading to clonal selection, how clonal architecture complexity can explain disease heterogeneity, and the impact of clonal evolution on clinical evolution.
Astrocytes express aberrant immunoglobulins as putative gatekeeper of astrocytes to neuronal progenitor conversion
Authors: Capuz Alice , Osien Sylvain , Karnoub Mélodie Anne , Aboulouard Soulaimane , Laurent Estelle , Coyaud Etienne , Raffo-Romero Antonella , Duhamel Marie , Bonnefond Amélie , Derhourhi Mehdi , Trerotola Marco , El Yazidi-Belkoura Ikram , Devos David , Zilkova Monika , Kobeissy Firas , Vanden Abeele Fabien , Fournier Isabelle , Cizkova Dasa , Rodet Franck , Salzet Michel 
Published: April 2023

AbstractUsing multi-omics analyses including RNAseq, RT-PCR, RACE-PCR, and shotgun proteomic with enrichment strategies, we demonstrated that newborn rat astrocytes produce neural immunoglobulin constant and variable heavy chains as well as light chains. However, their edification is different from the ones found in B cells and they resemble aberrant immunoglobulins observed in several cancers. Moreover, the complete enzymatic V(D)J recombination complex has also been identified in astrocytes. In addition, the constant heavy chain is also present in adult rat astrocytes, whereas in primary astrocytes from human fetus we identified constant and variable kappa chains as well as the substitution lambda chains known to be involved in pre-B cells. To gather insights into the function of these neural IgGs, CRISPR-Cas9 of IgG2B constant heavy chain encoding gene (Igh6), IgG2B overexpression, proximal labeling of rat astrocytes IgG2B and targets identification through 2D gels were performed. In Igh6 KO astrocytes, overrepresentation of factors involved in hematopoietic cells, neural stem cells, and the regulation of neuritogenesis have been identified. Moreover, overexpression of IgG2B in astrocytes induces the CRTC1-CREB-BDNF signaling pathway known to be involved in gliogenesis, whereas Igh6 KO triggers the BMP/YAP1/TEAD3 pathway activated in astrocytes dedifferentiation into neural progenitors. Proximal labeling experiments revealed that IgG2B is N-glycosylated by the OST complex, addressed to vesicle membranes containing the ATPase complex, and behaves partially like CD98hc through its association with LAT1. These experiments also suggest that proximal IgG2B-LAT1 interaction occurs concomitantly with MACO-1 and C2CD2L, at the heart of a potentially novel cell signaling platform. Finally, we demonstrated that these chains are synthesized individually and associated to recognize specific targets. Indeed, intermediate filaments Eif4a2 and Pdia6 involved in astrocyte fate constitute targets for these neural IgGs. Taken together, we hypothese that neural aberrant IgG chains may act as gatekeepers of astrocytes' fate.
Excessive reactive oxygen species induce transcription-dependent replication stress
Authors: Andrs Martin , Stoy Henriette , Boleslavska Barbora , Chappidi Nagaraja , Kanagaraj Radhakrishnan , Nascakova Zuzana , Menon Shruti , Rao Satyajeet , Oravetzova Anna , Dobrovolna Jana , Surendranath Kalpana , Lopes Massimo , Janscak Pavel 
Published: April 2023

AbstractElevated levels of reactive oxygen species (ROS) reduce replication fork velocity by causing dissociation of the TIMELESS-TIPIN complex from the replisome. Here, we show that ROS generated by exposure of human cells to the ribonucleotide reductase inhibitor hydroxyurea (HU) promote replication fork reversal in a manner dependent on active transcription and formation of co-transcriptional RNA:DNA hybrids (R-loops). The frequency of R-loop-dependent fork stalling events is also increased after TIMELESS depletion or a partial inhibition of replicative DNA polymerases by aphidicolin, suggesting that this phenomenon is due to a global replication slowdown. In contrast, replication arrest caused by HU-induced depletion of deoxynucleotides does not induce fork reversal but, if allowed to persist, leads to extensive R-loop-independent DNA breakage during S-phase. Our work reveals a link between oxidative stress and transcription-replication interference that causes genomic alterations recurrently found in human cancer.
Exploiting volumetric wave correlation for enhanced depth imaging in scattering medium
Authors: Lee Ye-Ryoung , Kim Dong-Young , Jo Yonghyeon , Kim Moonseok , Choi Wonshik 
Published: April 2023

AbstractImaging an object embedded within a scattering medium requires the correction of complex sample-induced wave distortions. Existing approaches have been designed to resolve them by optimizing signal waves recorded in each 2D image. Here, we present a volumetric image reconstruction framework that merges two fundamental degrees of freedom, the wavelength and propagation angles of light waves, based on the object momentum conservation principle. On this basis, we propose methods for exploiting the correlation of signal waves from volumetric images to better cope with multiple scattering. By constructing experimental systems scanning both wavelength and illumination angle of the light source, we demonstrated a 32-fold increase in the use of signal waves compared with that of existing 2D-based approaches and achieved ultrahigh volumetric resolution (lateral resolution: 0.41 $$\mu m$$
μ
m
, axial resolution: 0.60 $$\mu m$$
μ
m
) even within complex scattering medium owing to the optimal coherent use of the broad spectral bandwidth (225 nm).
A pyrolysis-free Ni/Fe bimetallic electrocatalyst for overall water splitting
Authors: Zang Ying , Lu Di-Qiu , Wang Kun , Li Bo , Peng Peng , Lan Ya-Qian , Zang Shuang-Quan 
Published: April 2023

AbstractCatalysts capable of electrochemical overall water splitting in acidic, neutral, and alkaline solution are important materials. This work develops bifunctional catalysts with single atom active sites through a pyrolysis-free route. Starting with a conjugated framework containing Fe sites, the addition of Ni atoms is used to weaken the adsorption of electrochemically generated intermediates, thus leading to more optimized energy level sand enhanced catalytic performance. The pyrolysis-free synthesis also ensured the formation of well-defined active sites within the framework structure, providing ideal platforms to understand the catalytic processes. The as-prepared catalyst exhibits efficient catalytic capability for electrochemical water splitting in both acidic and alkaline electrolytes. At a current density of 10 mA cm−2, the overpotential for hydrogen evolution and oxygen evolution is 23/201 mV and 42/194 mV in 0.5 M H2SO4 and 1 M KOH, respectively. Our work not only develops a route towards efficient catalysts applicable across a wide range of pH values, it also provides a successful showcase of a model catalyst for in-depth mechanistic insight into electrochemical water splitting.
Shared molecular signatures between coronavirus infection and neurodegenerative diseases provide targets for broad-spectrum drug development
Authors: Deng Li , Ding Ling , Duan Xianlai , Peng Yousong 
Published: April 2023

AbstractGrowing evidences have suggested the association between coronavirus infection and neurodegenerative diseases. However, the molecular mechanism behind the association is complex and remains to be clarified. This study integrated human genes involved in infections of three coronaviruses including SARS-CoV-2, SARS-CoV and MERS-CoV from multi-omics data, and investigated the shared genes and molecular functions between coronavirus infection and two neurodegenerative diseases, namely Alzheimer’s Disease (AD) and Parkinson’s Disease (PD). Seven genes including HSP90AA1, ALDH2, CAV1, COMT, MTOR, IGF2R and HSPA1A, and several inflammation and stress response-related molecular functions such as MAPK signaling pathway, NF-kappa B signaling pathway, responses to oxidative or chemical stress were common to both coronavirus infection and neurodegenerative diseases. These genes were further found to interact with more than 20 other viruses. Finally, drugs targeting these genes were identified. The study would not only help clarify the molecular mechanism behind the association between coronavirus infection and neurodegenerative diseases, but also provide novel targets for the development of broad-spectrum drugs against both coronaviruses and neurodegenerative diseases.
Love and affectionate touch toward romantic partners all over the world
Authors: Sorokowska Agnieszka , Kowal Marta , Saluja Supreet , Aavik Toivo , Alm Charlotte , Anjum Afifa , Asao Kelly , Batres Carlota , Bensafia Aicha , Bizumic Boris , Boussena Mahmoud , Buss David M. , Butovskaya Marina , Can Seda , Carrier Antonin , Cetinkaya Hakan , Conroy-Beam Daniel , Cueto Rosa María , Czub Marcin , Dural Seda , Espinosa Agustín , Esteves Carla Sofia , Frackowiak Tomasz , Contreras-Garduño Jorge , Guemaz Farida , Hromatko Ivana , Iskra Herak , Jiang Feng , Kafetsios Konstantinos , Kavcic Tina , Kervyn Nicolas , Köbis Nils C. , Kostić Aleksandra , Láng András , Lindholm Torun , Manesi Zoi , Meskó Norbert , Misra Girishwar , Monaghan Conal , Natividade Jean Carlos , Nizharadze George , Oberzaucher Elisabeth , Oleszkiewicz Anna , Pagani Ariela Francesca , Pakalniskiene Vilmante , Parise Miriam , Pejičić Marija , Pisanski Annette , Pisanski Kasia , Popa Camelia , Prokop Pavol , Sargautyte Ruta , Sharad Shivantika , Simonetti Franco , Sorokowski Piotr , Stefanczyk Michal Mikolaj , Szagdaj Anna , Tadinac Meri , González Karina Ugalde , Uhryn Olga , Vauclair Christin-Melanie , Yoo Gyesook , Zupančič Maja , Croy Ilona 
Published: April 2023

AbstractTouch is the primary way people communicate intimacy in romantic relationships, and affectionate touch behaviors such as stroking, hugging and kissing are universally observed in partnerships all over the world. Here, we explored the association of love and affectionate touch behaviors in romantic partnerships in two studies comprising 7880 participants. In the first study, we used a cross-cultural survey conducted in 37 countries to test whether love was universally associated with affectionate touch behaviors. In the second study, using a more fine-tuned touch behavior scale, we tested whether the frequency of affectionate touch behaviors was related to love in romantic partnerships. As hypothesized, love was significantly and positively associated with affectionate touch behaviors in both studies and this result was replicated regardless of the inclusion of potentially relevant factors as controls. Altogether, our data strongly suggest that affectionate touch is a relatively stable characteristic of human romantic relationships that is robustly and reliably related to the degree of reported love between partners.
Varying genesis and landfall locations for North Atlantic tropical cyclones in a warmer climate
Authors: Weaver Mackenzie M. , Garner Andra J. 
Published: April 2023

AbstractTropical cyclones (TCs) are one of the most dangerous hazards that threaten U.S. coastlines. They can be particularly damaging when they occur in densely populated areas, such as the U.S. Northeast. Here, we investigate seasonal-scale variations in TC genesis and subsequent first landfall locations of > 37,000 synthetic TCs that impact the U.S. Northeast from the pre-industrial era (prior to 1800) through a very high emissions future (RCP8.5; 2080–2100). TC genesis in the Main Development Region decreases across all parts of the season from the pre-industrial to the future, with the greatest decreases in the proportion of genesis (up to 80.49%) occurring in the early and late seasons. Conversely, TC genesis in a region near the U.S. southeast coast increases across all parts of the season from the pre-industrial to the future, with the greatest increases in the proportion of genesis (up to 286.45%) also occurring in the early and late seasons. Impacts of changing TC genesis locations are highlighted by variations in where TCs make their first landfall over the same time periods, with an increase in landfalls along the mid-Atlantic seaboard from Delaware to North Carolina during all parts of the season from the pre-industrial to the future.
Water-constrained green development framework based on economically-allocable water resources
Authors: Bozorgzadeh Eisa , Mousavi S. Jamshid 
Published: April 2023

AbstractWater as a main driver for sustainable development (SD) should be optimally allocated to different users to support economic, social, and environmental functions. Traditional approaches are not able to account for all the mentioned functions simultaneously, therefore a change in the allocation approaches is necessary. This paper proposes a new framework for inter-sectoral water allocation called “water-constrained green development” (WCGD) to better meet the SD goals. The framework optimally allocates economically-allocable water (EAW), which is the total available water resources left after subtracting the amount of water required for drinking, sanitation, and environment (DSE), to different job classes. It was tested in Sistan Region- a low-developed area in southeast of Iran- which stands on agriculture. In the recent years, because of water crisis, intensity of dust problem, lack of sustained occupation, and immigration, the region’s rate of population growth has been negative. Also, due to decrease of Helmand River inflow, Hamoun wetland, being the major source of food and shelter for the Sistan’s residents, has been degraded. Therefore, Sistan Region needs to take a new development route. The shares of occupation and gross domestic product (GDP) in the agricultural sector of Sistan are respectively 29.1 and 14.8%, whereas they are on average 1 and 7% in Iran. Application of the proposed framework in Sistan Region under three scenarios of available EAW resources showed that the optimal reallocation of water among 15 job classes can improve job availability and GDP of the region currently suffering from poor economy and employment conditions. Based on the optimal job pattern obtained, the share of GDP of Sistan’s agricultural sector drops to 7.1% while the shares of industrial and service sectors increase respectively from 9.7 and 75.4% to 13.7 and 79.2%, which are close to those of the country averages. Also, under the WCGD-based optimal solution, 68, 14, and 18% of people will respectively be employed in service, industry, and agriculture sectors. Additionally, the total available jobs and GDP will increase by 8.9 and 51.1%, respectively, leading to improved socio-economic well-being of the region’s people and protection of its environmental resources.
High-precision spatial analysis of mouse courtship vocalization behavior reveals sex and strain differences
Authors: Oliveira-Stahl Gabriel , Farboud Soha , Sterling Max L. , Heckman Jesse J. , van Raalte Bram , Lenferink Dionne , van der Stam Amber , Smeets Cleo J. L. M. , Fisher Simon E. , Englitz Bernhard 
Published: April 2023

AbstractMice display a wide repertoire of vocalizations that varies with sex, strain, and context. Especially during social interaction, including sexually motivated dyadic interaction, mice emit sequences of ultrasonic vocalizations (USVs) of high complexity. As animals of both sexes vocalize, a reliable attribution of USVs to their emitter is essential. The state-of-the-art in sound localization for USVs in 2D allows spatial localization at a resolution of multiple centimeters. However, animals interact at closer ranges, e.g. snout-to-snout. Hence, improved algorithms are required to reliably assign USVs. We present a novel algorithm, SLIM (Sound Localization via Intersecting Manifolds), that achieves a 2–3-fold improvement in accuracy (13.1–14.3 mm) using only 4 microphones and extends to many microphones and localization in 3D. This accuracy allows reliable assignment of 84.3% of all USVs in our dataset. We apply SLIM to courtship interactions between adult C57Bl/6J wildtype mice and those carrying a heterozygous Foxp2 variant (R552H). The improved spatial accuracy reveals that vocalization behavior is dependent on the spatial relation between the interacting mice. Female mice vocalized more in close snout-to-snout interaction while male mice vocalized more when the male snout was in close proximity to the female's ano-genital region. Further, we find that the acoustic properties of the ultrasonic vocalizations (duration, Wiener Entropy, and sound level) are dependent on the spatial relation between the interacting mice as well as on the genotype. In conclusion, the improved attribution of vocalizations to their emitters provides a foundation for better understanding social vocal behaviors.
Capturing effects of blood flow on the transplanted decellularized nephron with intravital microscopy
Authors: Corridon Peter R. 
Published: April 2023

AbstractOrgan decellularization creates cell-free, collagen-based extracellular matrices that can be used as scaffolds for tissue engineering applications. This technique has recently gained much attention, yet adequate scaffold repopulation and implantation remain a challenge. Specifically, there still needs to be a greater understanding of scaffold responses post-transplantation and ways we can improve scaffold durability to withstand the in vivo environment. Recent studies have outlined vascular events that limit organ decellularization/recellularization scaffold viability for long-term transplantation. However, these insights have relied on in vitro/in vivo approaches that need enhanced spatial and temporal resolutions to investigate such issues at the microvascular level. This study uses intravital microscopy to gain instant feedback on their structure, function, and deformation dynamics. Thus, the objective of this study was to capture the effects of in vivo blood flow on the decellularized glomerulus, peritubular capillaries, and tubules after autologous and allogeneic orthotopic transplantation into rats. Large molecular weight dextran molecules labeled the vasculature. They revealed substantial degrees of translocation from glomerular and peritubular capillary tracks to the decellularized tubular epithelium and lumen as early as 12 h after transplantation, providing real-time evidence of the increases in microvascular permeability. Macromolecular extravasation persisted for a week, during which the decellularized microarchitecture was significantly and comparably compromised and thrombosed in both autologous and allogeneic approaches. These results indicate that in vivo multiphoton microscopy is a powerful approach for studying scaffold viability and identifying ways to promote scaffold longevity and vasculogenesis in bioartificial organs.
Plant functional trait responses to cope with drought in seven cool-season grasses
Authors: Taleb Mohammad Hadi , Majidi Mohammad Mahdi , Pirnajmedin Fatemeh , Maibody Sayed Ali Mohammad Mirmohammady 
Published: April 2023

AbstractIn semi-arid and arid regions, the selection of suitable grass species with high-yield production, tolerance to drought stress, and potential for recovery from drought is of special importance. Despite extensive research in cool-season grasses, inter-species differences in post-drought recovery, persistence, survival, and summer dormancy and their relationship with drought tolerance need more investigation. In the present study, 28 diverse genotypes belonged to seven cool-season grass species, includingFestuca arundinacea(tall fescue),Festuca pratensis(meadow fescue),Festuca ovina(sheep fescue),Festuca rubra(red fescue),Lolium perenne(perennial ryegrass),Lolium multiflorum(Italian ryegrass) andLolium × hybridumwere evaluated during 2016–2019 under three irrigation regimes (normal, mild, and intense drought stress). Then in the fourth year (on August 2019), irrigation was withheld at all previous irrigation regimes for two months during summer, and then species were re-irrigated to study the effect of prolonged drought conditions. A wide range of genetic diversity was detected in all the measured traits among and within species in response to different irrigation levels. Recurrent drought stress decreased forage productivity, post-drought recovery, and survival in all grass species. Among the studied species, tall fescue had higher forage production, drought tolerance, survival, recovery rate, and persistence. Sheep fescue had low forage production and recovery after drought. Drought tolerance (based on stress tolerance score, STS) was highly associated with forage yield and post-drought recovery and partially with summer dormancy under both mild and intense drought stress conditions. This indicated that selection based on higher STS would lead to choosing genotypes with better recovery after prolonged drought. Superior species and preferable genotypes for forage use from speciesFestuca arundinaceaand for turf application from speciesFestuca arundinacea,Lolium perenneandLolium × hybridumwere identified across different water environments for future programs.
Profiling Covid-19 patients with respect to level of severity: an integrated statistical approach
Authors: Cugnata Federica , Scarale Maria Giovanna , De Lorenzo Rebecca , Simonini Marco , Citterio Lorena , Querini Patrizia Rovere , Castagna Antonella , Di Serio Clelia , Lanzani Chiara 
Published: April 2023

AbstractA full understanding of the characteristics of Covid-19 patients with a better chance of experiencing poor vital outcomes is critical for implementing accurate and precise treatments. In this paper, two different advanced data-driven statistical approaches along with standard statistical methods have been implemented to identify groups of patients most at-risk for death or severity of respiratory distress. First, the tree-based analysis allowed to identify profiles of patients with different risk of in-hospital death (by Survival Tree-ST analysis) and severity of respiratory distress (by Classification and Regression Tree-CART analysis), and to unravel the role on risk stratification of highly dependent covariates (i.e., demographic characteristics, admission values and comorbidities). The ST analysis identified as the most at-risk group for in-hospital death the patients with age > 65 years, creatinine $$\ge$$
≥
1.2 mg/dL, CRP $$\ge$$
≥
25 mg/L and anti-hypertensive treatment. Based on the CART analysis, the subgroups most at-risk of severity of respiratory distress were defined by patients with creatinine level $$\ge$$
≥
1.2 mg/dL. Furthermore, to investigate the multivariate dependence structure among the demographic characteristics, the admission values, the comorbidities and the severity of respiratory distress, the Bayesian Network analysis was applied. This analysis confirmed the influence of creatinine and CRP on the severity of respiratory distress.