Discovery of natural CdnP inhibitors through structure-based virtual screening and molecular dynamics simulations by Xiaoxia Gu, Chaohu Xiong, Xinyu Wang, Hucheng Zhu, Weiguang Sun, Yan He, Jinwen Zhang

“…Molecular dynamics simulations elucidated a dual inhibitory mechanism wherein these compounds competitively occupy the product (AMP)-binding site while simultaneously constraining conformational plasticity of the substrate-binding domain. Evolutionary analysis demonstrated that these inhibitors exhibit broad-spectrum activity against bacterial CdnP orthologs while showing minimal inhibition of host-derived 2′,3′-cGAMP-specific phosphodiesterases, suggesting favorable selectivity. …”
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Predictive Value of Flow Cytometry Quantification of BAL Lymphocytes and Neutrophils in ILD by Erika M. Novoa-Bolivar, José A. Ros, Sonia Pérez-Fernández, José A. Campillo, Ruth López-Hernández, Rosana González-López, Almudena Otálora-Alcaraz, Cristina Ortuño-Hernández, Lourdes Gimeno, Inmaculada Ruiz-Lorente, Diana Ceballos-Francisco, Manuel Muro, Elena Solana, Pablo Martinez-Camblor, Alfredo Minguela

“…Three risk stratification groups (Risk-LN) were established: FAVORABLE (lymphocytes > 7% and neutrophils < 5%), INTERMEDIATE (rest of patients), and UNFAVORABLE (lymphocytes < 7% and neutrophils > 5%), showing 75th percentile overall survival (OS) of 10.0 ± 1.4, 5.8 ± 0.6, and 3.0 ± 0.3 years (<i>p</i> < 0.001), respectively. …”
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Nrf1 acts as a highly-conserved determinon for maintaining robust redox homeostasis in the eco-evo-devo process of life histories by Yiguo Zhang, Xi Chen, Meng Wang, Yuping Zhu, Wei Shi, Chao Li, Zhengwen Zhang, Hiroaki Taniguchi, Ping Ao

“…This is attributable to the facts that Nrf2 has exerted certain ‘double-edged sword’ effects on life process, whereas Nrf1 executes its essential physiobiological functions, along with unique pathophysiological phenotypes, by integrating its ‘three-in-one’ roles elicited as a specific triplet of direct sensor, transducer and effector within multi-hierarchical stress responsive signaling to redox metabolism and target gene reprogramming. …”
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Comparative genomics and virulence potential of Campylobacter coli strains isolated from different sources over 25 years in Brazil by Carolina Nogueira Gomes, Andrei Giacchetto Felice, Giovana do Nascimento Pereira, Victor Augusto Sallum Ceballos, Siomar de Castro Soares, Ludmilla Tonani, Patrícia Helena Grizante Barião, Márcia Regina von Zeska Kress, Sheila da Silva Duque, Maria Balkey, Marc William Allard, Juliana Pfrimer Falcão

“…Phylogenetic analyses demonstrated the evolutionary relationships among the studied strains, highlighting the genetic diversity among them. …”
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Spatiotemporal variations in water quality parameters and assessment of the current status and challenges of eutrophication in Lake Dian by Huayu Li, Hucai Zhang, Lizeng Duan, Qi Liu, Donglin Li, Jiaping Huang, Jiawen Fu, Lihua Zi, Tianbao Xu

“…Understanding the spatiotemporal distribution and evolutionary patterns of lake water quality parameters is essential for formulating precise ecological management strategies. …”
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Impact of nonsynonymous single nucleotide polymorphisms in PROCR gene on protein stability and thrombotic risk: a molecular dynamic approach by Hytham Ahmed Abuagla, Khalid Mohamed Adam, Mohamed E. Elangeeb, Elsadig Mohamed Ahmed, Elshazali W. Ali, Ali M. Edris, Abubakr Ali Elamin MohamedAhmed, Elmoiz Idris Eltieb, Tarig Babikir Algak Khalid, Bahaeldin K. Elamin, Hiba Mahgoub Ali Osman, Ebtehal Salih Idris

“…Finally, 100-nanosecond molecular dynamics (MD) simulations were conducted using GROningen MAchine for Chemical Simulations (GROMACS) to compare structural deviations, flexibility, and solvent interactions between wild-type EPCR and key mutant proteins.ResultsOur integrated analysis identified three high-risk nsSNPs—T174I, N136I, and L168P—that detrimentally affect EPCR function. …”
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Characterization of a novel covS SNP identified in Australian group A Streptococcus isolates derived from the M1UK lineage by Johanna Richter, Amanda J. Cork, Yvette Ong, Nadia Keller, Andrew J. Hayes, Mark A. Schembri, Amy V. Jennison, Mark R. Davies, Kate Schroder, Mark J. Walker, Stephan Brouwer

“…In this study, we identified and characterized a novel covS single nucleotide polymorphism detected in three separate invasive M1UK isolates. The resulting CovSAla318Val mutation caused a significant upregulation of SLO resulting in increased inflammasome activation in human THP-1 macrophages, indicating an enhanced inflammatory potential. …”
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The light-harvesting chlorophyll a/b-binding proteins of photosystem II family members are responsible for temperature sensitivity and leaf color phenotype in albino tea plant by Jing-Jing Ye, Xin-Yi Lin, Zi-Xian Yang, Ying-Qi Wang, Yue-Rong Liang, Kai-Rong Wang, Jian-Liang Lu, Peng Lu, Xin-Qiang Zheng

“…Results: All genes were categorized into seven groups, mapping onto 7 chromosomes, including three tandem and one segmental duplications. They all own a conserved chlorophyll A/B binding protein domain. …”
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Molecular characterization of HIV-1 near-full-length proviral quasispecies in monocytes from patients across different virological responses by Jian Li, Jian Li, Chuyu Zhang, Chuyu Zhang, Zhenyi Zou, Zhenyi Zou, Yawen Liang, Yawen Liang, Peng Ma, Yun Lan, Yun Lan, Quanmin Li, Qian Kong, Qian Kong, Ruiying He, Ruiying He, Linghua Li, Weilie Chen, Weilie Chen

“…Notably, proviral quasispecies in the LLV group exhibited higher genetic diversity, suggesting unique evolutionary dynamics under low-level viral replication. …”
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Characterization of the Complete Chloroplast Genomes and Phylogenetic Analysis of Sapotaceae by Wenyan He, Yumei Liu, Rui Gao, Zhiyu Song, Wentao Zhu, Jinliao Chen, Cuiyi Liang, Shasha Wu, Junwen Zhai

“…Phylogenetic trees were reconstructed using complete chloroplast genome sequences and analyzed using ML and BI methods, which revealed that the Sapotaceae family is divided into three distinct clades, each receiving strong statistical support (BS = 100, PP = 1). …”
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Characterization of the virulence shaping and adaptability in the methicillin-resistant Staphylococcus aureus ST9 lineage by Yiyi Chen, Feiteng Zhu, Yueqin Hong, Yeqiong Liu, Haiping Wang, Shengnan Jiang, Mengzhen Chen, Shujuan Ji, Zhengan Wang, Yunsong Yu, Yan Chen, Lu Sun

“…Notably, we identified three novel prophage islands (φST9-A, φST9-B, and φST9-C), with φST9-B carrying the recently characterized tarP virulence gene, suggesting that recombination events within livestock-associated MRSA could contribute to the genetic diversification of ST9. …”
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The sucrose synthase gene family in blueberry (Vaccinium darrowii): functional insights into the role of VdSUS4 in salt stress tolerance by Yanwen Wang, Yanwen Wang, Yanwen Wang, Lei Yang, Lei Yang, Lei Yang, Lei Yang, Lei Yang, Wenzhu Geng, Wenzhu Geng, Wenzhu Geng, Hongxia Zhang, Hongxia Zhang, Hongxia Zhang, Hongxia Zhang, Hongxia Zhang, Houjun Zhou, Houjun Zhou, Houjun Zhou, Houjun Zhou, Houjun Zhou

“…Phylogenetic analysis, constructed through a multi-species phylogenetic tree, revealed that the SUS gene family can be categorized into three subfamilies: SUS I, SUS II and SUS III. Notable variations were observed among the VdSUS gene family members, particularly in the number of amino acids, molecular weight, isoelectric point, and hydrophobicity of the encoded proteins. …”
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Evaluating methods for integrating single-cell data and genetics to understand inflammatory disease complexity by Hope A. Townsend, Hope A. Townsend, Kaylee J. Rosenberger, Kaylee J. Rosenberger, Lauren A. Vanderlinden, Lauren A. Vanderlinden, Jun Inamo, Jun Inamo, Fan Zhang, Fan Zhang, Fan Zhang

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Hooks, Lines, and Sinkers: How Active Galactic Nucleus Feedback and Cosmic-Ray Transport Shape the Far-infrared–Radio Correlation of Galaxies by Sam B. Ponnada, Rachel K. Cochrane, Philip F. Hopkins, Iryna S. Butsky, Sarah Wellons, N. Nicole Sanchez, Cameron Hummels, Yue Samuel Lu, Dušan Kereš, Christopher C. Hayward

“…We present the first reproduction of the z  ∼ 0 FRC using detailed synthetic observations of state-of-the-art cosmological zoom-in simulations from the Feedback in Realistic Environments (FIRE-3) suite with explicitly evolved CR proton and electron (CRe) spectra, for three models for CR transport and multichannel active galactic nucleus (AGN) feedback. …”
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A Seascape Genomics Perspective on Restrictive Genetic Connectivity Overcoming Signals of Local Adaptations in the Green Abalone (Haliotis fulgens) of the California Current System by Jorge Alberto Mares‐Mayagoitia, Paulina Mejía‐Ruíz, Fabiola Lafarga‐De la Cruz, Fiorenza Micheli, Pedro Cruz‐Hernández, Juan A. De‐Anda‐Montañez, John Hyde, Norma Y. Hernández‐Saavedra, Vladimir S. De Jesús‐Bonilla, Carmen E. Vargas‐Peralta, Ana L. Flores‐Morales, Alejandro F. Pares‐Sierra, Fausto Valenzuela‐Quiñonez

“…ABSTRACT Seascape genomics facilitates integrative research on eco‐evolutionary forces, such as migration and natural selection, which shape genomic connectivity and structure and provide critical insights for conservation strategies. …”
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Relationship between continental chemical weathering trends in the North China Basin and the high-latitude glacial cycles from the Late Carboniferous to the Early Permian by Ziyu LING, Minfang YANG, Lei WANG, Ye WANG, Peixin ZHANG, Haoqing LIU, Longyi SHAO, Jing LU

“…Results The results indicate that the periodic changes of continental chemical weathering in the low-latitude Liujiang coalfield involved three weathering weakening stages (i.e., early-middle Bashkirian, Moscovian-Kasimovian, and early Asselian) and two weathering enhancement stages (i.e., late Bashkirian and Gzhelian). …”
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Phylodynamic of Tomato Brown Rugose Fruit Virus and Tomato Chlorosis Virus, Two Emergent Viruses in Mixed Infections in Argentina by Julia M. Ibañez, Romina Zambrana, Pamela Carreras, Verónica Obregón, José M. Irazoqui, Pablo A. Vera, Tatiana E. Lattar, María D. Blanco Fernández, Andrea F. Puebla, Ariel F. Amadio, Carolina Torres, Paola M. López Lambertini

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Wave convergence principles of agricultural carbon emission efficiency: a multi-level urban agglomeration study by Xu Wei, Qixin Ma, Xiaoqun Chen

“…The findings indicate: (1) The agricultural carbon emission efficiency exhibits a fluctuating downward trend, with a distribution depicted by higher efficiencies in the northern and southern regions and lower efficiencies in the rest part. (2) The joint intensity of agricultural carbon emission efficiency tends towards a wave-like increase and exhibits joint threshold effects, with the outcomes for national urban agglomerations significantly surpassing other groups. (3) The evolutionary curves of agricultural carbon emission efficiency in Chinese urban agglomerations essentially show wave-like converging changes over time and in conjunction with urban joint development, with the fitted curves of carbon emission efficiency across different urban agglomerations showing high degrees of similarity.…”
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Precise and Accurate Mass and Radius Measurements of Fifteen Galactic Red Giants in Detached Eclipsing Binaries by Dominick M. Rowan, Krzysztof Z. Stanek, Christopher S. Kochanek, Todd A. Thompson, Tharindu Jayasinghe, Jacqueline Blaum, Benjamin J. Fulton, Ilya Ilyin, Howard Isaacson, Natalie LeBaron, Jessica R. Lu, David V. Martin

“…Finally, we compare our mass and radius measurements to single-star evolutionary tracks and distinguish between systems that are first ascent red giant branch stars and those that are likely core helium-burning stars.…”
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Performance Simulation of Sino-Tibetan Temple Spatial Layouts: Modern Application of Traditional Construction Approaches by Nan Jiang, Dawei Shang, Ya Tuo

“…This study selects several typical spatial layouts that emerged during the evolutionary process as research subjects and uses the building simulation software (Ladybug Tools 1.7.0) for simulation. …”
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