Responses of Soil Microbial Communities and Functions in an Alpine Grassland of the Qinghai Lake Basin With Grazing Disturbance by Caicai Sun, Quanmin Dong, Haitao An, Yuzhen Liu, Weidong Lv, Wenting Liu, Haiming Ji, Xiaoxia Yang

“…The results indicated that: (1) Actinobacteria, Proteobacteria, and Chloroflexi were the dominant bacterial communities in the soil, while Ascomycota, Mucoromycota, and Basidiomycota represented the primary fungal communities. (2) Grazing had a greater impact on soil fungal communities than on bacterial communities, altering the Shannon diversity index and Simpson index of soil fungal communities. (3) Soil pH and soil moisture were important factors influencing changes in soil microbial communities. (4) Functional analysis focusing on the “nitrogen metabolism” pathway indicated that under light grazing conditions, the relative abundance of multiple functional genes, particularly those involved in denitrification, decreased.…”
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Genome-wide identification, evolution, and expression and metabolic regulation of the maize CHS gene family under abiotic stress by Xiaofang Wang, Jing Wu, Huangai Li, Lei Zhu, Yan Long

“…Then, the ZmCHS25 gene was selected as a representative for functional analysis. We investigated the metabolic regulatory mechanisms during the salt stress response by constructing gene knockout mutants and combining untargeted metabolomics analysis. …”
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Allochrony in Atlantic Lumpfish: Genomic and Otolith Shape Divergence Between Spring and Autumn Spawners by Mathilde Horaud, Núria Raventós, Kim Præbel, Carles Galià‐Camps, Cinta Pegueroles, Carlos Carreras, Marta Pascual, Victor M. Tuset, Shripathi Bhat, Arve Lynghammar

“…Genomic differences between the two groups were concentrated in three chromosomes, with a region of chromosome 1 encompassing the same single nucleotide polymorphisms (SNPs) driving differential season spawning for both localities, suggesting parallel responses. The functional analysis of the SNPs in this region revealed genes associated with responses to environmental stressors, possibly adaptations to seasonal variations at high latitudes. …”
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N-Lactoyl-Phenylalanine modulates lipid metabolism in microglia/macrophage via the AMPK-PGC1α-PPARγ pathway to promote recovery in mice with spinal cord injury by Weiyang Ying, Weidong Weng, Peifang Wang, Chi Pan, Jiani Qiu, Qianqian Huang, Gonghao Zhan, Xiaoli Chen

“…Moreover, the polarization of microglia/macrophage shifts toward the anti-inflammatory M2 phenotype, providing substantial support for the regenerative process of the injured spinal cord. Functional analysis revealed that mice treated with L-P exhibited significantly improved motor function compared to the control group. …”
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Preparation, structural characterization, and functional properties of a tilapia-soybean dual proteins: Effects of different complexation modes by Xinyi Qin, Pengzhi Hong, Liangyu Zhao, Mengya Xie, Chunxia Zhou, Qingguan Liu

“…Compared to T-SPCP, T-SPC showed more hydrophilic groups, with increased free sulfhydryl groups, disulfide bonds, α-helices, and zeta potential, alongside reduced surface hydrophobicity and smaller flake structures. Functional analysis indicated that pH-regulated assembly methods significantly improved the properties of the dual proteins compared to T-SPM. …”
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Lipopolysaccharide-induced intestinal mucosal injury disrupts proteostasis in broiler chickens by Aijuan Zheng, Wayne Bryden, Xing Chen, Zhimin Chen, Peilong Yang, Kun Meng, Guohua Liu

“…Proteomic analysis indicated that 851 proteins were differentially expressed in the intestinal mucosa of broiler chickens from the immune stress group; 463 proteins were down-regulated, and 388 proteins were up-regulated. Functional analysis revealed that LPS disrupted intestinal mucosa protein homeostasis, affecting beta-oxidation of fatty acids, oxidative stress and immune function. …”
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Visualising xylem vessels connections formed one year after grafting using different techniques by Marilou Camboué, Anne Janoueix, Anne-Sophie Spilmont, Guillaume Mathieu, Nathalie Ollat, Luis Gonzaga Santesteban, Sarah Cookson

“…By combining 3D morphological and functional analysis, this study provides new insights into the internal quality of grapevine grafts depending on the grafting technique used. …”
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Prognostic analysis and mechanistic exploration of the autophagy-related exosome genes ITGA3, ITGB4, and PTK6 in pancreatic ductal adenocarcinoma by Lunbing Liang, Pengcheng Guo, Mingming Xiao, Fuqiang Zu, Guoliang Hao, Chaochun Zhang, Qingfeng Liu

“…Matrix files of 178 PC tissues (including 143 PDAC) and 167 healthy human pancreatic tissues and clinical data were downloaded from the UCSC Xena database, exosome database (exoRbase) and autophagy database (HADb), and the relevant mechanisms were explored by bioinformatics methods, including differential analysis, LASSO regression analysis, survival analysis, functional analysis, immune infiltration analysis and drug sensitivity analysis. …”
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MdWRKY71 as a positive regulator involved in 5-aminolevulinic acid-induced salt tolerance in apple by Yage Li, Liuzi Zhang, Zhouyu Yuan, Jianting Zhang, Yan Zhong, Liangju Wang

“…The expression of MdWRKY71, a WRKY transcription factor (TF) gene was found to be responsive to NaCl as well as ALA treatment. Functional analysis showed that overexpressing (OE)-MdWRKY71 significantly improved the salt tolerance of the transgenic apple, while RNA interfering (RNAi)-MdWRKY71 reduced the salt tolerance. …”
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Comparative proteomics of Listeria monocytogenes strains of food and clinical origin reveals strain-specific adaptation mechanisms by Ivanka Krasteva, Maria Schirone, Chiara Di Pancrazio, Francesco Manocchia, Federica D'Onofrio, Marta Maggetti, Fabrizia Perletta, Francesco Pomilio, Gianfranco Bruno, Marina Torresi, Gabriella Centorotola, Antonello Paparella, Flavio Sacchini, Nicola D'Alterio, Mirella Luciani, Mirella Luciani

“…Among these, 128 were unique to the food-derived strain (F), and 29 were specific to the clinical strain (H). Functional analysis revealed that F-specific proteins were primarily involved in terpenoid backbone biosynthesis and the production of secondary metabolites, processes associated with membrane integrity, stress resistance, and metabolic adaptation. …”
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Sputum microbiota profiles of patients with rifampicin-resistant tuberculosis during the intensive-phase treatment by Xingshan Cai, Yuan Lin, Bitong Wu, Yang Luo, Kun Li

“…Beta diversity analysis revealed distinct clustering patterns between RR-TB patients and healthy controls, with no significant differences between pre- and post-treatment groups. Functional analysis showed reduced microbial functions related to pyruvate fermentation and amino acid metabolism in RR-TB patients. …”
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Genome-Wide Identification of the GRAS Transcription Factor Family in <i>Medicago ruthenica</i> and Expression Analysis Under Drought Stress by Xingli Wang, Xueming Dong, Pengzhen Li, Mingyu Li, Zhaoming Wang, Qiang Zhou, Zhipeng Liu, Longfeng Yan

“…Overall, this study analyzed the phylogenetic relationships, conserved domains, <i>cis</i>-regulatory elements and expression patterns of the <i>GRAS</i> gene family in <i>M. ruthenica</i>, filling the gap in the identification of the <i>MrGRAS</i> gene family and laying the foundation for functional analysis of the <i>MrGRAS</i> gene family.…”
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Functional study of ZmHDZ4 in maize (Zea mays) seedlings under drought stress by Xiaowen Xie, Zhenzhen Ren, Huihui Su, Salah Fatouh Abou-Elwafa, Jing Shao, Lixia Ku, Lin Jia, Zhiqiang Tian, Li Wei

“…Identification and functional analysis of drought tolerance genes have potential practical importance in understanding the molecular mechanisms of drought stress. …”
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XPO1 serves as a prognostic marker involving AKT/MAPK/TGFBR1 pathway in OSCC by Ying Han, Ying Peng, Haofeng Xiong, Liujun Zeng, Tianyi Zhang, Kun Xia, Xin Hu, Tong Su

“…Enhanced XPO1 expression was indicative of poor survival. Functional analysis showed that XPO1 mediated pathways associated with cell cycle and DNA replication and reduced immune infiltration in OSCC. …”
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Exploration of predictive markers associated with primary angle-closure glaucoma risk in companion dogs using genomic information by Ji Hyun Jun, Gwang Hyeon Lee, Zultsetseg Byambasuren, Hong Sik Kong

“…To assess the impact of non-synonymous SNP (nsSNPs), functional analysis of candidate genes, Hazard Assessment, and protein structure prediction were conducted. …”
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Development of a ZRS Reporter System for the Newt (<i>Cynops pyrrhogaster</i>) During Terrestrial Limb Regeneration by Martin Miguel Casco-Robles, Ryosuke Ikeda, Fumiaki Maruo, Chikafumi Chiba

“…Several binding sites with medical relevance were conserved in the newt ZRS. In functional analysis, we developed a system composed of a transgenic nZRS reporter newt and a new newt anti-Shh antibody, which allowed Shh monitoring during limb regeneration. …”
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Gastric Microbiota Associated with Gastric Precancerous Lesions in <i>Helicobacter pylori</i>-Negative Patients by Han-Na Kim, Min-Jeong Kim, Jonathan P. Jacobs, Hyo-Joon Yang

“…<i>Prevotella jejuni</i> and the genus <i>Parvimonas</i> were enriched in the IM group. A predictive functional analysis revealed enrichment of the ornithine degradation pathway in the IM and dysplasia groups, suggesting its role in persistent gastric mucosal inflammation associated with gastric precancerous lesions. …”
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Metagenomic analysis reveals microbial drivers of heat resistance in dairy cattle by Mingxun Li, Zhiwei Wang, Zheng Ma, Yangyang Wang, Haoran Jia, Lei Zhang, Peng Chen, Yongjiang Mao, Zhangping Yang

“…HR cows exhibited a more cohesive and functionally stable microbiome, dominated by taxa such as Ruminococcus flavefaciens and Succiniclasticum, which are key players in fiber degradation and short-chain fatty acid production. Functional analysis highlighted the enrichment of the pentose phosphate pathway (PPP) in HR cows, suggesting a metabolic adaptation that enhances oxidative stress management. …”
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Transcriptomic Profiling of Thermotolerant <i>Sarcomyxa edulis</i> PQ650759 Reveals the Key Genes and Pathways During Fruiting Body Formation by Zitong Liu, Minglei Li, Hongyu Ma, Fei Wang, Lei Shi, Jinhe Wang, Chunge Sheng, Peng Zhang, Haiyang Yu, Jing Zhao, Yanfeng Wang

“…., SKP1, MRE11, GPI) linked to cell cycle regulation, DNA repair, and energy metabolism were randomly selected and prioritized for functional analysis. Quantitative PCR validation confirmed the reliability of transcriptome data, with expression trends consistent across both methods. …”
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Genome-wide identification of SIMILAR to RCD ONE (SRO) gene family in rapeseed (Brassica napus L.) reveals their role in drought stress response by Huanhuan Jiang, Yuling Zhang, Jia Li, Rongzi Tang, Fenghao Liang, Rong Tang, Yuyu Zhou, Chao Zhang

“…Our results provide a solid foundation for functional analysis of the role of the SRO gene family in abiotic stress responses, especially drought stress responses, in rapeseed.…”
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