Molecular characterization of Pseudomyxoma peritonei with single-cell and bulk RNA sequencing by Ye Jin Ha, Seong-Hwan Park, Seon-Kyu Kim, Ka Hee Tak, Jeong-Hwan Kim, Chan Wook Kim, Yong Sik Yoon, Seon-Young Kim, Jong Lyul Lee

“…Here, we present single-cell transcriptomic profiling of five PMP cases to identify cell type-specific gene features associated with PMP pathogenesis. Additionally, we provide bulk RNA-seq datasets from two independent cohorts: 19 fresh frozen tissue samples (12 PMPs) and 34 formalin-fixed paraffin-embedded (FFPE) samples (25 PMPs). …”
Get full text

O-GlcNAcylation attenuates ischemia-reperfusion-induced pulmonary epithelial cell ferroptosis via the Nrf2/G6PDH pathway by Liuqing Yang, Hexiao Tang, Jin Wang, Dawei Xu, Rui Xuan, Songping Xie, Pengfei Xu, Xinyi Li

“…Results First, we identified O-GlcNAc transferase 1 (Ogt1) as a differentially expressed gene in lung epithelial cells of acute lung injury/acute respiratory distress syndrome (ALI/ARDS) patients, using single-cell sequencing, and Gene Ontology analysis (GO analysis) revealed the enrichment of the ferroptosis process. …”
Get full text

UV-induced reorganization of 3D genome mediates DNA damage response by Veysel Oğulcan Kaya, Ogün Adebali

“…Through the analysis of DNA damage and excision repair maps, we uncover a correlation between genome folding, gene regulation, damage formation probability, and repair efficacy. …”
Get full text

Base editing HbS to HbG-Makassar improves hemoglobin function supporting its use in sickle cell disease by Zachary Kostamo, Manuel A. Ortega, Chavonna Xu, Patricia R. Feliciano, Elizabeth Budak, Daisy Lam, Valerie Winton, Rebecca Jenkins, Archita Venugopal, Margaret Zhang, John Jamieson, Brent Coisman, Kennedy Goldsborough, Britney Hernandez, Celeste K. Kanne, Erica N. Evans, Jordan Zgodny, Yankai Zhang, Jawa Darazim, Ashwin Patel, Michael A. Pendergast, John Manis, Adam J. Hartigan, Giuseppe Ciaramella, Seung-Joo Lee, S. Haihua Chu, Vivien A. Sheehan

“…Our results highlight the importance of functionally assessing the mature red cell environment when evaluating novel gene editing strategies for hematologic disorders.…”
Get full text

Keratoconus with two consecutive re-emergences: a case report by Peicheng Zhang, Yanchao Wu, Lixiao Ma, Dong Wang

“…Genetic testing was performed, and no abnormal genes were identified. Postoperative follow-up emphasized the management of chronic allergic conjunctivitis (CAC) and the correction of eye-rubbing habits. …”
Get full text

Hydrogel-based nanoparticles: revolutionizing brain tumor treatment and paving the way for future innovations by Alireza Shadab, Simin Farokhi, Arshia Fakouri, Neda Mohagheghzadeh, Ali Noroozi, Zahra Sadat Razavi, Arian Karimi Rouzbahani, Hamidreza Zalpoor, Mohamad Mahjoor

“…This includes investigating tailored hydrogels, hybrid systems, computational modeling, and the integration of gene therapy and immunotherapy techniques. The study also addresses the need for enhanced synthesis techniques, stability, scalability, and cost-cutting measures to overcome obstacles and advance the clinical use of hydrogel-based nanoparticles in treating brain tumors. …”
Get full text

Investigation of new exopolysaccharides produced by strains of donkey milk by Arevik Israyelyan, Tsovinar Balabekyan, Lara Aleksanyan, Inesa Sahakyan, Anna Gasparyan, Flora Тkhruni

“…Materials and Methods: Species identification of LAB strains was confirmed by 16S rDNA gene sequencing method using universal primers LAB strains. …”
Get full text

A novel decomposer-exploiter interaction framework of plant residue microbial decomposition by Youzhi Miao, Wei Wang, Huanhuan Xu, Yanwei Xia, Qingxin Gong, Zhihui Xu, Nan Zhang, Weibing Xun, Qirong Shen, Ruifu Zhang

“…Conversely, bacteria predominantly increase expression of genes of glycosidases to exploit fungal degradation products, thereby consistently acting as exploiters. …”
Get full text

Synthetic transmembrane DNA receptors enable engineered sensing and actuation by Ze-Rui Zhou, Man-Sha Wu, Zhenglin Yang, Yuting Wu, Weijie Guo, Da-Wei Li, Ruo-Can Qian, Yi Lu

“…Upon the input of external signals, the DNA receptors can form dimers on the cell surface triggered by configuration changes, leading to a series of downstream cascade events including communication between donor and recipient cells, gene transcription regulation, protein level control, and cell apoptosis. …”
Get full text

Cost-reduction strategy to culture patient derived bladder tumor organoids by Mahsa Mollapour Sisakht, Fatemeh Gholizadeh, Shirin Hekmatirad, Tokameh Mahmoudi, Saeed Montazeri, Laleh Sharifi, Hamed Daemi, Shahla Romal, Mohammad Hosein Yazdi, Mohammad Ali Faramarzi, Ahmad Reza Shahverdi, Amir Ali Hamidieh

“…PDOs grown in sodium alginate and FCM based medium have proliferation potential, growth rate, and gene expression that are similar to PDOs cultured in BME. …”
Get full text

Plasma membrane and nuclear phosphatidylinositol 4,5-bisphosphate signalling in cancer by Agnieszka Chytła, Stephanie Rattay, Baki Akgül, Martin Sztacho

“…Nuclear phosphoinositides, particularly PI(4,5)P2, are essential for regulating transcription factors and chromatin organisation, thereby shaping gene expression patterns. We also explore the role of PI(4,5)P2 and its metabolism in cancer cell invasiveness and metastasis, proposing a model in which the dysregulation of cytosolic and/or nuclear PI(4,5)P2 pool triggers malignant transformation. …”
Get full text

Dimethyl fumarate promotes the degradation of HNF1B and suppresses the progression of clear cell renal cell carcinoma by Yue Dai, Hongchen Li, Shiyin Fan, Kai Wang, Ziyi Cui, Xinyu Zhao, Xue Sun, Mingen Lin, Jiaxi Li, Yi Gao, Ziyin Tian, Hui Yang, Bingbing Zha, Lei Lv, Yanping Xu

“…Furthermore, HNF1B interacts with and stabilizes Yes-associated protein (YAP), thus DMF-mediated HNF1B degradation decreases YAP protein level and the expression of its target genes, resulting in the suppression of ccRCC cell proliferation. …”
Get full text

Dipropyl phthalate induces craniofacial chondrogenic defects in zebrafish embryos by Qinyuan Shen, Weitao Hu, Fasheng Liu, Si Dong, Xinya Peng, Yihang Zhong, Chao Chen, Yuhua Zuo, Chenkai Ge, Weirong Li, Wenwen Zha, Zhijun Ye, Zigang Cao, Lan Liao

“…Transcriptome sequencing and molecular docking analyses revealed that DPRP down-regulated chondrocyte-related genes and induced activation of the FoxO signaling pathway, which in turn interfered with cell proliferation and apoptosis. …”
Get full text

Molecular characterization of mixed-histology endometrial carcinoma provides prognostic and therapeutic value over morphologic findings by Paulina J. Haight, Ashwini Esnakula, Courtney J. Riedinger, Adrian A. Suarez, Jessica Gillespie, Ashley Patton, Alexis Chassen, David E. Cohn, Casey M. Cosgrove

“…Transcriptional analysis demonstrated 93 differentially expressed genes between p53abnl and NSMP tumors, including many associated with the innate immune response and DNA damage repair. …”
Get full text

A new species of Hemiphyllodactylus (Squamata, Gekkonidae) from western Yunnan, China by Hongxin Zhou, Xiaohan Wang, Liangwei Cui, Dongru Zhang, Ziqi Shen, Xiuyan Li, Shuo Liu, Dingqi Rao

“…The new species can be distinguished from its congeners by a significant genetic divergence of greater than 4.8% in the mitochondrial ND2 gene and a combination of the following characters: maximum SVL of 38.5 mm; 10 or 11 chin scales; enlarged postmentals; 6 circumnasal scales; 2 or 3 internasal scales; 8 or 9 supralabial scales; 8 or 9 infralabial scales; 15 or 16 dorsal scales; 9 ventral scales; a manual lamellar formula of 3-4-4-4 and a pedal lamellar formula of 3(4)-4-4-4; 26–28 precloacal and femoral pore-bearing scales contiguous in males; 1–3 cloacal spur on each side; a dark postorbital stripe extending to at least base of neck; dorsolateral light–colored spots on trunk present; dark ventrolateral stripe on trunk present; dark dorsal transverse blotches present; and a dark and brown postsacral mark bearing anteriorly projecting arms.…”
Get full text

Reduction of nutrients concentration in culture medium has no effect on bovine embryo production, pregnancy and birth rates by Ligiane de Oliveira Leme, Mauricio Machaim Franco, Otávio Augusto de Faria, Alexandre Rodrigues Caetano, Juliana Gonçalves de Souza, Luciano de Rezende Carvalheira, Emivaldo de Siqueira Filho, Margot Alves Nunes Dode

“…First, embryos produced under these three treatments were evaluated for production, quality, lipid content, gene expression, and methylation patterns. The results indicated that all parameters analyzed were similar across all treatments (P > 0.05), suggesting that reducing media components does not affect embryo development and quality. …”
Get full text

Resveratrol, a food-derived polyphenol, promotes Melanosomal degradation in skin fibroblasts through coordinated activation of autophagy, lysosomal, and antioxidant pathways by Saki Okamoto, Saya Kakimaru, Mayuko Koreishi, Mika Sakamoto, Yoshimasa Nakamura, Hideya Ando, Yoshio Tsujino, Ayano Satoh

“…RNA sequencing revealed upregulation of lysosomal and autophagy-related genes, including cathepsins. Furthermore, reporter assays showed resveratrol's activation of antioxidant response via nuclear factor erythroid 2-related factor 2 (NRF2)-mediated, leading to upregulation of transcription factor EB/transcription factor E3 (TFEB/TFE3), master regulators of lysosomal function. …”
Get full text

Microbiota of the Esophagus and Stomach in Patients with Gastroesophageal Reflux Disease and Healthy Volunteers by D. E. Rumyantseva, A. S. Trukhmanov, A. V. Kudryavtseva, G. S. Krasnov, A. V. Paraskevova, O. A. Storonova, A. B. Ponomarev

“…The study of the microbiota in the obtained samples was performed by sequencing the 16S gene of ribosomal RNA (rRNA).Results.  The most common types of bacteria in the esophagus and stomach in patients with GERD and healthy volunteers are found to be Bacteroidetes, Firmicutes, Actinobacteria, Proteobacteria, Fusobacterium. …”
Get full text

Chromosome-level reference genome assembly of the gyrfalcon (Falco rusticolus) and population genomics offer insights into the falcon population in Mongolia by Farooq Omar Al-Ajli, Giulio Formenti, Olivier Fedrigo, Alan Tracey, Ying Sims, Kerstin Howe, Ikdam M. Al-Karkhi, Asmaa Ali Althani, Erich D. Jarvis, Sadequr Rahman, Qasim Ayub

“…The Altai W chromosome has 31 coding variants in 29 genes that may possibly influence important structural, behavioral, and reproductive traits. …”
Get full text

A Assessing Knowledge, Attitudes and Practices Related to Thalassemia: A Cross-Sectional Study Among University Students in Swat, Pakistan by Sumaia Saif, Mena Ibrahim, Murad Ali Rahat, Akhtar Rasool, Muhammad Israr

“… Background & objectives: The most common and potentially fatal single-gene hereditary disorder affecting the manufacture of hemoglobin is thalassemia, which results from one or more globin chains fail to synthesize properly, either completely or partially. …”
Get full text