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Lactobacillus reuteri mitigates hepatic ischemia/reperfusion injury by modulating gut microbiota and metabolism through the Nrf2/HO-1 signaling Biol. Direct (IF 5.5) Pub Date : 2024-03-18 Leiyi Zhang, Xiaoxiang Gong, Juan Tan, Rongsen Zhang, Mingxia Li, Cong Liu, Chenhao Wu, Xiaojing Li
This study seeks to investigate the impacts of Lactobacillus reuteri (L. reuteri) on hepatic ischemia-reperfusion (I/R) injury and uncover the mechanisms involved. Mice in the I/R groups were orally administered low and high doses of L.reuteri (L.reuteri-low and L. reuteri-hi; 1 × 1010 CFU/d and 1 × 1011 CFU/d), for 4 weeks prior to surgery. Following this, mice in the model group were treated with
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Exploring the role of GhN/AINV23: implications for plant growth, development, and drought tolerance Biol. Direct (IF 5.5) Pub Date : 2024-03-14 Kaikai Qiao, Qingtao Zeng, Jiaoyan Lv, Lingling Chen, Juxin Hao, Ding Wang, Qifeng Ma, Shuli Fan
Neutral/alkaline invertases (N/AINVs) play a crucial role in plant growth, development, and stress response, by irreversibly hydrolyzing sucrose into glucose and fructose. However, research on cotton in this area is limited. This study aims to investigate GhN/AINV23, a neutral/alkaline invertase in cotton, including its characteristics and biological functions. In our study, we analyzed the sequence
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Mammalian enabled protein enhances tamoxifen sensitivity of the hormone receptor-positive breast cancer patients by suppressing the AKT signaling pathway Biol. Direct (IF 5.5) Pub Date : 2024-03-08 Lifang He, Chuanghong She, Sen Jiang, Zhaochang Qi, Zihao Deng, Likeng Ji, Yukun Cui, Jundong Wu
Mammalian enabled (MENA) protein is a member of the enabled/vasodilator stimulated phosphoprotein (Ena/VASP) protein family, which regulates cytoplasmic actin network assembly. It plays a significant role in breast cancer invasion, migration, and resistance against targeted therapy and chemotherapy. However, its role in the efficacy of endocrine therapy for the hormone receptor-positive (HR+) breast
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Dysregulation and antimetastatic function of circLRIG1 modulated by miR-214-3p/LRIG1 axis in bladder carcinoma Biol. Direct (IF 5.5) Pub Date : 2024-03-07 Shiliang Cheng, Chunguang Li, Lu Liu, Xinli Liu, Meng Li, Jinhua Zhuo, Jue Wang, Wen Zheng, Zhongmin Wang
CircLRIG1, a newly discovered circRNA, has yet to have its potential function and biological processes reported. This study explored the role of circLRIG1 in the development and progression of bladder carcinoma and its potential molecular mechanisms. Techniques such as qRT-PCR, Western blot, various cellular assays, and in vivo models were used to investigate mRNA and protein levels, cell behavior
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PHF5A promotes esophageal squamous cell carcinoma progression via stabilizing VEGFA Biol. Direct (IF 5.5) Pub Date : 2024-03-01 Zhiwei Chang, Yongxu Jia, Ming Gao, Lijie Song, Weijie Zhang, Ruihua Zhao, Dandan Yu, Xiaolei Liu, Jing Li, Yanru Qin
Esophageal squamous cell carcinoma (ESCC) is the main subtype of esophageal cancer. Current therapeutic effect is far from satisfaction. Hence, identifying susceptible genes and potential targets is necessary for therapy of ESCC patients. Plant homeodomain (PHD)-finger domain protein 5 A (PHF5A) expression in ESCC tissues was examined by immunohistochemistry. RNA interference was used for in vitro
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Unlocking hepatocellular carcinoma aggression: STAMBPL1-mediated TRAF2 deubiquitination activates WNT/PI3K/NF-kb signaling pathway Biol. Direct (IF 5.5) Pub Date : 2024-02-28 Zhihuai Wang, Yinjie Zhang, Yuhang Shen, Haiyang Zhou, Yuan Gao, Chunfu Zhu, Xihu Qin
STAM Binding Protein Like 1 (STAMBPL1), functions as a deubiquitinase (DUB) and plays a significant role in various types of cancers. However, its effect as a DUB participating in the HCC tumorigenesis and progression still unknown. In the study, the upregulation and strong prognosis value of STAMBPL1 were identified in HCC patients. Functionally, STAMBPL1 significantly promoted HCC cells proliferation
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Comprehensive analysis of mitochondria-related genes indicates that PPP2R2B is a novel biomarker and promotes the progression of bladder cancer via Wnt signaling pathway Biol. Direct (IF 5.5) Pub Date : 2024-02-26 Du Shen, Shaosan Kang
Bladder cancer (BC) is the fourth and tenth most common malignancy in men and women worldwide, respectively. The complexity of the molecular biological mechanism behind BC is a major contributor to the lack of effective treatment management of the disease. The development and genesis of BC are influenced by mitochondrial retrograde control and mitochondria-nuclear cross-talk. However, the role of
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RPL35A promotes the progression of cholangiocarcinoma by mediating HSPA8 ubiquitination Biol. Direct (IF 5.5) Pub Date : 2024-02-23 Chengshuo Zhang, Yu Wang, Gang Wu, Ning Sun, Han Bai, Xuejian Li, Shuai Han, Haonan Zhou, Ruizhao Qi, Jialin Zhang
Cholangiocarcinoma (CCA) is a biliary epithelial malignant tumor with an increasing incidence worldwide. Therefore, further understanding of the molecular mechanisms of CCA progression is required to identify new therapeutic targets. The expression of RPL35A in CCA and para-carcinoma tissues was detected by immunohistochemical staining. IP-MS combined with Co-IP identified downstream proteins regulated
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RARRES1 inhibits hepatocellular carcinoma progression and increases its sensitivity to lenvatinib through interaction with SPINK2 Biol. Direct (IF 5.5) Pub Date : 2024-02-23 Yarong Guo, Bao Chai, Hezhao Zhang, Xinhao Chai, Yan Chen, Jun Xu, Liwei Qin, Yuting Chai
Lenvatinib is an oral small molecule inhibitor approved for treating patients with unresectable hepatocellular carcinoma (HCC) worldwide. Increasing cell sensitivity to lenvatinib would be an effective method of improving therapeutic efficacy. High throughput methods was used to scan the differentially expressed genes (DEGs) related to lenvatinib sensitivity in HCC cells. Gain- and loss-function experiments
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Tissue-specific roles of peroxisomes revealed by expression meta-analysis Biol. Direct (IF 5.5) Pub Date : 2024-02-16 Matthias Plessner, Leonie Thiele, Julia Hofhuis, Sven Thoms
Peroxisomes are primarily studied in the brain, kidney, and liver due to the conspicuous tissue-specific pathology of peroxisomal biogenesis disorders. In contrast, little is known about the role of peroxisomes in other tissues such as the heart. In this meta-analysis, we explore mitochondrial and peroxisomal gene expression on RNA and protein levels in the brain, heart, kidney, and liver, focusing
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USP40 promotes hepatocellular carcinoma cell proliferation, migration and stemness by deubiquitinating and stabilizing Claudin1 Biol. Direct (IF 5.5) Pub Date : 2024-02-02 Qingsong Wu, Yuanyuan Qiu, Jinhui Guo, Zibo Yuan, Yingnan Yang, Qingwei Zhu, Zhe Zhang, Junwei Guo, Yanfang Wu, Junyu Zhang, Dongsheng Huang, Kangsheng Tu, Xiaoge Hu
Hepatocellular carcinoma (HCC) is a prevalent malignant tumor that poses a major threat to people’s lives and health. Previous studies have found that multiple deubiquitinating enzymes are involved in the pathogenesis of HCC. The purpose of this work was to elucidate the function and mechanism of the deubiquitinating enzyme USP40 in HCC progression. The expression of USP40 in human HCC tissues and
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Correction: Risk assessment of transgender people: implementation of a demasculinizing–feminizing rodent model including the evaluation of thyroid homeostasis Biol. Direct (IF 5.5) Pub Date : 2024-01-30 Alessia Tammaro, Gabriele Lori, Andrea Martinelli, Luigia Cancemi, Roberta Tassinari, Francesca Maranghi
Correction: Biology Direct (2024) 19:5 https://doi.org/10.1186/s13062-023-00450-1 After publication of this article [1], it was brought to our attention that the first name and family name of all authors need to be exchanged, the correct author names should be: Alessia Tammaro, Gabriele Lori, Andrea Martinelli, Luigia Cancemi, Roberta Tassinari and Francesca Maranghi The original publication has been
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Effect of glycosylation on the affinity of the MTB protein Ag85B for specific antibodies: towards the design of a dual-acting vaccine against tuberculosis Biol. Direct (IF 5.5) Pub Date : 2024-01-25 Roberta Bernardini, Sara Tengattini, Zhihao Li, Luciano Piubelli, Teodora Bavaro, Anamaria Bianca Modolea, Maurizio Mattei, Paola Conti, Stefano Marini, Yongmin Zhang, Loredano Pollegioni, Caterina Temporini, Marco Terreni
To create a dual-acting vaccine that can fight against tuberculosis, we combined antigenic arabino-mannan analogues with the Ag85B protein. To start the process, we studied the impact of modifying different parts of the Ag85B protein on its ability to be recognized by antibodies. Through our research, we discovered that three modified versions of the protein, rAg85B-K30R, rAg85B-K282R, and rAg85B-K30R/K282R
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MiR-31-5p regulates the neuroinflammatory response via TRAF6 in neuropathic pain Biol. Direct (IF 5.5) Pub Date : 2024-01-24 Yuqi Liu, Lijuan Wang, Chengcheng Zhou, Yuan Yuan, Bin Fang, Kaimei Lu, Fangxia Xu, Lianhua Chen, Lina Huang
Neuropathic pain is chronic pain and has few effective control strategies. Studies have demonstrated that microRNAs have functions in neuropathic pain. However, no study has been conducted to demonstrate the role and mechanism of microRNA (miR)-31-5p in neuropathic pain. Accordingly, this study sought to determine the pathological role of miR-31-5p in chronic constriction injury (CCI) -induced neuropathic
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Mir-338-3p targeting THBS1 attenuates glioma progression by inhibiting the PI3K/Akt pathway Biol. Direct (IF 5.5) Pub Date : 2024-01-24 Lianglei Jiang, Ting Fang, Tingting Hu, Jun Feng, Pengfei Yan
Glioma is a brain tumor with high morbidity and mortality rates. Understanding its molecular pathogenesis can provide targets and therapeutic strategies for glioma treatment. miR-338-3p represses tumor growth in several cancers, including glioma. Thus, this study aimed to identify the regulatory effects of miR-338-3p/phosphoinositide 3-kinase (PI3K)/Akt/thrombospondins 1 (THBS1) on glioma progression
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PICLS with human cells is the first high throughput screening method for identifying novel compounds that extend lifespan Biol. Direct (IF 5.5) Pub Date : 2024-01-23 Mohammad Alfatah, Yizhong Zhang, Arshia Naaz, Trishia Yi Ning Cheng, Frank Eisenhaber
Gerontology research on anti-aging interventions with drugs could be an answer to age-related diseases, aiming at closing the gap between lifespan and healthspan. Here, we present two methods for assaying chronological lifespan in human cells: (1) a version of the classical outgrowth assay with quantitative assessment of surviving cells and (2) a version of the PICLS method (propidium iodide fluorescent-based
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PLAU promotes growth and attenuates cisplatin chemosensitivity in ARID1A-depleted non-small cell lung cancer through interaction with TM4SF1 Biol. Direct (IF 5.5) Pub Date : 2024-01-17 Yuanliang Zheng, Lixiang Zhang, Kangliang Zhang, Shenghao Wu, Chichao Wang, Risheng Huang, Hongli Liao
Loss of ARID1A, a subunit of the SWI/SNF chromatin remodeling complex, contributes to malignant progression in multiple cancers including non-small cell lung cancer (NSCLC). In the search for key genes mediating the aggressive phenotype caused by ARID1A loss, we analyzed 3 Gene Expression Omnibus (GEO) datasets that contain RNA sequencing data from ARID1A-depleted cancer cells. PLAU was identified
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Vemurafenib induces senescence in acute myeloid leukemia and myelodysplastic syndrome by activating the HIPPO signaling pathway: implications for potential targeted therapy Biol. Direct (IF 5.5) Pub Date : 2024-01-04 Qiao Zhou, Jiamin Zhang, Jingsong Zhang, Simin Liang, Duo Cai, Han Xiao, Yu Zhu, Wenqiong Xiang, Fernando Rodrigues-Lima, Jianxiang Chi, Fabien Guidez, Li Wang
The outcome of Acute myeloid leukemia (AML) and myelodysplastic syndrome (MDS) remain dismal despite the development of treatment. Targeted therapy is gaining more and more attention in improving prognosis. Expression of BRAF was analyzed by RT-qPCR in AML and MDS patients. Cells viability treated by drugs was measured by CCK-8 assay. Network pharmacology and RNA-sequence were used to analyze the mechanism
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Risk assessment of transgender people: implementation of a demasculinizing–feminizing rodent model including the evaluation of thyroid homeostasis Biol. Direct (IF 5.5) Pub Date : 2024-01-02 Tammaro Alessia, Lori Gabriele, Martinelli Andrea, Cancemi Luigia, Tassinari Roberta, Francesca Maranghi
Individuals whose gender identity differs from the biological sex and the social norms are defined as transgender. Sometimes transgender undergo gender affirming hormone therapy, which lasts for the entire life making essential to evaluate its potential long-term effects. Moreover, transgender can represent a susceptible sub-group of population and specific attention is needed in risk assessment, including
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Circ_MAPK9 promotes STAT3 and LDHA expression by silencing miR-642b-3p and affects the progression of hepatocellular carcinoma Biol. Direct (IF 5.5) Pub Date : 2024-01-02 Kunyuan Wang, Qianting Lu, Yufeng Luo, Ganxiang Yu, Zhilei Wang, Jiaen Lin, Zhenlin Tan, Yueqiong Lao, Shiming Liu, Hui Yang
Aberrant expression and activation of circular RNAs (circRNAs) are closely associated with various cancers. The role of circ_MAPK9 (hsa_circ_0001566) in cancer progression remains unknown. This study aims to investigate the function, mechanism and clinical significance of circ_MAPK9 in hepatocellular carcinoma (HCC). Circ_MAPK9 expression on the microarray of tumor from clinical HCC patients was detected
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GPR137 inactivates Hippo signaling to promote gastric cancer cell malignancy Biol. Direct (IF 5.5) Pub Date : 2024-01-02 Lin Li, Jinlong Tang, Bin Cao, Qiang Xu, Shouying Xu, Chao Lin, Chao Tang
As the fifth most common cancer in the world, gastric cancer (GC) ranks as the third major cause of cancer-related death globally. Although surgical resection and chemotherapy still remains the mainstay of potentially curative treatment for GC, chemotherapy resistance and adverse side effects limit their clinical applications. Thus, further investigation of the mechanisms of carcinogenesis in GC and
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DTX2 promotes glioma development via regulation of HLTF Biol. Direct (IF 5.5) Pub Date : 2024-01-02 Ren Li, Yang Chen, Biao Yang, Ziao Li, Peize Li, Yu Chen, Jiayu Li, Jianhang He, Yongqiang Wu, Yanqi Sun, Xiaogang Wang, Xiaolong Guo, Wenju Zhang, Yuanli Zhao, Geng Guo
Human Deltex 2 (DTX2) is a ubiquitin E3 ligase that functions as an oncogene and has been shown to participate in many human cancers. However, the role of DTX2 in glioma progression has remained obscure. In this study, we explore the mechanism underlying the function of DTX2 in glioma progression. The associations between DTX2 expression and clinical characteristics of glioma were determined by bioinformatic
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The oncogenic role and regulatory mechanism of PGK1 in human non-small cell lung cancer Biol. Direct (IF 5.5) Pub Date : 2024-01-02 Tian Tian, Yahui Leng, Bingbing Tang, Xiaoxia Dong, Qiulei Ren, Jingyin Liang, Tianhui Liu, Yanni Liu, Wenxiao Feng, Song Liu, Yang Zhou, Hongyan Zhao, Li Shen
Phosphoglycerate kinase 1 (PGK1) is a metabolic enzyme that participates in various biological and pathological processes. Dysregulated PGK1 has been observed in numerous malignancies. However, whether and how PGK1 affects non-small cell lung cancer (NSCLC) is not yet fully elucidated. Herein, the non-metabolic function of PGK1 in NSCLC was explored by integrating bioinformatics analyses, cellular
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Quinolinic acid impairs mitophagy promoting microglia senescence and poor healthspan in C. elegans: a mechanism of impaired aging process Biol. Direct (IF 5.5) Pub Date : 2023-12-20 Anjila Dongol, Xi Chen, Peng Zheng, Zehra Boz Seyhan, Xu-Feng Huang
Senescent microglia are a distinct microglial phenotype present in aging brain that have been implicated in the progression of aging and age-related neurodegenerative diseases. However, the specific mechanisms that trigger microglial senescence are largely unknown. Quinolinic acid (QA) is a cytotoxic metabolite produced upon abnormal activation of microglia. Brain aging and age-related neurodegenerative
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Spinal apolipoprotein E is involved in inflammatory pain via regulating lipid metabolism and glial activation in the spinal dorsal horn Biol. Direct (IF 5.5) Pub Date : 2023-12-09 Siyi Liu, Shuting Yang, Xuan Zhu, Xiang Li, Xi Zhang, Xiaoqiong Zhou, Hong Cheng, Fu-Quan Huo, Qingxiang Mao, Lingli Liang
Inflammation and nerve injury promote astrocyte activation, which regulates the development and resolution of pain, in the spinal dorsal horn. APOE regulates lipid metabolism and is predominantly expressed in the astrocytes. However, the effect of astrocytic APOE and lipid metabolism on spinal cellular function is unclear. This study aimed to investigate the effect of spinal Apoe on spinal cellular
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Loss of the centrosomal protein ALMS1 alters lipid metabolism and the regulation of extracellular matrix-related processes Biol. Direct (IF 5.5) Pub Date : 2023-12-08 Brais Bea-Mascato, Eduardo Gómez-Castañeda, Yara E. Sánchez-Corrales, Sergi Castellano, Diana Valverde
Alström syndrome (ALMS) is a rare autosomal recessive disease that is associated with mutations in ALMS1 gene. The main clinical manifestations of ALMS are retinal dystrophy, obesity, type 2 diabetes mellitus, dilated cardiomyopathy and multi-organ fibrosis, characteristic in kidneys and liver. Depletion of the protein encoded by ALMS1 has been associated with the alteration of different processes
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Correction: ILC1-derived IFN-γ regulates macrophage activation in colon cancer Biol. Direct (IF 5.5) Pub Date : 2023-12-04 Yandong Zhang, Shu Ma, Tie Li, Yu Tian, Huangao Zhou, Hongsheng Wang, Lan Huang
After publication of this article [1], it was brought to our attention that the first author’s name Yangon Zhang is incorrect, the correct name is Yandong Zhang. The original publication has been corrected. Zhang, et al. Biol Direct. 2023;1856. https://doi.org/10.1186/s13062-023-00401-w. Download references Authors and Affiliations Department of Rheumatology, The First Hospital of Jilin University
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Involvement of transcribed lncRNA uc.291 in hyperproliferative skin disorders Biol. Direct (IF 5.5) Pub Date : 2023-12-01 Mara Mancini, Simone Sergio, Angela Cappello, Timea Farkas, Francesca Bernassola, Claudia Scarponi, Cristina Albanesi, Gerry Melino, Eleonora Candi
The uc.291 transcript controls keratinocytes differentiation by physical interaction with ACTL6A and subsequent induction of transcription of the genes belonging to the epidermal differentiation complex (EDC). Uc.291 is also implicated in the dedifferentiation phenotype seen in poorly differentiated cutaneous squamous cell carcinomas. Here, we would like to investigate the contribution of uc.291 to
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Long noncoding RNA KCNMA1-AS1 promotes osteogenic differentiation of human bone marrow mesenchymal stem cells by activating the SMAD9 signaling pathway Biol. Direct (IF 5.5) Pub Date : 2023-11-29 Zhaoyi Mai, Jingpeng Liu, Xiao Jiang, Wenli Gu, Wei Wang, Simin Li, Gerhard Schmalz, Hui Xiao, Jianjiang Zhao
The human bone marrow mesenchymal stem cells (hBMSCs) undergo intense osteogenic differentiation, a crucial bone formation mechanism. Evidence from prior studies suggested an association between long noncoding RNAs (lncRNAs) and the osteogenic differentiation of hBMSCs. However, precise roles and molecular mechanisms are still largely unknown. In this work, we report for the first time that lncRNA
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RCC2 promotes prostate cancer cell proliferation and migration through Hh/GLI1 signaling pathway and cancer stem-like cells Biol. Direct (IF 5.5) Pub Date : 2023-11-27 Shenghan Wang, Zhentao Lei, Wei Liu, Jie Xiong, Yuqiang Shi, Lin Yang, Qiang Gao, Kai Le, Bao Zhang
Regulator of chromosome condensation 2 (RCC2) was a telophase disk-binding protein on mitosis, and functions as an oncogene in many human cancers. However, its role on prostate cancer (PCa) was unknown. The goal of this study is to explore the function of RCC 2 on PCa development. The expression of RCC2 and its methylation level, its correlation with lymph node metastasis or disease-free survival (DFS)
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Identifying the driver miRNAs with somatic copy number alterations driving dysregulated ceRNA networks in cancers Biol. Direct (IF 5.5) Pub Date : 2023-11-22 Renjie Dou, Shaobo Kang, Huan Yang, Wanmei Zhang, Yijing Zhang, Yuanyuan Liu, Yanyan Ping, Bo Pang
MicroRNAs (miRNAs) play critical roles in cancer initiation and progression, which were critical components to maintain the dynamic balance of competing endogenous RNA (ceRNA) networks. Somatic copy number alterations (SCNAs) in the cancer genome could disturb the transcriptome level of miRNA to deregulate this balance. However, the driving effects of SCNAs of miRNAs were insufficiently understood
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RGS5 maintaining vascular homeostasis is altered by the tumor microenvironment Biol. Direct (IF 5.5) Pub Date : 2023-11-20 Peng Kong, Xu Wang, Ya-Kun Gao, Dan-Dan Zhang, Xiao-Fu Huang, Yu Song, Wen-Di Zhang, Rui-Juan Guo, Han Li, Mei Han
Regulator of G protein signaling 5 (RGS5), as a negative regulator of G protein-coupled receptor (GPCR) signaling, is highly expressed in arterial VSMCs and pericytes, which is involved in VSMC phenotypic heterogeneity and vascular remodeling in tumors. However, its role in normal and tumor vascular remodeling is controversial. RGS5 knockout (Rgs5-KO) mice and RGS5 overexpression or knockdown in VSMCs
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Overexpression of ZNF488 supports pancreatic cancer cell proliferation and tumorigenesis through inhibition of ferroptosis via regulating SCD1-mediated unsaturated fatty acid metabolism Biol. Direct (IF 5.5) Pub Date : 2023-11-20 Qifeng Xiao, Zhongmin Lan, Shuisheng Zhang, Hu Ren, Shunda Wang, Peng Wang, Lin Feng, Dan Li, Chengfeng Wang, Xiaofeng Bai, Jianwei Zhang
Pancreatic cancer is a malignancy with high mortality. Once diagnosed, effective treatment strategies are limited and the five-year survival is extremely poor. Recent studies have shown that zinc finger proteins play important roles in tumorigenesis, including pancreatic cancer. However, it remains unknown on the clinical significance, function and underlying mechanisms of zinc finger protein 488 (ZNF488)
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Extracellular vesicles derived from different tissues attenuate cardiac dysfunction in murine MI models Biol. Direct (IF 5.5) Pub Date : 2023-11-17 Xuan Liu, Shanshan Shi, Xuedi Geng, Enhao Wang, Qingshu Meng, Mimi Li, Fang Lin, Xiaoxue Ma, Wei Han, Xiaohui Zhou
Extracellular vesicles (EVs) derived from various cell sources exert cardioprotective effects during cardiac ischemic injury. Our previous study confirmed that EVs derived from ischemic-reperfusion injured heart tissue aggravated cardiac inflammation and dysfunction. However, the role of EVs derived from normal cardiac tissue in myocardial ischemic injury remains elusive. In the present study, normal
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ACSM5 inhibits ligamentum flavum hypertrophy by regulating lipid accumulation mediated by FABP4/PPAR signaling pathway Biol. Direct (IF 5.5) Pub Date : 2023-11-14 Yanlin Cao, Jianjun Li, Sujun Qiu, Songjia Ni, Yang Duan
Ligamentum flavum (LF) hypertrophy is the main cause of lumbar spinal canal stenosis (LSCS). Previous studies have shown that LF hypertrophy tissue exhibits abnormal lipid accumulation, but the regulatory mechanism remains unclear. The objective of this study was to explore the function and potential mechanism of ACSM5 in LF lipid accumulation. To assess the ACSM5 expression levels, lipid accumulation
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LncRNA WAC-AS1 promotes osteosarcoma Metastasis and stemness by sponging miR-5047 to upregulate SOX2 Biol. Direct (IF 5.5) Pub Date : 2023-11-14 Zhining Yang, Zhaoyong Liu, Weiqing Lu, Huancheng Guo, Jianzhou Chen, Ying Zhang
Cancer stemness and osteosarcoma (OS) malignant progression are closely associated. However, the molecular mechanisms underlying this association have not been fully demonstrated. Long noncoding RNAs (lncRNAs) are an intriguing class of widely prevalent endogenous RNAs involved in OS progression, the vast majority of which have not been characterized functionally. Here, we identified tumor promoter
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p63 orchestrates serine and one carbon metabolism enzymes expression in head and neck cancer Biol. Direct (IF 5.5) Pub Date : 2023-11-09 Angela Cappello, Giulia Tosetti, Artem Smirnov, Carlo Ganini, Xue Yang, Yufang Shi, Ying Wang, Gerry Melino, Francesca Bernassola, Eleonora Candi
Head and neck squamous cell carcinoma (HNSCC) is characterized by high proliferation and limited differentiation. The altered expression of the p53 family members, and specifically of p63, represents a pivotal event in the pathogenesis of HNSCC. Physiologically, p63 affects metabolism through the direct transactivation of the enzyme hexokinase 2, and subsequently controls the proliferation of epithelial
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LY6/PLAUR domain containing 3 (LYPD3) maintains melanoma cell stemness and mediates an immunosuppressive microenvironment Biol. Direct (IF 5.5) Pub Date : 2023-11-03 Yi-dou Hu, Ke Wu, Yuan-jie Liu, Qian Zhang, Hui Shen, Jin Ji, Dong Fang, Song-yang Xi
Malignant melanoma is a highly heterogeneous skin cancer with the highest mortality rate among dermatological cancers. Catenins form functional networks in the nucleus to regulate gene expression and determine cell fate. Dysregulation of catenin expression correlates with the malignant characteristics of the tumor. We aimed to investigate the regulatory mechanisms of catenins in melanoma and to further
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Conventional type 1 dendritic cells (cDC1) in cancer immunity Biol. Direct (IF 5.5) Pub Date : 2023-11-01 Peng Liu, Liwei Zhao, Guido Kroemer, Oliver Kepp
Cancer immunotherapy, alone or in combination with conventional therapies, has revolutionized the landscape of antineoplastic treatments, with dendritic cells (DC) emerging as key orchestrators of anti-tumor immune responses. Among the distinct DC subsets, conventional type 1 dendritic cells (cDC1) have gained prominence due to their unique ability to cross-present antigens and activate cytotoxic T
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Identification of RNA reads encoding different channels in isolated rat ventricular myocytes and the effect of cell stretching on L-type Ca2+current Biol. Direct (IF 5.5) Pub Date : 2023-10-30 Andre G. Kamkin, Olga V. Kamkina, Viktor E. Kazansky, Vadim M. Mitrokhin, Andrey Bilichenko, Elizaveta A. Nasedkina, Stanislav A. Shileiko, Anastasia S. Rodina, Alexandra D. Zolotareva, Valentin I. Zolotarev, Pavel V. Sutyagin, Mitko I. Mladenov
The study aimed to identify transcripts of specific ion channels in rat ventricular cardiomyocytes and determine their potential role in the regulation of ionic currents in response to mechanical stimulation. The gene expression levels of various ion channels in freshly isolated rat ventricular cardiomyocytes were investigated using the RNA-seq technique. We also measured changes in current through
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Bcl-B: an “unknown” protein of the Bcl-2 family Biol. Direct (IF 5.5) Pub Date : 2023-10-30 N. V. Pervushin, G. S. Kopeina, B. Zhivotovsky
Bcl-B is a poorly understood protein of the Bcl-2 family that is highly expressed in many healthy tissues and tumor types. Bcl-B is considered an antiapoptotic protein, but many reports have revealed its contradictory roles in different cancer types. In this mini-review, we elucidate the functions of Bcl-B in normal conditions and various pathologies, its regulation of programmed cell death, its o
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Correction: High-fat diet impairs ferroptosis and promotes cancer invasiveness via downregulating tumor suppressor ACSL4 in lung adenocarcinoma Biol. Direct (IF 5.5) Pub Date : 2023-10-26 Yixiang Zhang, Songyu Li, Fengzhou Li, Changsheng Lv, Qing-kai Yang
After publication of this article [1], it was brought to our attention that Fig. 5 need to be corrected, the correct figure is provided below. The original publication has been corrected. Zhang, et al. Biol Direct. 2021;16:10. https://doi.org/10.1186/s13062-021-00294-7. Article CAS PubMed PubMed Central Google Scholar Download references Authors and Affiliations Department of Thoracic Surgery, The
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Nuclear respiratory factor 1 drives hepatocellular carcinoma progression by activating LPCAT1-ERK1/2-CREB axis Biol. Direct (IF 5.5) Pub Date : 2023-10-24 Ran Liu, Chuanzheng Yin, Peng Zhao, Bing Guo, Wenbo Ke, Xichuan Zheng, Dawei Xie, Yaofeng Wang, Gengqiao Wang, Yinzhao Jia, Yang Gao, Wenjun Hu, Gang Logan Liu, Zifang Song
Nuclear respiratory factor 1 (NRF1) is a transcription factor that participates in several kinds of tumor, but its role in hepatocellular carcinoma (HCC) remains elusive. This study aims to explore the role of NRF1 in HCC progression and investigate the underlying mechanisms. NRF1 was overexpressed and hyperactive in HCC tissue and cell lines and high expression of NRF1 indicated unfavorable prognosis
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Effect of genotype on individual response to the pharmacological treatment of glaucoma: a systematic review and meta-analysis Biol. Direct (IF 5.5) Pub Date : 2023-10-13 Damiana Scuteri, Giulio Pocobelli, Yoichi Sakurada, Rossella Russo, Paolo Tonin, Pierluigi Nicotera, Giacinto Bagetta, Maria Tiziana Corasaniti, Carlo Nucci
The social impact of glaucoma is worth of note: primary open-angle glaucoma (POAG) is one of the leading causes of irreversible blindness worldwide, affecting some 68.56 million people with overall prevalence of 2.4%. Since one of the main risk factors for the development of POAG is the increase of intraocular pressure (IOP) causing retinal ganglion cells death, the medical treatment of POAG consists
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Kruppel-like factor 13 acts as a tumor suppressor in thyroid carcinoma by downregulating IFIT1 Biol. Direct (IF 5.5) Pub Date : 2023-10-10 Yang Liu, Yixuan Song, Yuqin He, Ziren Kong, Han Li, Yiming Zhu, Shaoyan Liu
Kruppel-like factor 13 (KLF13) is a transcription factor and plays an important role in carcinogenesis. However, the significance of KLF13 in thyroid carcinoma (THCA) is underdetermined. In this study, we aimed to explore the clinical relevance and function of KLF13 in the progress of THCA. The expression of KLF13 in thyroid carcinoma and normal tissue was investigated by qPCR and IHC assay. The expression
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N6-methyladenosine methyltransferase KIAA1429 promoted ovarian cancer aerobic glycolysis and progression through enhancing ENO1 expression Biol. Direct (IF 5.5) Pub Date : 2023-10-09 Lijuan Gan, Shengchao Zhao, Yang Gao, Yuwen Qi, Min Su, Anjin Wang, Hongbing Cai
Despite improvements in prognosis due to advances in treatment, including surgery, genetic screening, and molecular targeted therapy, the outcomes of ovarian cancer (OC) remain unsatisfactory. Internal mRNA modifications are extremely common in eukaryotes; N6-methyladenosine (m6A) alteration has significant effects on mRNA stability and translation, and it is involved in the pathophysiology of numerous
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Deep learning-assisted high-content screening identifies isoliquiritigenin as an inhibitor of DNA double-strand breaks for preventing doxorubicin-induced cardiotoxicity Biol. Direct (IF 5.5) Pub Date : 2023-10-09 Xuechun Chen, Changtong Liu, Hong Zhao, Yigang Zhong, Yizhou Xu, Yi Wang
Anthracyclines including doxorubicin are essential components of many cancer chemotherapy regimens, but their cardiotoxicity severely limits their use. New strategies for treating anthracycline-induced cardiotoxicity (AIC) are still needed. Anthracycline-induced DNA double-strand break (DSB) is the major cause of its cardiotoxicity. However, DSB-based drug screening for AIC has not been performed possibly
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Correction: IPSC derived cardiac fibroblasts of DMD patients show compromised actin microfilaments, metabolic shift and pro-fibrotic phenotype Biol. Direct (IF 5.5) Pub Date : 2023-10-07 Salwa Soussi, Lesia Savchenko, Davide Rovina, Jason S. Iacovoni, Andrea Gottinger, Maxime Vialettes, Josè-Manuel Pioner, Andrea Farini, Sara Mallia, Martina Rabino, Giulio Pompilio, Angelo Parini, Olivier Lairez, Aoife Gowran, Nathalie Pizzinat
Biology Direct (2023) 18:41 https://doi.org/10.1186/s13062-023-00398-2 After publication of this article [1], it was brought to our attention that the author name should be corrected from Maxime Viallettes to Maxime Vialettes. The original publication has been corrected. Soussi, et al. Biol Direct. 2023;18:41. https://doi.org/10.1186/s13062-023-00398-2 Download references Authors and Affiliations National
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Intranasal human-recombinant NGF administration improves outcome in children with post-traumatic unresponsive wakefulness syndrome Biol. Direct (IF 5.5) Pub Date : 2023-10-03 Antonio Gatto, Lavinia Capossela, Giorgio Conti, Gemma Eftimiadi, Serena Ferretti, Luigi Manni, Antonietta Curatola, Benedetta Graglia, Lorenzo Di Sarno, Maria Lucia Calcagni, Daniela Di Giuda, Stefano Cecere, Domenico Marco Romeo, Marzia Soligo, Enzo Picconi, Marco Piastra, Giacomo Della Marca, Susanna Staccioli, Antonio Ruggiero, Fabrizio Cocciolillo, Silvia Pulitanò, Antonio Chiaretti
Severe traumatic brain injury (TBI) is one of the most dramatic events in pediatric age and, despite advanced neuro-intensive care, the survival rate of these patients remains low. Children suffering from severe TBI show long-term sequelae, more pronounced in behavioral, neurological and neuropsychological functions leading to, in the most severe cases, an unresponsive wakefulness syndrome (UWS). Currently
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Depletion of LONP2 unmasks differential requirements for peroxisomal function between cell types and in cholesterol metabolism Biol. Direct (IF 5.5) Pub Date : 2023-09-22 Akihiro Yamashita, Olesia Ignatenko, Mai Nguyen, Raphaëlle Lambert, Kathleen Watt, Caroline Daneault, Isabelle Robillard-Frayne, Ivan Topisirovic, Christine Des Rosiers, Heidi M. McBride
Peroxisomes play a central role in tuning metabolic and signaling programs in a tissue- and cell-type-specific manner. However, the mechanisms by which the status of peroxisomes is communicated and integrated into cellular signaling pathways are not yet understood. Herein, we report the cellular responses to peroxisomal proteotoxic stress upon silencing the peroxisomal protease/chaperone LONP2. Depletion
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Nitric oxide-dependent immunosuppressive function of thymus-derived mesenchymal stromal/stem cells Biol. Direct (IF 5.5) Pub Date : 2023-09-18 Xiao Su, Xiaolei Li, Shiqing Wang, Xiaotong Xue, Rui Liu, Xiaojing Bai, Pixia Gong, Chao Feng, Lijuan Cao, Tingting Wang, Yayun Ding, Junjie Jiang, Yongjing Chen, Yufang Shi, Changshun Shao
The thymus is required for T cell development and the formation of the adaptive immunity. Stromal cells, which include thymic epithelial cells (TECs) and mesenchymal stromal cells (MSCs), are essential for thymic function. However, the immunomodulatory function of thymus-derived MSCs (T-MSCs) has not been fully explored. MSCs were isolated from mouse thymus and their general characteristics including
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Biological roles of RNA m7G modification and its implications in cancer Biol. Direct (IF 5.5) Pub Date : 2023-09-14 Xin Zhang, Wen-Yan Zhu, Shu-Yi Shen, Jia-Hao Shen, Xiao-Dong Chen
M7G modification, known as one of the common post-transcriptional modifications of RNA, is present in many different types of RNAs. With the accurate identification of m7G modifications within RNAs, their functional roles in the regulation of gene expression and different physiological functions have been revealed. In addition, there is growing evidence that m7G modifications are crucial in the emergence
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Preliminary insights into RNA in CSF of pediatric SMA patients after 6 months of nusinersen Biol. Direct (IF 5.5) Pub Date : 2023-09-13 M. Garofalo, S. Bonanno, S. Marcuzzo, C. Pandini, E. Scarian, F. Dragoni, R. Di Gerlando, M. Bordoni, S. Parravicini, C. Gellera, R. Masson, C. Dosi, R. Zanin, O. Pansarasa, C. Cereda, A. Berardinelli, S. Gagliardi
Spinal muscular atrophy (SMA) is a rare autosomal-recessive neurodegenerative disorder caused by mutations in survival motor neuron 1 (SMN1) gene, and consequent loss of function of SMN protein, which results in progressive loss of lower motor neurons, and muscular wasting. Antisense oligonucleotide (ASO) nusinersen (Spinraza®) modulates the pre–mRNA splicing of the SMN2 gene, allowing rebalance of
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ILC1-derived IFN-γ regulates macrophage activation in colon cancer Biol. Direct (IF 5.5) Pub Date : 2023-09-07 Yangon Zhang, Shu Ma, Tie Li, Yu Tian, Huangao Zhou, Hongsheng Wang, Lan Huang
Tumor-associated macrophages (TAMs) are an important subset of innate immune cells in the tumor microenvironment, and they are pivotal regulators of tumor-promoting inflammation and tumor progression. Evidence has proven that TAM numbers are substantially increased in cancers, and most of these TAMs are polarized toward the alternatively activated M2 phenotype; Thus, these TAMs strongly promote the
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Total network controllability analysis discovers explainable drugs for Covid-19 treatment Biol. Direct (IF 5.5) Pub Date : 2023-09-05 Xinru Wei, Chunyu Pan, Xizhe Zhang, Weixiong Zhang
The active pursuit of network medicine for drug repurposing, particularly for combating Covid-19, has stimulated interest in the concept of structural controllability in cellular networks. We sought to extend this theory, focusing on the defense rather than control of the cell against viral infections. Accordingly, we extended structural controllability to total structural controllability and introduced
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Perilipin 5 deficiency aggravates cardiac hypertrophy by stimulating lactate production in leptin-deficient mice Biol. Direct (IF 5.5) Pub Date : 2023-09-04 Lele Jian, Xing Gao, Chao Wang, Xiao Sun, Yuqiao Xu, Ruili Han, Yuying Wang, Shenhui Xu, Lan Ding, Jingjun Zhou, Yu Gu, Yuanlin Zhao, Ying Yang, Yuan Yuan, Jing Ye, Lijun Zhang
Perilipin 5 (Plin5) is well known to maintain the stability of intracellular lipid droplets (LDs) and regulate fatty acid metabolism in oxidative tissues. It is highly expressed in the heart, but its roles have yet to be fully elucidated. Plin5-deficient mice and Plin5/leptin-double-knockout mice were produced, and their histological structures and myocardial functions were observed. Critical proteins
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METTL3-induced lncRNA GBAP1 promotes hepatocellular carcinoma progression by activating BMP/SMAD pathway Biol. Direct (IF 5.5) Pub Date : 2023-09-01 Runkun Liu, Guozhi Yin, Hang Tuo, Yixian Guo, Yifeng Zhu, Lei Zhang, Wei Yang, Qingguang Liu, Yufeng Wang
Hepatocellular carcinoma (HCC) is one of the most common and challenging cancers in the world. N6-methyladenosine (m6A) modification and long non-coding RNAs (lncRNAs) play critical roles in the progression of HCC. However, there are few reports on genome-wide screening and functional annotations of m6A-methylated lncRNAs in HCC. The expression levels of m6A methyltransferase METTL3 and the association
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Opening of Cx43-formed hemichannels mediates the Ca2+ signaling associated with endothelial cell migration Biol. Direct (IF 5.5) Pub Date : 2023-08-28 Hilda Espinoza, Xavier F. Figueroa
Endothelial cell migration is a key process in angiogenesis. Progress of endothelial cell migration is orchestrated by coordinated generation of Ca2+ signals through a mechanism organized in caveolar microdomains. Connexins (Cx) play a central role in coordination of endothelial cell function, directly by cell-to-cell communication via gap junction and, indirectly, by the release of autocrine/paracrine
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CircRNA_15430 reduced by Helicobacter pylori infection and suppressed gastric cancer progression via miR-382-5p/ZCCHC14 axis Biol. Direct (IF 5.5) Pub Date : 2023-08-25 Yun Liu, Jia Cao, Qi Yang, Linqi Zhu, Wenjun Zhao, Xiuping Wang, Jun Yao, Yong Zhou, Shihe Shao
Helicobacter pylori (H.pylori, HP) is one of the main causes of gastric cancer (GC). CircRNAs have been reported to play a crucial role in developing many types of cancer. However, the role of circRNAs in the development and progression of HP infected-GC has not been studied. The location of circRNA_15430 in GC cells were detected by nuclear and cytoplasmic RNA fractionation and RNA fluorescence in
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Discovery biomarker to optimize obeticholic acid treatment for non-alcoholic fatty liver disease Biol. Direct (IF 5.5) Pub Date : 2023-08-25 Seung Min Lee, Dae Won Jun, Eileen Laurel Yoon, Ju Hee Oh, Yoon Jin Roh, Eun Jeoung Lee, Ji-Hee Shin, Young-Do Nam, Hyun Sung Kim
The response rate to obeticholic acid (OCA), a potential therapeutic agent for non-alcoholic fatty liver disease, is limited. This study demonstrated that upregulation of the alternative bile acid synthesis pathway increases the OCA treatment response rate. The hepatic transcriptome and bile acid metabolite profile analyses revealed that the alternative bile acid synthesis pathway (Cyp7b1 and muricholic