Article
Biotechnology & Applied Microbiology
Lei Luo, Jian-Hua Huang, Dong-Liang Liu, Shi-Gui Jiang, Fa-Lin Zhou, Song Jiang, Qi-Bin Yang, Yun-Dong Li, Tao Li, Li-Qi Tan, Li-Shi Yang
Summary: By analyzing the hepatopancreas transcriptome of Procambarus clarkii under 10°C and 30°C temperature stresses, the study revealed the stress pathways, response pathways, and the impact of high and low temperatures on hemocyte apoptosis and molecular mechanisms of P. clarkii.
Article
Multidisciplinary Sciences
Eleonora Porcu, Marie C. Sadler, Kaido Lepik, Chiara Auwerx, Andrew R. Wood, Antoine Weihs, Maroun S. Bou Sleiman, Diogo M. Ribeiro, Stefania Bandinelli, Toshiko Tanaka, Matthias Nauck, Uwe Volker, Olivier Delaneau, Andres Metspalu, Alexander Teumer, Timothy Frayling, Federico A. Santoni, Alexandre Reymond, Zoltan Kutalik
Summary: Identification of gene expression changes between healthy and diseased individuals can reveal mechanistic insights and biomarkers. The bi-directional transcriptome-wide Mendelian Randomization approach was proposed to assess causal effects between gene expression and complex traits. Comparing transcript levels between healthy and diseased individuals allows for the identification of differentially expressed genes that may be causes, consequences or mere correlates of the disease under scrutiny.
NATURE COMMUNICATIONS
(2021)
Article
Genetics & Heredity
Jie Wang, Meigui Wang, Jiahao Shao, Zheliang Liu, Chong Fu, Guanhe Chen, Kaisen Zhao, Hong Li, Wenqiang Sun, Xianbo Jia, Shiyi Chen, Songjia Lai
Summary: This study investigated the impact of a high-fat diet on lncRNA and miRNA expression in rabbit liver tissues, revealing potential regulatory pathways related to lipid metabolism. The findings provide insights into hepatic steatosis in rabbits and highlight the relevance of CeRNA regulatory networks.
FRONTIERS IN GENETICS
(2022)
Article
Multidisciplinary Sciences
Yanliang Cai, Weitao Hu
Summary: This study identified potential diagnostic and treatment biomarkers for Kawasaki disease using bioinformatics analysis. A total of 269 differentially expressed genes, 9 hub genes, and 3 miRNAs were identified. These genes are involved in the immune and inflammatory responses associated with Kawasaki disease.
SCIENTIFIC REPORTS
(2022)
Article
Forestry
Kaikai Zhu, Lu Wei, Wenjuan Ma, Xiaoli Hu, Juan Zhao, Pengpeng Tan, Hui Liu, Gang Feng, Pinghua Fan, Fangren Peng
Summary: This study analyzed the transcriptome data of pecan trees under drought stress and identified thousands of differentially expressed genes (DEGs) involved in the response to drought. The study also provided insights into the functions of these drought-responsive genes and the molecular basis of pecan's drought stress response.
Article
Cell Biology
Yongxin Zhang, Wenwei Liu, Wei Feng, Xiaofeng Wang, Tianxiang Lei, Zehong Chen, Wu Song
Summary: This study identified characteristic changes of metabolism-related genes in gastric cancer patients through proteomics and RNA sequencing, providing potential new biomarkers and therapeutic targets for GC. The dysregulation of metabolic genes, including BCAT2, was associated with immune cell infiltration and overall survival time in GC patients. The findings offer comprehensive information to better understand the mechanism underlying GC metastasis and explore potential targets for therapeutic and prognostic purposes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Medicine, Research & Experimental
Guanyi Wang, Yibin Jia, Yuqin Ye, Enming Kang, Huijun Chen, Jiayou Wang, Xiaosheng He
Summary: Through methods like WGCNA analysis, key hub genes for EPN-PF were identified, indicating their involvement in multiple important cellular signaling pathways that may impact patient prognosis.
JOURNAL OF TRANSLATIONAL MEDICINE
(2021)
Article
Pharmacology & Pharmacy
Xiaoxiao Xue, Jiayu Yu, Cheng Li, Fang Wang, Yatao Guo, Yongwen Li, Huijuan Shi
Summary: This study aimed to explore the genes and pathways involved in the therapeutic effects of oxymatrine on psoriasis. The results showed that oxymatrine can alter the abnormal expression of certain genes and pathways in psoriasis patients, and multi-pathway and multi-target therapy can effectively treat psoriasis.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Agriculture, Dairy & Animal Science
Wenqian Jia, Lei Wu, Zhong Zhuang, Minghong Xu, Yijia Lu, Zhixiu Wang, Hao Bai, Guohong Chen, Guobin Chang, Yong Jiang
Summary: This study investigated the molecular mechanism of threonine regulation on breast muscle development in Pekin ducks. The results showed that threonine intake level affected body weight and breast fiber size in Pekin ducks, and regulated the expression of many genes. This study provides new insights into the molecular mechanisms underlying breast muscle development in ducks.
Article
Horticulture
Quan-Hui Li, Shi-Peng Yang, Ya-Nan Yu, Abid Khan, Peng-Long Feng, Muhammad Ali, Deng-kui Shao, Ya-Yi Wang, Rui-Xing Zhang, Wen-Xian Gai, Rui Han, Xiao Ma, Quan-Gang Hou, Zhen-Hui Gong
Summary: The color formation of red and orange pepper fruits is closely related to the composition and content of carotenoids, with significantly higher levels of zeaxanthin, beta-cryptoxanthin, beta-carotene, and capsanthin found in red peppers compared to orange peppers, and higher levels of lutein in orange peppers compared to red peppers. Differentially expressed genes (DEGs) were identified to be involved in the biosynthesis of carotenoids, phenylpropanoids, flavonoids, and phenylalanine metabolism. Key genes such as CHYB1 and CCS were found to play significant roles in carotenoid biosynthesis during fruit development. Additionally, transcription factors such as F-box protein SKIP23, GATA transcription factor 26, and others may be involved in the regulation of carotenoid metabolism pathway in pepper fruit color formation.
SCIENTIA HORTICULTURAE
(2021)
Article
Agricultural Engineering
Haiying Lei, Tianzeng Niu, Huifang Song, Bianxia Bai, Peng Han, Zhijun Wang, Ake Liu
Summary: This study found that the flavonoid content was significantly higher in triennial Sophora flavescens than in biennial plants, with lateral roots having higher flavonoid content than taproots. Through de novo transcriptome data, 92 genes encoding enzymes involved in flavonoid biosynthesis were identified to show differential expression between biennial and triennial S. flavescens. Insights into the molecular mechanism of flavonoid biosynthesis during S. flavescens cultivation were provided through gene sequences and expression resources.
INDUSTRIAL CROPS AND PRODUCTS
(2021)
Article
Plant Sciences
Hua Liu, Yin Jia, Yuhong Chai, Sen Wang, Haixia Chen, Xiumei Zhou, Conglin Huang, Shuang Guo, Dongliang Chen
Summary: In this study, differentially expressed genes between ray and disc florets in chrysanthemum flowers were identified. Important regulatory genes controlling flower development and flowering determination were discovered. Transgenic Arabidopsis thaliana plants with these genes showed earlier flowering time but unaffected petal and stamen development. This study provides insights into the molecular mechanisms of flowering and potential applications in breeding new flower types.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Svetlana Shikhevich, Irina Chadaeva, Bato Khandaev, Rimma Kozhemyakina, Karina Zolotareva, Anna Kazachek, Dmitry Oshchepkov, Anton Bogomolov, Natalya V. Klimova, Vladimir A. Ivanisenko, Pavel Demenkov, Zakhar Mustafin, Arcady Markel, Ludmila Savinkova, Nikolay A. Kolchanov, Vladimir Kozlov, Mikhail Ponomarenko
Summary: Mainstream transcriptome profiling of susceptibility versus resistance to age-related diseases (ARDs) focuses on differentially expressed genes (DEGs) specific to gender, age, and pathogeneses. In this study, the periaqueductal gray (PAG) transcriptome of tame versus aggressive rats was sequenced and compared with known ARD-linked DEGs in animals. The analysis revealed significant correlations between behavior-related DEGs and ARD-susceptibility-related DEGs. With human ARD susceptibility and resistance DEGs as controls, a common molecular marker for ARDs was identified: excess expression of Fc gamma receptor IIb suppressing immune cell hyperactivation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Obstetrics & Gynecology
Ashley W. Tiegs, Shiny Titus, Sameet Mehta, Rolando Garcia-Milian, Emre Seli, Richard T. Scott
Summary: The study found differential gene expression in cumulus cells from monosomy 21 and trisomy 21 embryos compared to euploid cumulus cells, with certain genes implicated in embryo developmental competence being differentially expressed in both conditions. Additionally, ingenuity pathway analysis showed that cell-cell contact function is affected in both monosomy and trisomy 21 cumulus cells, supporting the use of cumulus cell gene expression analysis as a potential tool for evaluating oocyte quality.
REPRODUCTIVE BIOMEDICINE ONLINE
(2021)
Article
Plant Sciences
Shiqi Liu, Xuqian Peng, Xiaojing Wang, Weibing Zhuang
Summary: In this study, the effects of heavy metals cadmium and arsenic on tea plants were investigated. Transcriptomic analysis of tea roots revealed candidate genes involved in tolerance and accumulation of cadmium and arsenic. The results identified potential genes that may play important roles in enhancing tolerance to cadmium and arsenic stresses, providing potential targets for genetic engineering to improve multi-metal tolerance.
Article
Genetics & Heredity
Xiangge Meng, Chengping Li, Yu Hei, Xiang Zhou, Guoli Zhou
Summary: The study used IVT-SAPAS sequencing to analyze the dynamic changes of APA sites during adipogenesis in bovine subcutaneous preadipocytes and intramuscular preadipocytes. The results showed that APA plays an important role in adipocyte differentiation, and UTR-APA switching genes have different trends, with intramuscular preadipocytes tending to use shorter 3'UTR for differentiation. TRIB3, WWTR1, and INSIG1 play important roles in intramuscular preadipocyte differentiation.
Article
Genetics & Heredity
S. Alizadeh, S. Khamse, N. Tajeddin, H. R. Khorram Khorshid, A. Delbari, M. Ohadi
Summary: This study identifies a specific genotype at a CG-rich trinucleotide short tandem repeat (STR) locus that is associated with late-onset neurocognitive disorders such as Alzheimer's disease (AD).
Article
Genetics & Heredity
Shougang Liu, Zhe Zhuang, Fanghua Liu, Xiuqing Yuan, Zeqiao Zhang, Xiaoqian Liang, Xinhui Li, Yongfeng Chen
Summary: This study investigated the effect and mechanism of RPL9 and TIFA in scalp psoriasis, and identified RPL9 as a potential therapeutic target for scalp psoriasis.
Article
Genetics & Heredity
Shiting Wang, Jiaqi Chen, Zhichao Jin, Ying Xing, Ruiping Wang
Summary: This study suggests a causal association between hair color and skin cancers, with light hair colors (red, blonde, and light brown) being associated with an increased risk and dark brown hair being associated with a decreased risk.
Article
Genetics & Heredity
Joseph Hawadak, Loick Pradel Kojom Foko, Rodrigue Roman Dongang Nana, Karmveer Yadav, Veena Pande, Aparup Das, Vineeta Singh
Summary: This study investigates the genetic diversity and natural selection of the Pfama-1 gene in Plasmodium falciparum isolates from Cameroon. The study finds a considerable nucleotide and haplotype diversity, as well as specific mutations in Cameroonian isolates. Positive diversifying selection and the identification of selected codon sites suggest the potential implication of these genetic variations in host immune pressure and parasite-binding complex modulation. The findings provide valuable baseline data for malaria vaccine design.
Article
Genetics & Heredity
Emily Biernat, Mansi Verma, Chhabi K. Govind
Summary: RSC is an essential ATP-dependent chromatin remodeling complex in Saccharomyces cerevisiae. It regulates nucleosome-depleted regions (NDRs) by sliding flanking nucleosomes away from NDRs. Depletion of RSC leads to nucleosome encroachment in NDRs and transcription initiation defects. The study compared the effects of catalytic-dead Sth1 and rapid depletion of Sth1 on transcription. Rapid depletion of Sth1 reduces recruitment of TBP and Pol II, while the catalytic-dead mutant exhibits a severe reduction in TBP binding but accumulates Pol II in coding regions. The results suggest a role for RSC in transcription elongation and termination processes.
Article
Genetics & Heredity
Yunxiao Wei, Yuhan Song, Muhammad Aamir Khan, Chengzhen Liang, Zhigang Meng, Yuan Wang, Sandui Guo, Rui Zhang
Summary: This study analyzed the GhTPP protein family in upland cotton for the first time and identified the important role of GhTPPA_2 in regulating sugar metabolism, improving soluble sugar accumulation, and drought stress tolerance.
Article
Genetics & Heredity
Yannan Geng, Rui Shao, Tiantong Xu, Lilong Zhang
Summary: A novel risk model based on SCUBE3, TNNC1, SPON1, SEPT12 and ULBP1 genes was developed for predicting PMOP risk, with higher risk score indicating higher risk of suffering from PMOP. Significant differences in signaling pathway activities were observed between the high-risk score group and the low-risk score group.
Article
Genetics & Heredity
Randy P. Williams, Corina Lesseur, Haoxiang Cheng, Qian Li, Maya Deyssenroth, Christopher D. Molteno, Ernesta M. Meintjes, Sandra W. Jacobson, Joseph L. Jacobson, Helen Wainwright, Ke Hao, Jia Chen, R. Colin Carter
Summary: The study suggests that heavy alcohol exposure during pregnancy may impact the proportion of fetal placental villi macrophages and increase the expression of inflammatory genes. Further research is needed to explore these effects and evaluate the potential functional roles of placental inflammation in FASD.
Article
Genetics & Heredity
Lvjing Luo, Lishuang Sun, Shu Li, Huiting Liu, Zhengyu Chen, Shi Huang, Yinyin Mo, Genliang Li
Summary: This study analyzed the expression of Ptpn1 and miR-124-3p in testicular tissues of mice and investigated their regulatory relationship. The results showed that Ptpn1 expression was up-regulated in adult mouse testis compared to juvenile mouse testis, while miR-124-3p expression showed an opposite pattern. Further analysis suggested that the down-regulation of miR-124-3p may contribute to the high expression of Ptpn1 in adult mouse testis.
Article
Genetics & Heredity
Gairui Li, Dan Zhao, Xiaolin Peng, Yashuang Zhao
Summary: MiRNA-22 shows potential as a candidate for early diagnosis of colorectal cancer (CRC). The study found higher miR-22 expression levels in the CRC and CRA groups, suggesting its potential as a biomarker for CRC early screening.
Article
Genetics & Heredity
Zhongqiu Zhu, Qianting Yang, Xiaoying Tian, Da Man, Jian Wang, Junfang Zhang, Bingshe Han
Summary: This study constructed a ceRNA network mediated by lncRNAs in cold-acclimated zebrafish ZF4 cells and revealed that upregulation of MSTRG3207 promotes apoptosis by sponging dre-miR-736 during cold acclimation.
Article
Genetics & Heredity
Weitao Chen, Denggao Xiang, Shang Gao, Shuli Zhu, Zhi Wu, Yuefei Li, Jie Li
Summary: Dam construction has negatively impacted the genetic diversity and structure of fish populations. This case study on the endangered Hemibagrus guttatus found low genetic diversity, high levels of inbreeding, and decreasing population size in fragmented populations. Genetic structure and differentiation were also observed, indicating the influence of dams on these fish populations.
Article
Genetics & Heredity
Pooja Singh, Debleena Guin, Bijay Pattnaik, Ritushree Kukreti
Summary: Through systematic literature review and meta-analysis, it was found that idiopathic pulmonary fibrosis is significantly associated with 222 polymorphisms in 118 genes. Four polymorphisms - rs35705950/MUC5B, rs2736100/TERT, rs2076295/DSP, and rs111521887/TOLLIP, exhibited substantial epidemiological evidence supporting their association with IPF risk.
Article
Genetics & Heredity
Jianping Zhang, Zhijun Cai, Fanzhe Feng, Yufeng Peng, Yi Cui, Yongiqing Xu
Summary: This study found that exosomes secreted by young BMSCs can promote the healing of tendon-bone interface after rotator cuff tears. These exosomes can improve extracellular matrix remodeling, osteogenic differentiation, angiogenesis, and stemness of tendon-derived stem cells (TDSCs). The exosomes from young BMSCs have better effects compared to those from aged BMSCs.
