Article
Agronomy
Chengjie Tu, Pei Xu, Runhua Han, Jing Luo, Letian Xu
Summary: This study assessed the stability of seven commonly used reference genes in Plagiodera versicolora and analyzed their expression under different biotic and abiotic conditions. The results showed that RPS18 and EF1A were the most reliable reference genes in different developmental stages and treatments.
Article
Chemistry, Multidisciplinary
Yajing Wu, Jiao Zhou, Yaning Liu, Yutong Gu, Hongxia Zhang, Faheem Ahmad, Guochang Wang, Lili Ren
Summary: Quantitative reverse transcription polymerase chain reaction (qRT-PCR) is a powerful technique for studying gene expression, but it is important to use stable reference genes under different experimental conditions. In this study, we analyzed the stability of eight candidate reference genes in the pine wood nematode (PWN) across different temperature and developmental stages. We confirmed the stability of two genes and found that EF1 gamma was the most stable gene under different conditions.
APPLIED SCIENCES-BASEL
(2022)
Article
Biochemistry & Molecular Biology
Qiang Ge, Peipei Peng, Mingyue Cheng, Yanjun Meng, Yuan Cao, Shuya Zhang, Yu Long, Gezi Li, Guozhang Kang
Summary: FK506-binding protein (FKBP) genes play important roles in plant development and abiotic stress responses. In this study, 64 FKBP genes were identified in wheat through genome-wide analysis and phylogenetic analysis revealed their evolutionary relationship. TaFKBPs exhibited tissue-specific expression patterns and responded to drought and heat stress. These findings provide valuable information for further understanding the function of FKBPs in plant development and abiotic stress responses, particularly in drought stress.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Physiology
Mengyi Li, Xinan Li, Chao Wang, Qiuchi Li, Saige Zhu, Yunhui Zhang, Xiangrui Li, Fengshan Yang, Xun Zhu
Summary: This study identified suitable qRT-PCR reference gene combinations for R. padi under diverse experimental conditions, improving the accuracy of qRT-PCR analyses and facilitating the standardization of qRT-PCR programs.
FRONTIERS IN PHYSIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Junqin Zong, Jingbo Chen, Ling Li, Jianjian Li, Dandan Li, Jingjing Wang, Jun Liu, Jianxiu Liu
Summary: This study identified suitable reference genes for qRT-PCR in Miscanthus sacchariflorus under different abiotic stresses, providing important reference for gene expression research in this plant.
MOLECULAR BIOLOGY REPORTS
(2022)
Article
Biochemistry & Molecular Biology
G. Ramakrishna, Anupam Singh, Parampreet Kaur, Sunishtha S. Yadav, Sandhya Sharma, Kishor Gaikwad
Summary: A study identified 38 small heat shock proteins (sHSPs) in the pigeonpea genome, which are highly induced by various abiotic stresses and may play a key role in mitigating stress responses.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Article
Biochemistry & Molecular Biology
Mahipal Singh Kesawat, Bhagwat Singh Kherawat, Anupama Singh, Prajjal Dey, Mandakini Kabi, Debanjana Debnath, Debanjana Saha, Ansuman Khandual, Sandeep Rout, Manorama, Asjad Ali, Ramasubba Reddy Palem, Ravi Gupta, Avinash Ashok Kadam, Hyun-Uk Kim, Sang-Min Chung, Manu Kumar
Summary: Brassinosteroids (BRs) are crucial for plant development and response to stresses, but little is known about the BZR gene family in wheat. This study identified 20 TaBZR genes in wheat, classified into five subfamilies with evidence of evolutionary relationships. The TaBZR genes may play important roles in diverse developmental processes and stress conditions, as suggested by RNA-seq and qRT-PCR results.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Genetics & Heredity
Shuran Wang, Sheng Zhang
Summary: The study analyzed nine reference genes in S. ferganica under six different treatments and evaluated their applicability using statistical software. The results showed that selecting two stable reference genes simultaneously would fully standardize the normalization research. Different reference genes exhibited varying stability and applicability under the different treatments, with ACT and U-box showing higher stability overall.
Article
Plant Sciences
Abhishek Singh Chauhan, Madhu Tiwari, Yuvraj Indoliya, Shashank Kumar Mishra, Umesh Chandra Lavania, Puneet Singh Chauhan, Debasis Chakrabarty, Rudra Deo Tripathi
Summary: This study used transcriptome data of vetiver roots to identify reference genes and validated them under various abiotic stresses. The findings of this study are important for identifying suitable reference genes in transcriptomic and molecular data analysis concerning various phenotypes related to abiotic stress and developmental aspects.
PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS
(2023)
Article
Biochemistry & Molecular Biology
Xue Bai, Tao Chen, Yuan Wu, Mingyong Tang, Zeng-Fu Xu
Summary: This study identified a series of reference genes in tiger nut that can serve as internal controls for gene expression studies, providing convenience for qRT-PCR analysis. Among the various tissues, UCE2, UBL5, and Rubisco showed more stable expression patterns, with TUB4 and UCE2 identified as optimal reference genes for tuber development stages.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Yingting Zhang, Jinyu Xue, Lijuan Zhu, Hailiang Hu, Junjie Yang, Jiebing Cui, Jin Xu
Summary: MicroRNA expression analysis is crucial for understanding its functions, and this study focused on identifying stable reference genes for miRNAs in Cryptomeria fortunei. Ten miRNAs and three common RGs were examined under different experimental conditions and tissues, with novel16, cln-miR6725, novel1, and U6 identified as the most stable RGs in C. fortunei. The selected RGs were also validated for miRNA expression normalization in this gymnosperm species.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Physiology
Jinrong Tang, Gemei Liang, Shaoqi Dong, Shuang Shan, Man Zhao, Xianru Guo
Summary: By evaluating the stability of reference genes in Athetis dissimilis under different conditions, suitable reference genes for different experimental conditions can be determined. Different reference genes are needed under different experimental conditions, providing a reliable basis for studying gene expression in A. dissimilis.
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Multidisciplinary Sciences
Min-dong Chen, Bin Wang, Yong-ping Li, Mei-juan Zeng, Jian-ting Liu, Xin-ru Ye, Hai-sheng Zhu, Qing-fang Wen
Summary: This study investigated the selection of reference genes in luffa under various abiotic stresses using qRT-PCR analysis, and validated their stability. EF-1 alpha was identified as the most stable overall reference gene, while UBQ, and TUB were suitable for specific stress treatments. The reliability of the selected reference genes was confirmed by analyzing the expression of a target gene in luffa.
SCIENTIFIC REPORTS
(2021)
Article
Engineering, Biomedical
Qiang Song, Lu Dou, Wenjin Zhang, Yang Peng, Man Huang, Mengyuan Wang
Summary: Novel and reliable RG combinations for breast cancer research were identified using a public RNA-seq dataset, providing a solid foundation for accurate normalization of qRT-PCR results across different breast cancer tissues and cells.
BIOMEDICAL ENGINEERING ONLINE
(2021)
Article
Plant Sciences
Rohit Bharati, Madhab Kumar Sen, Ram Kumar, Aayushi Gupta, Jana Ziarovska, Eloy Fernandez-Cusimamani, Olga Leuner
Summary: This study assessed the suitability of ten commonly used reference genes as optimal reference genes in M. officinalis under different abiotic stress conditions and plant organs. The combination of EF-1 alpha and GAPDH was recommended as the best reference genes for gene expression studies in M. officinalis.
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.