Article
Green & Sustainable Science & Technology
Jing Xu, Jing Li, Tianpeng Gao
Summary: This study aims to select suitable reference genes for gene expression quantification in E. crassipes and analyze the expression stability of candidate reference genes in different tissue samples, hormone-treated samples, phosphorus-treated samples, and mixed samples. The results suggest that different reference genes should be selected according to the specific experimental setup.
Article
Plant Sciences
Aishuang Hu, Xiuyan Yang, Jianfeng Zhu, Xiuping Wang, Jiaxin Liu, Jiping Wang, Haiwen Wu, Huilong Zhang, Huaxin Zhang
Summary: This study provides a theoretical reference for the standardization and quantification of gene expression in N. sibirica under various abiotic stress conditions, and helps to reveal the molecular mechanisms that confer stress tolerance to N. sibirica.
Article
Plant Sciences
Ragini Sinha, Meenu Bala, Pragya Prabha, Alok Ranjan, Rakesh K. Chahota, Tilak Raj Sharma, Anil Kumar Singh
Summary: The study identified nine candidate reference genes from horse gram RNA-seq data and evaluated their stability in two genotypes under various abiotic stress conditions. TCTP was found to be the most stable gene overall, while profilin was most stable in one genotype and PSMA5 was least stable. TCTP and profilin genes were validated for data normalization in gene expression studies in horse gram.
PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS
(2021)
Article
Biochemistry & Molecular Biology
Ines Medina-Lozano, Maria Soledad Arnedo, Jerome Grimplet, Aurora Diaz
Summary: In this study, six candidate reference genes (ADF2, CYB5, iPGAM, SCL13, TRXL3-3, and VHA-H) with low expression variation were selected for gene expression studies. Their stability was evaluated using qPCR and various analytical tools, and CYB5 was found to be the most stable gene in the leaf colour experiment, while TRXL3-3 was the most stable gene in the tissue and drought stress experiments. These findings provide valuable information for gene expression studies in Lactuca spp. under the specified conditions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Microbiology
Lingning Meng, Xiaoli Cao, Chuchu Li, Jia Li, Hui Xie, Jiping Shi, Mei Han, Han Shen, Chang Liu
Summary: This study tested the stability of ten classic housekeeping genes under the pressure of eight commonly used antibiotics in the laboratory. Results showed that the stability of gene expression was indeed affected by the types of antibiotics added, and the best reference gene set varied for different antibiotics. This study provides a comprehensive summary of the effects of laboratory antibiotics on the stability of housekeeping genes in P. aeruginosa, highlighting the necessity to select housekeeping genes according to the type of antibiotics used in the initial stage of experiment.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Nina Franko, Lucija Ana Vrscaj, Taja Zore, Barbara Ostanek, Janja Marc, Jasna Lojk
Summary: RT-qPCR is the gold standard method for measuring gene expression, and selection of appropriate reference genes for normalization is crucial. This study identified the most stable reference genes during osteogenic differentiation of human osteosarcoma cell lines using statistical algorithms.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Developmental Biology
Gagandeep Singh Brah, Gurmeet Kaur, Satnam Singh, Jayendra Nath Shukla, Suneet Pandher
Summary: This study identified and validated suitable reference genes for different developmental stages of Callosobruchus maculatus, providing useful information for future molecular, physiological, and biochemical studies on this pest and other closely related bruchids.
GENE EXPRESSION PATTERNS
(2022)
Article
Biochemical Research Methods
Yashu Song, Robert H. Hanner, Baozhong Meng
Summary: Researchers have optimized a rapid, safe, and highly effective RNA isolation protocol for recalcitrant berry tissue of wine grapes, while identifying and validating novel reference genes superior to conventional ones for gene expression quantification.
Article
Biochemical Research Methods
Marina Bantula, Ebymar Arismendi, Cesar Picado, Joaquim Mullol, Jordi Roca-Ferrer, Valeria Tubita
Summary: This study analyzed suitable reference genes for studying the role of glucocorticoid-induced genes in obese asthmatic patients. Through gene expression analysis and stability algorithms, the best combination of reference genes was determined, and it was found that certain genes were least affected by treatment. These findings provide important reference for further research on the role of glucocorticoid-induced genes in obese asthmatic patients.
METHODS AND PROTOCOLS
(2022)
Article
Microbiology
Ning Zhao, Junnan Xu, Lingxia Jiao, Mengzhen Qiu, Jie Zhang, Xinyuan Wei, Mingtao Fan
Summary: This study identified new candidate reference genes and determined the optimal multiple reference gene combinations under different acidic conditions.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Sarah Arrowsmith
Summary: This study evaluated the stability of reference genes in pregnant human myometrium and found CYC1, YWHAZ, and ATP5B to be the most stable genes. On the other hand, ACTB, 18s, and B2M were found to be less stable and too variable for accurate normalization.
MOLECULAR BIOLOGY REPORTS
(2021)
Article
Environmental Sciences
Ju Mu, Yu Wang, Miao Wang, Dayi Zhang, Mingying Liu
Summary: This study constructed a mouse model exposed to poly-propylene microplastics (PP-MPs) to evaluate the bioaccumulation of PP-MPs in the kidney and explore potential reference genes using RT-qPCR. The stability and reliability of 19 candidate reference genes were assessed using four algorithms, and the top five most stable genes were determined (Cox4i1, Rps3, Rps9, Rps18, and Gapdh). Three genes associated with different biochemical processes were chosen to verify the identified reference genes, showing different expression profiles and emphasizing the importance of selecting reliable reference genes.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2023)
Article
Multidisciplinary Sciences
Jianfeng Ma, Jingyun Chen, Mailin Gan, Lei Chen, Ye Zhao, Lili Niu, Yan Zhu, Shunhua Zhang, Xuewei Li, Zongyi Guo, Jinyong Wang, Li Zhu, Linyuan Shen
Summary: This study aimed to evaluate the expression stability of commonly used reference genes in mouse skeletal muscle tissue. ACTB, HPRT, and YWHAZ were identified as the most stable reference genes for gene expression normalization in murine skeletal muscle experiments.
Article
Biochemistry & Molecular Biology
Alice Nevone, Francesca Lattarulo, Monica Russo, Giada Panno, Paolo Milani, Marco Basset, Maria Antonietta Avanzini, Giampaolo Merlini, Giovanni Palladini, Mario Nuvolone
Summary: In the next-generation sequencing era, RT-qPCR remains widely used for quantifying nucleic acids due to its popularity, versatility, and cost-effectiveness. However, accurate measurement of transcriptional levels requires appropriate reference genes for normalization. Here, we present a strategy that utilizes publicly available transcriptomic datasets to select suitable reference genes for specific clinical or experimental settings and includes a pipeline for RT-qPCR assay design and validation. We demonstrated the efficacy of this strategy by identifying and validating reference genes for transcriptional studies of bone-marrow plasma cells in AL amyloidosis patients. This strategy can be applied to other settings with publicly available transcriptomic datasets.
Article
Fisheries
Chinmayee Muduli, Gaurav Rathore, Achal Singh, Ranjana Srivastava
Summary: The study evaluated the stability of four commonly used reference genes in different conditions and found that EF-1 alpha was the most stable reference gene in multiple tissues and conditions. These findings will aid in the precise interpretation of relative gene expression in different tissues of C. magur using RT-qPCR.
AQUACULTURE RESEARCH
(2022)
