Single or Multiple Gene Silencing Directed by U6 Promoter-Based shRNA Vectors Facilitates Efficient Functional Genome Analysis in Medicago truncatula

2013 ◽  
Vol 31 (4) ◽  
pp. 963-977 ◽  
Author(s):  
Goon-Bo Kim ◽  
Ju-Hee Bae ◽  
Chung Sun An ◽  
Young-Woo Nam
Biomaterials ◽  
2013 ◽  
Vol 34 (28) ◽  
pp. 6930-6937 ◽  
Author(s):  
Zi-Xian Liao ◽  
Chun-Wen Hsiao ◽  
Yi-Cheng Ho ◽  
Hsin-Lung Chen ◽  
Hsing-Wen Sung

2019 ◽  
Vol 4 ◽  
pp. 13-20
Author(s):  
Vinod Rajendran ◽  
Sudha S. Deo

Context: Chronic myeloid leukemia (CML) is characterized by the presence of a fusion oncoprotein BCR-ABL. This mutation imparts a constitutive phosphorylation activity of tyrosine residues in the cellular proteins. One of the targets of BCR-ABL is the STAT5 protein, which when phosphorylated induces gene expression of antiapoptotic proteins such as BCL-XL. The STAT pathway has been targeted in the past by disrupting any one protein only. A multiple gene silencing has never been done in this pathway. Aim: The aim of this study was to compare the effects of downregulation of BCR-ABL, STAT5A, STAT5B, and BCL-XL, individually and simultaneously, in human CML cell line (K562 cells) through RNA interference (RNAi). Further, gene expression, inhibition of proliferation, and apoptosis induction were assessed in K562 cells. Materials and Methods: K562 cells were transfected with various combinations of small iRNA (siRNA) and the expressions of aforesaid genes were determined by reverse transcription-quantitative polymerase chain reaction (RT-qPCR) and western blot analysis. K562 cell proliferation and apoptosis were analyzed using 3-(4,5-Dimethyl-2-thiazolyl)-2,5-diphenyl-2H-tetrazolium bromide and flow cytometry, respectively. The results were compared through one-way analysis of variance. Results: qPCR and western blotting results post-siRNA transfection confirmed the targeted gene suppression and protein reduction in K562 cells. The cell proliferation assay and apoptosis assay revealed that simultaneous gene silencing of BCR-ABL, STAT5A, STAT5B, and BCL-XL had the highest killing effect on K562 cells as compared to knocking down these genes individually or in any other combinations. Conclusions: This was the first time it was shown that multiple gene silencing in STAT pathway in CML cell line K562 was better as compared to individual gene silencing.


2020 ◽  
Vol 85 (2) ◽  
pp. 272-279
Author(s):  
Mengting Gong ◽  
Xi Zhang ◽  
Yaru Wang ◽  
Guiyan Mao ◽  
Yangqi Ou ◽  
...  

ABSTRACT AGO2 is the only member of mammalian Ago protein family that possesses the catalytic activity and plays a central role in gene silencing. Recently researches reported that multiple gene silencing factors, including AGO2, function in the nuclei. The molecular mechanisms of the gene silencing factors functioning in nuclei are conducive to comprehend the roles of gene silencing in pretranslational regulation of gene expression. Here, we report that AGO2 interacts with DDX21 indirectly in an RNA-dependent manner by Co-IP and GST-Pulldown assays and the 2 proteins present nuclei foci in the immunofluorescence experiments. We found that DDX21 up-regulated the protein level of AGO2 and participated in target gene, SNM2, alternative splicing involved in AGO2 by the indirect interaction with AGO2, which produced different transcripts of SMN2 in discrepant expression level. This study laid important experiment foundation for the further analysis of the nuclear functions of gene silencing components.


Cell Reports ◽  
2015 ◽  
Vol 11 (8) ◽  
pp. 1160-1167 ◽  
Author(s):  
Zhimin Zheng ◽  
Hasi Yu ◽  
Daisuke Miki ◽  
Dan Jin ◽  
Qingzhu Zhang ◽  
...  

2017 ◽  
Vol 24 (1) ◽  
pp. 1-11 ◽  
Author(s):  
Evelina Gasperskaja ◽  
Vaidutis Kučinskas

Since the  sequence of the  human genome is complete, the  main issue is how to understand the information written in the DNA sequence. Despite numerous genome-wide studies that have already been performed, the challenge to determine the function of genes, gene products, and also their interaction is still open. As changes in the human genome are highly likely to cause pathological conditions, functional analysis is vitally important for human health. For many years there have been a  variety of technologies and tools used in functional genome analysis. However, only in the  past decade there has been rapid revolutionizing progress and improvement in high-throughput methods, which are ranging from traditional real-time polymerase chain reaction to more complex systems, such as next-generation sequencing or mass spectrometry. Furthermore, not only laboratory investigation, but also accurate bioinformatic analysis is required for reliable scientific results. These methods give an opportunity for accurate and comprehensive functional analysis that involves various fields of studies: genomics, epigenomics, proteomics, and interactomics. This is essential for filling the  gaps in the  knowledge about dynamic biological processes at both cellular and organismal level. However, each method has both advantages and limitations that should be taken into account before choosing the right method for particular research in order to ensure successful study. For this reason, the present review paper aims to describe the most frequent and widely-used methods for the comprehensive functional analysis.


Sign in / Sign up

Export Citation Format

Share Document