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Ribozyme and the mechanisms that underlie RNA catalysis

Timothy J. Wilson,Yijin Liu,David M. J. Lilley

Frontiers of Chemical Science and Engineering 2016, Volume 10, Issue 2,   Pages 178-185 doi: 10.1007/s11705-016-1558-2

Abstract: Ribozymes are widespread, and catalyze some extremely important reactions in the cell. Mechanistically most fall into one of two classes, using either metal ions or general acid-base catalysis. The nucleolytic ribozymes fall into the latter class, mostly using nucleobases. A sub-set of these use a combination of guanine base plus adenine acid to catalyze the cleavage reaction. New ribozymes are still being discovered at regular intervals and we can speculate on the potential existence of ribozymes that catalyze chemistry beyond phosphoryl transfer reactions, perhaps using small-molecule coenzymes.

Keywords： RNA catalysis     RNA structure     catalytic mechanism    

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Anti RNA Viruses Related Biomaterials

Yao Kangde,Yin Yuji,Zhang Baolian,Zhao Liguo

Strategic Study of CAE 2003, Volume 5, Issue 7,   Pages 17-23

Abstract:

The structure, reproduction, replication and transcription of RNA viruses were introduced.Antivirus strategies including design of anti - SARS drugs, RNA interference, DNA vaccine delivery systemThese examples imply the interactions of RNA viruses with proteins, DNA, and polysaccharides.

Keywords： Anti-RNA viruses     protein     DNA     polysaccharide     biomaterials    

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RNA-Based Biocontrols—A New Paradigm in Crop Protection Review

Matthew Bramlett, Geert Plaetinck, Peter Maienfisch

Engineering 2020, Volume 6, Issue 5,   Pages 522-527 doi: 10.1016/j.eng.2019.09.008

Abstract: Over the last years, the RNA interference (RNAi) process has been identified as a very promising newRNA-based active ingredients (AIs) possess a unique mode of action and can be implemented via both geneticRNA-based AIs promise to deliver the selectivity and sustainability desired in future crop protectionresearch progress toward RNA-based biocontrols against the Colorado potato beetle (CPB), corn rootwormMany challenges still exist on the road to the implementation of a broad range of RNA-based products

Keywords： RNA-based biocontrols     RNA interference (RNAi)     Colorado potato beetle (CPB)     Corn rootworm (CRW)     Soy    

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Knockdown of a Specific Circular Non-coding RNA Significantly Suppresses Osteosarcoma Progression Article

Shidong Wang, Hongliang Zhang, Bo Li, Chenglong Chen, Tingting Ren, Yi Huang, Kai Liu, Jingjing Li, Wei Guo

Engineering 2023, Volume 21, Issue 2,   Pages 187-193 doi: 10.1016/j.eng.2021.12.007

Abstract:

Osteosarcoma (OS) is a malignant mesenchymal tissue tumor known to occur in children and adolescents, and pulmonary metastasis often leads to death in these patients. The mechanism underlying OS progression remains unclear. Therefore, identifying new therapeutic targets and treatment modalities for OS is urgently needed. Abnormally expressed non-coding circular RNAs (circRNAs) are crucial for the occurrence and development of OS. The purpose of this study was to explore the expression and role of a novel circRNA circ_000203 in OS and elucidate the underlying mechanism. circ_000203 was demonstrated highly expressed in OS cell lines and tissues, and circ_000203 knockdown significantly inhibited OS progression in vitro and in vivo. Furthermore, we found that circ_000203 is a sponge of miR-26b-5p, an upstream regulator of bone morphogenetic protein receptor 2 (BMPR2). Thus, the overexpression of BMPR2 could reduce the inhibitory effect on OS progression. This indicates that knockdown of circ_000203 suppresses OS progression through microRNA (miRNA)-mediated BMPR2 downregulation. Our findings provide important insights for understanding the occurrence and development of OS. 

Keywords： Non-coding RNA     Osteosarcoma     CircRNA     Molecular mechanism     Knockdown    

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Blockage of receptor-interacting protein 2 expression by small interfering RNA in murine macrophages

LIU Hongchun, CAO Zhongwei, JIN Jianjun, WANG Jiyao

Frontiers of Medicine 2008, Volume 2, Issue 2,   Pages 166-170 doi: 10.1007/s11684-008-0030-1

Abstract: Murine Rip2 small interfering RNA (siRNA) plasmids were constructed and transfected into macrophage and
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Overexpressed long noncoding RNA CRNDE with distinct alternatively spliced isoforms in multiple cancers

Xuefei Ma, Wei Zhang, Rong Zhang, Jingming Li, Shufen Li, Yunlin Ma, Wen Jin, Kankan Wang

Frontiers of Medicine 2019, Volume 13, Issue 3,   Pages 330-343 doi: 10.1007/s11684-017-0557-0

Abstract: CRNDE is a long noncoding RNA with alternative splicing and is implicated in the pathogenesis of several

Keywords： long noncoding RNA     CRNDE     alternative splicing    

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Potential use of serum HBV RNA in antiviral therapy for chronic hepatitis B in the era of nucleos(t)ide

Fengmin Lu, Jie Wang, Xiangmei Chen, Dongping Xu, Ningshao Xia

Frontiers of Medicine 2017, Volume 11, Issue 4,   Pages 502-508 doi: 10.1007/s11684-017-0590-z

Abstract: In this review, the RNA virion-like particles of hepatitis B virus (HBV) are integrated into the lifecycle of HBV replication, and the potential significance of serum HBV RNA is systematically describedThe production of HBV RNA virion-like particles should not be blocked by NA; in this regard, serum HBV, with pregenomic RNA origination, can only be transcribed from cccDNA.The clinical status of consistent loss of serum HBV RNA accompanied with low serum HBsAg levels might

Keywords： chronic hepatitis B     serum HBV RNA     nucleos(t)ide analogs     virological response     para-functional cure    

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immune escape and microenvironment between RG-like and pri-OPC-like glioma revealed by single-cell RNA-seq

Frontiers of Medicine doi: 10.1007/s11684-023-1017-7

Abstract: By conducting single-cell RNA-seq analyses on 26 gliomas, we reported their classification into primitive

Keywords： single-cell RNA-seq     glioma     radial glia     primitive oligodendrocyte precursor cell     immune escape    

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Construction and identification of lentiviral RNA interference vector of rat leptin receptor gene

Zhengjuan LIU, Jie BIAN, Yuchuan WANG, Yongli ZHAO, Dong YAN, Xiaoxia WANG

Frontiers of Medicine 2009, Volume 3, Issue 1,   Pages 57-60 doi: 10.1007/s11684-009-0003-z

Abstract: The aim of the present study was to construct the lentiviral RNA interference (RNAi) vector of rat OBRb

Keywords： receptors     leptin     RNA interference     lentivirus vector    

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RNA m6A modification and its function in diseases

Jiyu Tong, Richard A. Flavell, Hua-Bing Li

Frontiers of Medicine 2018, Volume 12, Issue 4,   Pages 481-489 doi: 10.1007/s11684-018-0654-8

Abstract:

N6-methyladenosine (m6A) is the most common post-transcriptional RNAmodification throughout the transcriptome, affecting fundamental aspects of RNA metabolism. m6

Keywords： RNA modification     m6A     immunity     cancer     epigenetics    

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Innate immune responses in RNA viral infection

Qian Xu, Yuting Tang, Gang Huang

Frontiers of Medicine 2021, Volume 15, Issue 3,   Pages 333-346 doi: 10.1007/s11684-020-0776-7

Abstract: RNA viruses cause a multitude of human diseases, including several pandemic events in the past centuryIn this review, the current understanding of innate immunity contributing to the restriction of RNA viralThis knowledge provides an enhanced understanding of the innate immune response to RNA viral infections

Keywords： innate immune     viral infection     intercellular signaling     metabolic changes     epigenetic changes    

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Transcriptome analysis of wheat grain using RNA-Seq

Liu WEI,Zhihui WU,Yufeng ZHANG,Dandan GUO,Yuzhou XU,Weixia CHEN,Haiying ZHOU,Mingshan YOU,Baoyun LI

Frontiers of Agricultural Science and Engineering 2014, Volume 1, Issue 3,   Pages 214-222 doi: 10.15302/J-FASE-2014024

Abstract: With the increase in consumer demand, wheat grain quality improvement has become a focus in China and worldwide. Transcriptome analysis is a powerful approach to research grain traits and elucidate their genetic regulation. In this study, two cDNA libraries from the developing grain and leaf-stem components of bread wheat cultivar, Nongda211, were sequenced using Roche/454 technology. There were 1061274 and 1516564 clean reads generated from grain and leaf-stem, respectively. A total of 61393 high-quality unigenes were obtained with an average length of 1456 bp after assembly. The analysis of the 61393 unigenes involved in the biological processes of the grain showed that there were 7355 differentially expressed genes upregulated in the grain library. Gene ontology enrichment and the Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that many transcription products and transcription factors associated with carbohydrate and protein metabolism were abundantly expressed in the grain. These results contribute to excavate genes associated with wheat quality and further study how they interact.

Keywords： transcriptome analysis     wheat grain     differentially expressed genes     enrichment analysis    

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Paternal environmental exposure-induced spermatozoal small noncoding RNA alteration meditates the intergenerational

Frontiers of Medicine 2022, Volume 16, Issue 2,   Pages 176-184 doi: 10.1007/s11684-021-0885-y

Abstract: sperm in response to environmental exposure, and the methodology of microinjection of isolated total RNATherefore, in the future, more studies should focus on the origin of RNA alteration, the target of RNA

Keywords： small noncoding RNAs     epigenetic inheritance     paternal intergenerational inherence     extracellular vesicles    

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Effect on proliferation and apoptosis of T24 cell lines via silencing DNMT1 with RNA interference

ZHANG Shilong, ZENG Fuqing, PENG Shibo, WANG Liang

Frontiers of Medicine 2008, Volume 2, Issue 4,   Pages 374-379 doi: 10.1007/s11684-008-0072-4

Abstract: Expression of DNA methyltransferase 1 (DNMT1), which plays an important role on aberrantly methylated CpG in the promoter regions of tumor suppressor genes (TSGs), is higher in bladder cancer cells than in normal bladder cells. Therefore, its overexpression is closely related to tumor formation. In this study, the eukaryotic vector pshRNA-DNMT1 was constructed and transfected into T24 cells. Levels of DNMT1 mRNA and protein were detected by reverse transcription-polymerase chain reaction (RT-PCR) and western blot. Relative to the blank control at the 24th, 48th and 72nd hour after transfection of pshRNA-DNMT1, the inhibitory rates of DNMT1 mRNA levels in T24 cells were 28.44%, 52.48%, 70.91%, respectively. Those of DNMT1 proteins were 24.27%, 57.79%, and 77.74%, respectively. Proliferation and apoptosis were assayed by MTT and flow cytometry with Annexin-V-FITC/PI staining. The growth inhibition rates of pshRNA-DNMT1 at the 24th, 48th and 72nd hour after transfection of pshRNA-DNMT1 were (4.34 ± 0.76)%, (9.87 ± 1.54)% and (13.78 ± 1.93)%, respectively. There were statistically significant differences between pshRNA-DNMT1 and the control blank at each time points ( < 0.01); 24, 48 and 72 hours after T24 cells were transfected by pshRNA-DNMT1, the apoptosis rates of pshRNA-DNMT1 were (3.87 ± 0.81)%, (8.69 ± 1.23)% and (11.46 ± 1.24)%, respectively ( < 0.01 blank control). Based on this case, our conclusion is that the recombinant plasmid pshRNA-DNMT1 can silence the expression of gene DNMT1 mRNA and protein effectively, and to some extent, it also can inhibit the proliferation of bladder cancer cell and promote the cellular apoptosis.
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Gene silencing efficiency of shRNA expression vectors targeting Cx43

Cuihong ZHENG, Yunxia WU, Guangying HUANG, Wei WANG

Frontiers of Medicine 2009, Volume 3, Issue 2,   Pages 130-135 doi: 10.1007/s11684-009-0030-9

Abstract: In order to further investigate the effect of Cx43 in acupuncture treatment, RNA interference techniquewas used to construct small hairpin RNA (shRNA) expression vectors targeting Cx43 and identify the efficiencyof RNA interference in NIH/3T3 cell lines for further use .

Keywords： RNA interference     connexin 43     small hairpin RNA (shRNA)     acupuncture    

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Title Author Date Type Operation

Ribozyme and the mechanisms that underlie RNA catalysis

Timothy J. Wilson,Yijin Liu,David M. J. Lilley

Journal Article

Anti RNA Viruses Related Biomaterials

Yao Kangde,Yin Yuji,Zhang Baolian,Zhao Liguo

Journal Article

RNA-Based Biocontrols—A New Paradigm in Crop Protection

Matthew Bramlett, Geert Plaetinck, Peter Maienfisch

Journal Article

Knockdown of a Specific Circular Non-coding RNA Significantly Suppresses Osteosarcoma Progression

Shidong Wang, Hongliang Zhang, Bo Li, Chenglong Chen, Tingting Ren, Yi Huang, Kai Liu, Jingjing Li, Wei Guo

Journal Article

Blockage of receptor-interacting protein 2 expression by small interfering RNA in murine macrophages

LIU Hongchun, CAO Zhongwei, JIN Jianjun, WANG Jiyao

Journal Article

Overexpressed long noncoding RNA CRNDE with distinct alternatively spliced isoforms in multiple cancers

Xuefei Ma, Wei Zhang, Rong Zhang, Jingming Li, Shufen Li, Yunlin Ma, Wen Jin, Kankan Wang

Journal Article

Potential use of serum HBV RNA in antiviral therapy for chronic hepatitis B in the era of nucleos(t)ide

Fengmin Lu, Jie Wang, Xiangmei Chen, Dongping Xu, Ningshao Xia

Journal Article

immune escape and microenvironment between RG-like and pri-OPC-like glioma revealed by single-cell RNA-seq

Journal Article

Construction and identification of lentiviral RNA interference vector of rat leptin receptor gene

Zhengjuan LIU, Jie BIAN, Yuchuan WANG, Yongli ZHAO, Dong YAN, Xiaoxia WANG

Journal Article

RNA m6A modification and its function in diseases

Jiyu Tong, Richard A. Flavell, Hua-Bing Li

Journal Article

Innate immune responses in RNA viral infection

Qian Xu, Yuting Tang, Gang Huang

Journal Article

Transcriptome analysis of wheat grain using RNA-Seq

Liu WEI,Zhihui WU,Yufeng ZHANG,Dandan GUO,Yuzhou XU,Weixia CHEN,Haiying ZHOU,Mingshan YOU,Baoyun LI

Journal Article

Paternal environmental exposure-induced spermatozoal small noncoding RNA alteration meditates the intergenerational

Journal Article

Effect on proliferation and apoptosis of T24 cell lines via silencing DNMT1 with RNA interference

ZHANG Shilong, ZENG Fuqing, PENG Shibo, WANG Liang

Journal Article

Gene silencing efficiency of shRNA expression vectors targeting Cx43

Cuihong ZHENG, Yunxia WU, Guangying HUANG, Wei WANG

Journal Article