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MicroRNA expression in the hippocampal CA1 region under deep hypothermic circulatory arrest

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Neural Regeneration Research 2019年第11期14卷 2003-2010页

作者： Xiao-Hua Wang Dong-Xu Yao Xiu-Shu Luan Yu Wang Hai-Xia Liu Bei Liu Yang Liu Lei Zhao Xun-Ming Ji Tian-Long Wang Department of Anesthesiology Xuanwu HospitalCapital Medical UniversityBeijingChina Institute of Geriatrics BeijingChina National Clinical Research Center for Geriatric Disorders BeijingChina Department of Neurosurgery Xuanwu HospitalCapital Medical UniversityBeijingChina Cerebrovascular Research Center Xuanwu HospitalCapital Medical UniversityBeijingChina

Using deep hypothermic circulatory arrest, thoracic aorta diseases and complex heart diseases can be subjected to corrective procedures. However, mechanisms underlying brain protection during deep hypothermic circulatory arrest are unclear. After piglet models underwent 60 minutes of deep hypothermic circulatory arrest at 14°C, expression of microRNAs(miRNAs) was analyzed in the hippocampus by microarray. Subsequently, TargetScan 6.2, RNA22 v2.0, miRWalk 2.0, and miRanda were used to predict potential targets, and gene ontology enrichment analysis was carried out to identify functional pathways involved. Quantitative reverse transcription-polymerase chain reaction was conducted to verify miRNA changes. Deep hypothermic circulatory arrest altered the expression of 35 miRNAs. Twenty-two miRNAs were significantly downregulated and thirteen miRNAs were significantly upregulated in the hippocampus after deep hypothermic circulatory arrest. Six out of eight targets among the differentially expressed miRNAs were enriched for neuronal projection(cyclin dependent kinase, CDK16 and SLC1 A2), central nervous system development(FOXO3, TYRO3, and SLC1 A2), ion transmembrane transporter activity(ATP2 B2 and SLC1 A2), and interleukin-6 receptor binding(IL6 R)– these are the key functional pathways involved in cerebral protection during deep hypothermic circulatory arrest. Quantitative reverse transcription-polymerase chain reaction confirmed the results of microarray analysis. Our experimental results illustrate a new role for transcriptional regulation in deep hypothermic circulatory arrest, and provide significant insight for the development of miRNAs to treat brain injuries. All procedures were approved by the Animal Care Committee of Xuanwu Hospital, Capital Medical University, China on March 1, 2017(approval No. XW-INI-AD2017-0112).

关键词： nerve regeneration cerebral protection deep hypothermic circulatory arrest gene ontology enrichment analysis microRNA hippocampus post-transcriptional expression microarray bioinformatics neural regeneration

Auto-regulatory feedback by RNA-binding proteins

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Journal of Molecular Cell Biology 2019年第10期11卷 930-939页

作者： Michaela Muller-McNicoll Oliver Rossbach Jingyi Hui Jan Medenbach Institute of Cell Biology and Neuroscience Goethe University FrankfurtMax-von-Laue-Strasse 13D-60438 Frankfurt am MainGermany Institute of Biochemistry Justus-Liebig-University GiessenHeinrich-Buff-Ring 17D-35392 GiessenGermany State Key Laboratory of Molecular Biology CAS Center for Excellence in Molecular Cell ScienceShanghai Institute of Biochemistry and Cell BiologyChinese Academy of SciencesShanghai 200031China Institute of Biochemistry I University of RegensburgUniversitaetsstrasse 31D-93053 RegensburgGermany

RNA-binding proteins(RBPs)are key regulators in post-transcriptional control of gene *** that alter their activity or abundance have been implicated in numerous diseases such as neurodegenerative disorders and various types of *** highlights the importance of RBP proteostasis and the necessity to tightly control the expression levels and activities of *** many cases,RBPs engage in an auto-regulatory feedback by directly binding to and influencing the fate oftheirown mRNAs,exerting control over their own *** this feedback control,RBPs employ a variety of mechanisms operating at all levels of posttranscriptional regulation of gene *** we review RBP-mediated autogenous feedback regulation that either serves to maintain protein abundance within a physiological range(by negative feedback)or generates binary,genetic on/off switches important for *** fate decisions(by positive feedback).

关键词： autogenous regulation protein homeostasis RNA-binding proteins post-transcriptional regulation of gene expressi on

Fine-Tuning of MiR528 Accumulation Modulates Flowering Time in Rice

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Molecular Plant 2019年第8期12卷 1103-1113页

作者： Rongxin Yang Pingchuan Li Hailiang Mei Dong Wang Jing Sun Chao Yang Lili Hao Shouyun Cao Chengcai Chu Songnian Hu Xianwei Song Xiaofeng Cao State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing) Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China Key Laboratory of Genome Sciences and Information Beijing Institute of GenomicsChinese Academy of SciencesBeijing 100101China Key Laboratory of Molecular Biology and Gene Engineering in Jiangxi Province College of Life ScienceNanchang UniversityNanchangJiangxi 330031China University of Chinese Academy of Sciences Beijing 100049China Center for Excellence in Molecular Plant Sciences Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China

In plants,microRNA (miRNA) functions in the post-transcriptional repression of target mRNAs have been well ***,the mechanisms regulating the accumulation of miRNAs remain poorly ***,we report that distinct mechanisms regulate accumulation of a monocot-specific miRNA,rice (Oryza sativa) *** the transcriptional level,miR528 accumulated to higher levels in older plants than in young seedlings and exhibited aging-modulated gradual accumulation and diurnal rhythms in leaves;at the post-transcriptional level,aging also modulated miR528 levels by enhancing pri-miR528 *** *** found that miR528 promotes rice flowering under long-day conditions by targeting RED AND FAR-RED INSENSITIVE2 (OsRFI2).Moreover,natural variations in the MIR528 promoter region caused differences in miR528 expression among rice varieties,which are correlated with their different binding affinities with the transcription factor OsSPL9 that activates the expression of *** together,our findings reveal rice plants have evolved sophisticated modes fine-tuning miR528 levels and provide insight into the mechanisms that regulate MIRNA expression in plants.

关键词： miRNA OsSPL9 Alternative splicing post-transcriptional regulation Natural variation Flowering

AU-rich element-binding proteins in colorectal cancer

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World Journal of Gastrointestinal Oncology 2019年第2期11卷 71-90页

作者： Noémie Legrand Dan A Dixon Cyril Sobolewski Department of Microbiology Faculty of Medicine University of Geneva Department of Molecular Biosciences University of Kansas Lawrence Kansasand University of Kansas Cancer Center Department of Cell Physiology and Metabolism Faculty of MedicineUniversity of Geneva

Trans-acting factors controlling mRNA fate are critical for the post-transcriptional regulation of inflammation-related genes, as well as for oncogene and tumor suppressor expression in human cancers. Among them, a group of RNA-binding proteins called "Adenylate-Uridylate-rich elements binding proteins"(AUBPs)control mRNA stability or translation through their binding to AU-rich elements enriched in the 3'UTRs of inflammation-and cancer-associated mRNA transcripts. AUBPs play a central role in the recruitment of target mRNAs into small cytoplasmic foci called Processing-bodies and stress granules(also known as P-body/SG). Alterations in the expression and activities of AUBPs and Pbody/SG assembly have been observed to occur with colorectal cancer(CRC)progression, indicating the significant role AUBP-dependent post-transcriptional regulation plays in controlling gene expression during CRC ***, these alterations contribute to the pathological expression of many early-response genes involved in prostaglandin biosynthesis and inflammation,along with key oncogenic pathways. In this review, we summarize the current role of these proteins in CRC development. CRC remains a major cause of cancer mortality worldwide and, therefore, targeting these AUBPs to restore efficient post-transcriptional regulation of gene expression may represent an appealing therapeutic strategy.

关键词： Colorectal cancer Adenylate-Uridylate-rich element-binding proteins Oncogenes Tumor suppressors post-transcriptional regulation

MicroRNA rules： Made to be broken

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Frontiers in Biology 2013年第5期8卷 468-474页

作者： P. Shannon PENDERGRAST Tom VOLPE Ymir Genomics 516 Green Street 1A Cambridge MA 02139 USA Department of Cell andMolecular Biology Feinberg School of Medicine Northwestern University 303 East Chicago Avenue Chicago 1L 60611 USA

MicroRNAs （miRNAs） are important post-transcriptional regulators of gene expression. For over a decade the deluge of research describing the biogenesis and activity of miRNAs has lead researchers to postulate rules to help make sense of the enormous amount of data produced. These rules are repeated in miRNA research papers and reviews. While these rules have been helpful one must be conscious of their limitations or risk missing future breakthroughs. Here we describe some of the most commonly stated rules, the reasoning behind their formation, their uses, and limitations.

关键词： microRNA post-transcriptional gene regulation mRNA 3' UTR conservation rule seed pairing rule biogenesis rule mechanism of action rule

Regulator of myeloid differentiation and function:The secret life of Ikaros

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World Journal of Biological Chemistry 2011年第6期2卷 119-125页

作者： Olivia L Francis Jonathon L Payne Kimberly J Payne Department of Pathology and Human Anatomy Center for Health Disparities and Molecular MedicineLoma Linda University School of MedicineMortensen Hall 1st Floor11085 Campus StLoma LindaCA 9350United States Department of Chemistry and Biochemistry La Sierra University4500 Riverwalk ParkwayRiverside CA 92515United States

Ikaros (also known as Lyf-1) was initially described as a lymphoid-specific transcription *** Ikaros has been shown to regulate hematopoietic stem cell renewal,as well as the development and function of cells from multiple hematopoietic lineages,including the myeloid lineage,Ikaros has primarily been studied in context of lymphoid development and *** review focuses on the role of Ikaros in myeloid *** address the importance of post-transcriptional regulation of Ikaros function;the emerging role of Ikaros in myeloid malignancy;Ikaros as a regulator of myeloid differentiation and function;and the selective expression of Ikaros isoform-x in cells with myeloid *** highlight the challenges of dissecting Ikaros function in lineage commitment decisions among lymphoidmyeloid progenitors that have emerged as a major myeloid differentiation pathway in recent studies,which leads to reconstruction of the traditional map of murine and human hematopoiesis.

关键词： Ikaros Myeloid differentiation Lineage commitment Hematopoiesis post-transcriptional regulation post-translational regulation

Expression of Six Chloroplast Genes in <i>Jatropha curcas</i>Callus under Light and Dark Conditions

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American Journal of Plant Sciences 2011年第5期2卷 650-656页

作者： Wilson Thau Lym Yong Cassandra Sze Yii Chew Kenneth Francis Rodrigues Biotechnology Research Institute Universiti Malaysia Sabah

The induction of genes encoded in the open reading frames (ORFs) of chloroplast genomes have been posited to be influenced by ambient light condition. The current study focused on determining which of the six ORFs, encoding the genes ycf 1, ycf 2, psbD (photosystem II), rbcl (Rubisco), matK (Maturase K) and rpoC1 (RNA polymerase) were influenced by light. Characterization of gene expression at the whole plant level and callus stage facilitates the identification of transcripts which are differentially regulated under these environmental conditions. Specificity of these primers was tested against genomic DNA and total RNA. Transcripts of six targeted genes were detected in all three replicates of the green and white callus under light and dark conditions, except for ycf 2 gene in green callus under light. The result showed that a partial transcript of the gene ycf 2 located on the J. curcas chloroplast genome was not detectable using reverse transcription PCR. This finding was then validated using quantitative real-time PCR. The gene was suspected to be post-transcriptionally modified. The transcripts of the remaining five ORFs could be detected using quantitative real-time PCR. Specific transcripts can be identified for application as biomarkers for selection of callus for plantlet regeneration.

关键词： Chloroplast DNA Gene Expression Jatropha curcas post-transcriptional Modification

Reverse engineering microRNA-related regulatory networks

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Reverse engineering microRNA-related regulatory networks