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| 1 | Ribosome profiling analysis identified a KRAS-interacting microprotein that represses oncogenic signaling in hepatocellular carcinoma cells显示文摘The roles of concealed microproteins encoded by long noncoding RNAs(lncRNAs)are gradually being exposed,but their functions in tumorigenesis are still largely unclear.Here,we identify and characterize a conserved 99-amino acid microprotein named KRASIM that is encoded by the putative lncRNA NCBP2-AS2.KRASIM is differentially expressed in normal hepatocytes and hepatocellular carcinoma(HCC)cells and can suppress HCC cell growth and proliferation.Mechanistically,KRASIM interacts and colocalizes with the KRAS protein in the cytoplasm of human HuH-7 hepatoma cells.More importantly,the overexpression of KRASIM decreases the KRAS protein level,leading to the inhibition of ERK signaling activity in HCC cells.These results demonstrate a novel microprotein repressor of the KRAS pathway for the first time and provide new insights into the regulatory mechanisms of oncogenic signaling and HCC therapy. | Wenli Xu Bing Deng Penghui Lin Chang Liu Bin Li Qiaojuan Huang Hui Zhou Jianhua Yang Lianghu Qu | 2020 | Science China(Life Sciences)2020，63，4： | 11 |
| 2 | Cryptotanshinone suppresses key onco-proliferative and drugresistant pathways of chronic myeloid leukemia by targeting STAT5 and STAT3 phosphorylation显示文摘C-Myc and signal transducer and activator of transcription(STAT) family proteins have been proposed to be important downstream genes of BCR-ABL, which characterizes most cases of chronic myeloid leukemia(CML). Here, we report a c-Myc pathway-targeted screening of seven natural anticancer compounds, in which we identified cryptotanshinone as a highly promising agent for CML therapy. Cryptotanshinone depletes c-Myc in CML by repressing the phosphorylation of STAT5.Decreased viability of K562 cells correlated with p-STAT5 suppression. Unexpectedly, imatinib activates rather than inhibits the phosphorylation of STAT3 in K562 cells. We demonstrated that cryptotanshinone, as a dual inhibitor of p-STAT5 and p-STAT3,can effectively block IL-6-mediated STAT3 activation and reverse BCR-ABL kinase-independent drug resistance. Moreover, we showed that the epigenetic rebalance between decreased BCR-ABL/STAT5/c-Myc and enhanced STAT3/multi-drug resistance(MDR) pathways is characteristic of the cancer stem cell-like property of K562/ADR. Simultaneously suppressing these two pathways using cryptotanshinone proves to be critical for the malignant network redress and MDR reversal of K562/ADR. These studies reveal the dual functions of cryptotanshinone that suppress key oncogenic proliferation and drug-resistant pathways in CML cells by targeting p-STAT5 and p-STAT3, providing a new strategy for CML therapy that takes advantage of natural products. | Bowen Dong Zirui Liang Zhirong Chen Bin Li Lingling Zheng Jianhua Yang Hui Zhou Lianghu Qu | 2018 | Science China(Life Sciences)2018，61，9： | 10 |
| 3 | Non-coding RNAs and the acquisition of genomic imprinting in mammals显示文摘Genomic imprinting,representing parent-specific expression of alleles at a locus,is mainly evident in flowering plants and placental mammals.Most imprinted genes,including numerous non-coding RNAs,are located in clusters regulated by imprinting control regions(ICRs).The acquisition and evolution of genomic imprinting is among the most fundamental genetic questions.Discoveries about the transition of mammalian imprinted gene domains from their non-imprinted ancestors,especially recent studies undertaken on the most ancient mammalian clades-the marsupials and monotremes from which model species genomes have recently been sequenced,are of high value.By reviewing and analyzing these studies,a close connection between non-coding RNAs and the acquisition of genomic imprinting in mammals is demonstrated.The evidence comes from two observations accompanied with the acquisition of the imprinting:(i) many novel non-coding RNA genes emerged in imprinted regions;(ii) the expressions of some conserved non-coding RNAs have changed dramatically.Furthermore,a systematical analysis of imprinted snoRNA(small nucleolar RNA) genes from 15 vertebrates suggests that the origination of imprinted snoRNAs occurred after the divergence between eutherians and marsupials,followed by a rapid expansion leading to the fixation of major gene families in the eutherian ancestor prior to the radiation of modern placental mammals.Involved in the regulation of imprinted silencing and mediating the chromatins epigenetic modification may be the major roles that non-coding RNAs play during the acquisition of genomic imprinting in mammals. | ZHANG YiJun & QU LiangHu Key Laboratory of Gene Engineering of the Ministry of Education,State Key Laboratory for Biocontrol,Sun Yan-Sen University,Guangzhou 510275,China | 2009 | Science China(Life Sciences)2009，52，3： | 7 |
| 4 | Computational RNomics:Structure identification and functional prediction of non-coding RNAs in silico显示文摘The eukaryotic genome contains varying numbers of non-coding RNA(ncRNA) genes.'Computational RNomics' takes a multidisciplinary approach,like information science,to resolve the structure and function of ncRNAs.Here,we review the main issues in 'Computational RNomics' of data storage and management,ncRNA gene identification and characterization,ncRNA target identification and functional prediction,and we summarize the main methods and current content of 'computational RNomics'. | ZHENG LingLing & QU LiangHu Key Laboratory of Gene Engineering of the Ministry of Education,State Key Laboratory for Biocontrol,Sun Yat-sen University,Guangzhou 510275,China | 2010 | Science China(Life Sciences)2010，53，5： | 7 |
| 5 | Noncoding RNA:from dark matter to bright star显示文摘The central dogma states that genes encoded in the DNA should be first transcribed into messenger RNA(mRNA)and then translated into functional proteins(Crick,1970).This dogma has been written in numerous textbooks and learned by myriad students.However,along with the completion of the human genome project in June 2000,an astonishing fact was revealed:only 1.5%of the human genome encodes for proteins(Lander et al.,2001;Venter et al.,2001).This fact raised three fundamental questions:(i)why does the human genome have so few protein-coding genes?(ii)how to explain the apparent differences between humans and other species using the limited coding genes?(iii)what are the roles of the noncoding regions in our genome? | Yuanchao Xue Runsheng Chen Lianghu Qu Xiaofeng Cao | 2020 | Science China(Life Sciences)2020，63，4： | 6 |
| 6 | A Helm model for microRNA regulation in cell fate decision and conversion显示文摘microRNAs(miRNAs)constitute a unique class of endogenous small non-coding RNAs that regulate gene expression post-transcriptionally.Studies over the past decade have uncovered a recurring paradigm in which miRNAs are key regulators of cellular behavior under various physiological and pathological conditions.Most surprising is the recent observation that miRNAs have emerged as competent players in somatic cell reprogramming,suggesting an especially significant role for these small RNAs in cell fate settings.Here,we discuss the possible mechanisms underlying miRNA-mediated cell programming(i.e.,the development and differentiation of embryonic stem cells)and reprogramming(i.e.,turning somatic cells into pluripotent stem cells or other lineages),and provide a'Helm'model of miRNAs in cell fate decision and conversion. | XIE ShuJuan ZHANG Yin QU LiangHu XU Hui | 2013 | Science China(Life Sciences)2013，56，10： | 4 |
| 7 | The Function of MicroRNAs in Renal Development and Pathophysiology显示文摘MicroRNAs(miRNAs) are a class of endogenous small non-coding RNAs that modulate diverse biological processes predominantly by translation inhibition or induction of mRNA degradation.They are important regulatory elements involved in renal physiology and pathology.Dysregulation of miRNAs disrupts early kidney development,renal progenitor cell differentiation and the maintenance of mature nephrons.miRNAs are also reported to participate in various renal diseases,including chronic kidney disease,acute kidney injury, allograft acute rejection and renal cell carcinoma.Differentially regulated miRNAs may represent innovative biomarkers for diagnosis and prognosis.Therefore,determining the roles of miRNAs in different types of renal diseases will help to clarify the pathogenesis and facilitate the development of novel therapies. | Liming Ma Lianghu Qu | 2013 | Journal of Genetics and Genomics2013，40，4： | 3 |
| 8 | Identification of three novel noncoding RNAs from Drosophila melanogaster显示文摘三新奇小非编码的 RNA 从 D 的保存 intronicregions 被识别。由使用比较基因组学方法和分子的生物学途径的 melanogaster。Oneis 以一个 combinated 方法的新奇 snoRNA,它 snoRNAfamily 显示典型地代表 C/D 盒子的结构的特征并且为在 C2673 指导 D.melanogaster 28S rRNA 的 2''-O-methylation 拥有一个 10-nt-long rRNA 反感觉元素。另外的二是预言先锋采用已知的 miRNA 的 astem 环结构特征的 miRNAs。二 miRNAs 基因看起来有无所不在的表示侧面, ~ 23-nt RNA 抄本由北弄污检测了。我们的学习 revealed396 多种类 intronic 保存了与长度 from100 在 introns 嵌套到 500 bp 的序列(MCIS ) 。除了编码的小 RNA, MCIS 可能作为涉及基因抄写或 post-transcriptional 处理的 c/s-acting 元素工作。 | HE Hualiang ZHOU Hui XIAO Zhendong ZENG Xianfen CHEN Junyu ZHENG Tao QU Lianghu | 2006 | Chinese Science Bulletin2006，51，22： | 2 |
| 9 | CLIP: viewing the RNA world from an RNA-protein interactome perspective显示文摘The pervasive transcription of the genome creates many types of non-coding RNAs(nc RNAs).However,we know very little regarding the functions and the regulatory mechanisms of these nc RNAs.Exploring the interactions of RNA and RNA binding proteins(RBPs) is vital because it can allow us to truly understand how these nc RNAs behave in vivo.High-throughput sequencing of RNA isolated by cross-linking immunoprecipitation(HITS-CLIP or CLIP-seq) and its variants have been successfully used as systemic techniques to study RBP binding sites.In this review,we will explain the major differences between the CLIP techniques,summarize successful applications of these techniques,discuss limitations of CLIP,present some suggested solutions and project their promising future roles in studying the RNA world. | ZHANG Yin XIE ShuJuan XU Hui QU LiangHu | 2015 | Science China(Life Sciences)2015，58，1： | 2 |
| 10 | Non-coding RNA annotation:Deciphering the second genetic code显示文摘'Why do humans have so few genes?'This is one of the125 most compelling questions that will face scientific inquiry over the next quarter-century,according to the list collected by Science in 2005.As we know from the Human Genome Project,less than 2%of the human genome contains protein-coding genes,while the other 98%is composed of non-protein-coding DNA regions.However, | QU LiangHu | 2013 | Science China(Life Sciences)2013，56，10： | 2 |
| 11 | Characterization of three novel snoRNAs from Schizosaccharomyces pombe implies the structural and functional diversity of box H/ACA snoRNA family显示文摘Site-specific pseudouridylations of rRNAs and snRNAs are directed by small guide RNAs that usually pos-sess conserved H and ACA motifs and the consensus secon-dary structure consisting of hairpin-hinge-hairpin-tail. In this study, through screening cDNA library, three novel box H/ACA snoRNAs, termed SP12, SP16 and SP20, have been identified from fisson yeast Schizosacchromyces pombe. Each of the small RNAs possesses an ACA-like motif and exhibits secondary structures containing two or three large hairpin- like domains. Although the box H is noncanonical, SP20 can be potentially folded into a typical box H/ACA snoRNA-like structure and is predicted to guide two pseudouridylations, U1208 and U1053, on 18S rRNA. In contrast, SP12 and SP16 display different structures from SP20 and have no antisense elements to rRNAs or snRNAs. Obviously, they are new members of orphan guide snoRNAs whose functions remain elusive. The genes encoded for SP12 and SP16 are both lo-cated in long intergenic regions between protein-coding genes. A post-transcriptional processing for SP16 precursor was demonstrated. Interestingly, SP20 gene is nested inside a very hypothetical ORF, but transcribed in a reverse sense. Northern and RT-PCR analyses could not detect the tran-script from the hypothetical ORF, and therefore exclude the expression of the spurious gene. This is the first example that a genetic locus predicted for protein-coding gene actually encodes a small non-messenger RNA in S. pombe. | QU Guosheng, ZHOU Hui, YU Chuanhe, CHEN Xiao & QU Lianghu Key Laboratory of Gene Engineering of the Ministry of Education, Bio-technology Research Center, Zhongshan University, Guangzhou 510275, China Correspondence should be addressed to Qu Lianghu (e-mail: lsbrc04@ zsu.edu.cn) | 2003 | Chinese Science Bulletin2003，48，21： | 2 |
| 12 | Identification and functional analysis of 23 novel box C/D snoRNAs from Oryza sativa显示文摘 | ZHUO Min, ZHOU Hui, HUANG Zhanpeng, LIANG Dan, CHEN Chunlong, CHEN Yueqin & QU Lianghu Key Laboratory of Gene Engineering of the Ministry of Education, Biotechnology Research Center, Zhongshan University, Guangzhou 510275, China | 2003 | Chinese Science Bulletin2003，48，19： | 2 |
| 13 | Identification and functional analysis of a novel box C/D snoRNA from Schizosaccharomyces pombe显示文摘By constructing and screening the Schizosac-charomyces pombe nuclear cDNA library, a novel small nu-cleolar RNAs (snoRNA) was identified. The novel snoRNAdisplays structural features typical of C/D box snoRNA fam-ily and possesses a 10-nt-long rRNA antisense element whichis predicted to guide the 2’-O-methylation of the fission yeast 25S rRNA at G940. As expected, the rRNA ribose-methyla-tion site predicted by the novel snoRNA was preciselymapped by a deoxynucleoside triphosphate concentration-dependent primer extension assay. The comparison of func-tional element of guide snoRNAs among eukaryotes reveals that the novel snoRNA is a partial counterpart of the bud-ding yeast snR60 and was termed snR60-II. snR60-II genenested in the intron of a non-coding RNA gene with an un-known function, which is the first example of a yeastsnoRNA encoded in an intron of a non-coding RNA gene.Furthermore, a number of yeast snR60 homologues were also identified from other fungi and fly. Our results reveal thatsnR60 exhibits diverse genomic organization in eukaryotes, implying the high mobility of snR60 gene in the course ofevolution. | LUO Yuping, ZHUO Hui, LI Siguang & QU Lianghu Key Laboratory of Gene Engineering of the Ministry of Education, Bio-technology Research Center Zhongshan University, Guangzhou 510275, China Correspondence should be addressed to Qu Lianghu (e-mil: lsbrc04@zsu.edu.cn) | 2004 | Chinese Science Bulletin2004，49，18： | 1 |
| 14 | In vitro cleavage of HPV16E6 and HPVI8E6 RNA fragments by two hammerhead ribozymes respectively显示文摘 | Zheng Yanfang Zhang Jiren Qu Lianghu | 2000 | Int J of Modern Cancer Therapy2000，3，2： | 1 |
| 15 | The functional analysis of transiently upregulated miR-101 suggests a “braking” regulatory mechanism during myogenesis显示文摘Skeletal muscle differentiation is a highly coordinated process that involves many cellular signaling pathways and microRNAs(miRNAs).A group of muscle-specific miRNAs has been reported to promote myogenesis by suppressing key signaling pathways for cell growth.However,the functional role and regulatory mechanism of most non-muscle-specific miRNAs with stage-specific changes during differentiation are largely unclear.Here,we describe the functional characterization of miR-101a/b,a pair of non-muscle-specific miRNAs that show the largest change among a group of transiently upregulated miRNAs during myogenesis in C2C12 cells.The overexpression of miR-101a/b inhibits myoblast differentiation by suppressing the p38/MAPK,Interferon Gamma,and Wnt pathways and enhancing the C/EBP pathway.Mef2a,a key protein in the p38/MAPK pathway,was identified as a direct target of miR-101a/b.Interestingly,we found that the long non-coding RNA(lncRNA)Malat1,which promotes muscle differentiation,interacts with miR-101a/b,and this interaction competes with Mef2a mRNA to relieve the inhibition of the p38/MAPK pathway during myogenesis.These results uncovered a“braking”role in differentiation of transiently upregulated miRNAs and provided new insights into the competing endogenous RNA(ceRNA)regulatory mechanism in myoblast differentiation and myogenesis. | Shurong Liu Shujuan Xie Huafeng Chen Bin Li Zhirong Chen Yeya Tan Jianhua Yang Lingling Zheng Zhendong Xiao Qi Zhang Lianghu Qu | 2021 | Science China(Life Sciences)2021，64，10： | 1 |
| 16 | miR-182 as a Prognostic Marker for Glioma Progression and Patient Survival显示文摘 | Lili Jiang Pu Mao Libing Song Jueheng Wu Jieting Huang Chuyong Lin Jie Yuan Lianghu Qu Shi-Yuan Cheng Jun Li | 2010 | The American Journal of Pathology2010，，： | 1 |
| 17 | Attacking c-Myc: Targeted and Combined Therapies for Cancer显示文摘 | Huilin Huang Hengyou Weng Hui Zhou Lianghu Qu | 2014 | Current Pharmaceutical Design2014，，： | 1 |
| 18 | Effectiveness of a ribozyme for cleavage of an RNA transcript from human papillomavirus tyoe16显示文摘 | YANFANG ZHENG JlREN ZHANG LIANGHU QU | 1998 | International Journal of Modern Cancer Therapy1998，1，1： | 1 |
| 19 | Phylogenetic diversity of Archaea in prawn farm sediment显示文摘 | Peng Shao Yueqin Chen Hui Zhou Lianghu Qu Ying Ma Heyang Li Nianzhi Jiao | 2004 | Marine Biology2004，，1： | 1 |
| 20 | Identification of a novel methylated nucleoside in Schizosac-charomyces pombe U6 snRNA显示文摘By using the method of reverse transcription at different dNTP concentrations, a novel methylated nucleoside, Am64, has been identified from Schizosaccharomyces pombe U6 snRNA, and a higher ordered structure repressing the passage of reverse transcriptase at the 5’ end of U6 snRNA has been demonstrated. | Hui Zhou Lianghu Qu Yanping Du Weixin Zhou | 2000 | Chinese Science Bulletin2000，45，14： | 0 |
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