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Long non-coding rna MALAT1 in hematological malignancies and its clinical applications

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Chinese Medical Journal 2024年第10期137卷 1151-1159页

作者： Chunlan Zhang Yun Qin Yu Wu Heng Xu Yang Shu Department of Hematology West China HospitalSichuan UniversityChengduSichuan 610041China Department of Radiology West China HospitalSichuan UniversityChengduSichuan 610041China Department of laboratory Medicine/Research Center of Clinical laboratory Medicine West China HospitalSichuan UniversityChengduSichuan 610041China Department of Biotherapy State Key Laboratory of Biotherapy and Cancer CenterWest China HospitalSichuan UniversityChengduSichuan 610041China Institute of General Surgery West China HospitalSichuan UniversityChengduSichuan 610041China Department of General Surgery Gastric Cancer Center and Laboratory of Gastric CancerWest China HospitalSichuan UniversityChengduSichuan 610041China

Metastasis-associated lung adenocarcinoma transcript 1(MALAT1)is a well-established oncogenic long non-coding rna,the higher expression of which is strongly correlated with cancer events such as tumorigenesis,progression,metastasis,drug resistance,and treatment outcome in solid ***,a series of studies has highlighted its potential role in hematological malignancies in terms of these *** to solid cancers,MALAT1 can regulate various target genes via sponging and epigenetic mechanisms,but the mirnas sponged by MALAT1 differ from those identified in solid *** this review,we systematically describe the role and underlying mechanisms of MALAT1 in multiple types of hematological malignancies,including regulation of cell proliferation,metastasis,stress response,and ***,MALAT1 expression is related to poor treatment outcome and drug resistance,therefore exhibiting potential prognostic value in multiple myeloma,lymphoma,and ***,we discuss the evaluation of MALAT1 as a novel therapeutic target against cancer in preclinical studies.

关键词： Long non-coding rna Hematological malignancies Tumorigenesis Metastasis drug resistance Prognostic biomarker

Potential treatment with Chinese and Western medicine targeting NSP14 of SARS-CoV-2

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Journal of Pharmaceutical Analysis 2021年第3期11卷 272-277页

作者： Chao Liu Xiaoxiao Zhu Yiyao Lu Xianqin Zhang Xu Jia Tai Yang non-coding rna and drug discovery key laboratory of sichuan province Chengdu Medical CollegeChengduSichuan610500China Basic Medical School Chengdu Medical CollegeChengduSichuan610500China School of Pharmacy Chengdu Medical CollegeChengduSichuan610500China

The outbreak of coronavirus disease 2019(COVID-19)caused by severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)is a serious global health *** raises an urgent need for the development of effective drugs against the deadly ***-CoV-2 non-structural protein 14(NSP14)carrying rna cap guanine N7-methyltransferase and 30-50 exoribonuclease activities could be a potential drug target for ***14 of SARS-CoV-2 shares 98.7%of similarity with the one(PDB 5NFY)of acute respiratory syndrome(SARS)by ***,the SARS-CoV-2 NSP14 structures were modelled by Modeller 9.18 using SARS NSP14(PDB 5NFY)as template for virtual *** on the docking score from AutoDock Vina1.1.2,18 small molecule drugs were selected for further *** on the 5 ns MD simulation trajectory,binding free energy(DG)was calculated by MM/GBSA *** calculated binding free energies of Saquinavir,Hypericin,Baicalein and Bromocriptine for the N-terminus of the homology model wereà37.2711±3.2160,à30.1746±3.1914,à23.8953±4.4800,andà34.1350±4.3683 kcal/mol,respectively,while the calculated binding free energies wereà60.2757±4.7708,à30.9955±2.9975,à46.3099±3.5689,andà59.8104±3.5389 kcal/mol,respectively,when binding to the ***,the compounds including Saquinavir,Hypericin,Baicalein and Bromocriptine could bind to the N-terminus and C-terminus of the homology model of the SARS-CoV-2 NSP14,providing a candidate drug against SARS-CoV-2 for further study.

关键词： SARS-CoV-2 nonstructural protein 14(NSP14) ZINC database drug docking

Identification and characterization of noncoding rnas-associated competing endogenous rna networks in major depressive disorder

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World Journal of Psychiatry 2023年第2期13卷 36-49页

作者： Zhi-Li Zou Yu Ye Bo Zhou Yuan Zhang Department of Psychosomatic Sichuan Academy of Medical Science&Sichuan Provincial People’s HospitalChengdu 610072Sichuan ProvinceChina sichuan Provincial Center for Mental Health Sichuan Academy of Medical Sciences&Sichuan Provincial People's HospitalChengdu 611130Sichuan ProvinceChina Personalized drug Therapy key laboratory of sichuan province Sichuan Academy of Medical Sciences&Sichuan Provincial People’s HospitalChengdu 610072Sichuan ProvinceChina

BACKGROUND Major depressive disorder(MDD)is a common and serious mental *** novel genes in MDD have been characterized by high-throughput methods such as microarrays or ***,noncoding rnas(ncrnas)were suggested to be involved in the complicated environmental-genetic regulatory network of MDD occurrence;however,the interplay among rna species,including protein-coding rnas and ncrnas,in MDD remains *** To investigate the rna expression datasets downloaded from a public database and construct a network based on differentially expressed long noncoding rna(lncrnas),micrornas(mirnas),and mrnas between MDD and *** Gene expression data were searched in NCBI Gene Expression Omnibus using the search term“major depressive disorder.”Six array datasets from humans were related to the search term:GSE19738,GSE32280,GSE38206,GSE52790,GSE76826,and *** datasets were processed for initial assessment and subjected to quality control and differential expression *** expressed lncrnas,mirnas,and mrnas were determined,Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses were performed,and protein-protein interaction network was *** results were analyzed for their association with *** After analysis,3 mirnas,12 lncrnas,and 33 mrnas were identified in the competing endogenous rna *** of these mirnas were earlier shown to be involved in psychiatric disorders,and differentially expressed mrnas were found to be highly enriched in pathways related to neurogenesis and neuroplasticity as per Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment *** expression of hub gene fatty acid 2-hydroxylase was enriched,and the encoded protein was found to be involved in myelin formation,indicating that neurological development and signal transduction are involved in MDD *** The present study presents candidate nc rnas involved in the neurog

关键词： Major depressive disorder noncoding rna Competing endogenous rna Bioinformatics Data mining

The expression,function,and coding potential of circular rna circEDC3 in chicken skeletal muscle development

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Journal of Integrative Agriculture 2022年第5期21卷 1444-1456页

作者： WEI Yuan-hang ZHAO Xi-yu SHEN Xiao-xu YE Lin ZHANG Yao WANG Yan LI Di-yan ZHU Qing YIN Hua-dong Farm Animal Genetic Resources Exploration and Innovation key laboratory of sichuan province Sichuan Agricultural UniversityChengdu 611130P.R.China

As an emerging class of non-coding transcripts,circular rnas(circrnas)are proved to participate in the complex process of myogenesis in diverse species.A previous study has identified circular rna EDC3(circEDC3)as a typical covalently closed circular rna abundant in chicken skeletal *** study found that circEDC3 is a conservative circular rna and performed functional analysis to investigate the role of circEDC3 in chicken muscle *** results indicated that circEDC3 could inhibit(Pcoding *** open reading frames(ORF)were found in circEDC3 in this ***,this study predicted that circEDC3 had internal ribosome entry sites(IRES)and N6-methyladenosine(m6A)motifs in different species,implying that circEDC3 might be *** study revealed that circEDC3 might be a negative regulator in chicken muscle development and suggested it has protein-coding potential in different species.

关键词： circEDC3 chicken SMSCs myogenesis coding potential

mirna sequencing analysis of healthy and atretic follicles of chickens revealed that miR-30a-5p inhibits granulosa cell death via targeting Beclin1

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Journal of Animal Science and Biotechnology 2022年第5期13卷 1351-1372页

作者： Haorong He Dongmei Li Yongtong Tian Qinyao Wei Felix Kwame Amevor Congjiao Sun Chunlin Yu Chaowu Yang Huarui Du Xiaosong Jiang Menggen Ma Can Cui Zhichao Zhang Kai Tian Yao Zhang Qing Zhu Huadong Yin Farm Animal Genetic Resources Exploration and Innovation key laboratory of sichuan province Sichuan Agricultural UniversityChengdu 611130SichuanChina National Engineering laboratory for Animal Breeding and key laboratory of Animal Genetics Breeding and ReproductionMinistry of Agriculture and Rural AffairsCollege of Animal Science and TechnologyChina Agricultural UniversityBeijing 100193China Animal Breeding and Genetics key laboratory of sichuan province Sichuan Animal Science AcademyChengdu 610066China College of Resources Sichuan Agricultural UniversityChengdu 611130China

Background:The egg production performance of chickens is affected by many factors,including genetics,nutrition and environmental *** factors all play a role in egg production by affecting the development of ***(mirnas)are important non-coding rnas that regulate biological processes by targeting genes or other non-coding rnas after *** the animal reproduction process,mirna is known to affect the development and atresia of follicles by regulating apoptosis and autophagy of granulosa cells(GCs).Results:In this study,we identified potential mirnas in the atretic follicles of broody chickens and unatretic follicles of healthy *** identified gga-miR-30a-5p in 50 differentially expressed mirnas and found that gga-miR-30a-5p played a regulatory role in the development of chicken *** function of miR-30a-5p was explored through the transfection test of miR-30a-5p inhibitor and miR-30a-5p *** the study,we used qPCR,western blot and flow cytometry to detect granulosa cell apoptosis,autophagy and steroid hormone *** microscopy and transmission electron microscopy are used for the observation of *** levels of estradiol(E2),progesterone(P4),malondialdehyde(MDA)and superoxide dismutase(SOD)were detected by *** results showed that miR-30a-5p showed a negative effect on autophagy and apoptosis of granulosa cells,and also contributed in steroid hormones and reactive oxygen species(ROS)*** addition,the results obtained from the biosynthesis and dual luciferase experiments showed that Beclin1 was the target gene of *** rescue experiment conducted further confirmed that Beclin1 belongs to the miR-30a-5p regulatory ***:In summary,after deep mirna sequencing on healthy and atretic follicles,the results indicated that miR-30a-5p inhibits granulosa cell death by inhibiting Beclin1.

关键词： Apoptosis Autophagy Beclin1 Chicken granulosa cells MiR-30a-5p Oxidative stress rna-seq Steroid hormone

Characterization and Phylogenetic Implications of the Complete Mitogenomes of Two Species in the Genus Zhangixalus(Anura:Rhacophoridae)

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亚洲两栖爬行动物研究:英文版 2023年第3期14卷 191-211页

作者： Lichun JIANG Wanqing SONG Yujia LIU Yujie ZHANG Jingfeng LIU Chunxiu LIU Xiaodong JIA Wei CHEN Ecological Security and Protection key laboratory of sichuan province Mianyang Normal UniversityMianyang 621000SichuanChina key laboratory for Molecular Biology and Biopharmaceutics School of Life Science and TechnologyMianyang Normal UniversityMianyang 621000SichuanChina School of Resources and Environmental Engineering Anhui UniversityHefei 230601AnhuiChina

Mitochondrial genomes(mitogenomes)in frogs are essential for reconstructing the phylogenetic relationships and shedding light on the molecular evolution in these ***,there are only seven complete Rhacophoridae genomes that have been reported to *** this paper,two complete mitogenomes of the Chinese whipping frog(Zhangixalus chenfui)and Emei tree frog(***)were described,each of which was 20520 and 19782 bp in size,and had A+T contents of 64.26%and 63.83%.The two mitogenomes each included two non-coding control region(D-loop,CR),two ribosomal rna genes(rrnas),13 protein-coding genes(PCGs),and 22 transfer rna genes(trnas),and it was found that the mitogenome of *** also includes three tandem trnaMet gene sequences.A typical clover-leaf structure was found for all trnas except for trnaSer1(AGN),which showed a reduced DHU *** putative D-loop region contains multiple types of tandem repeats *** of these two mitogenomes showed similar pattern of gene rearrangement(trna-Ser-ND6-trna-Glu-CytbCR1-ND5-CR2-trna-Thr-trna-Leu-trna-Pro).Additionally,three consecutive trnaMet genes were found for the first time in ***,a species in the Rhacophoridae *** all phylogenetic analyses,which were based on 13 protein-coding genes from 91 Ranoidea mitogenomes,the same phylogenetic trees were observed using either maximum likelihood or Bayesian *** results suggest that the phylogenetic hypotheses for the Ranoidea(including Rhacophoridae,Mantellidae,Ranidae and Dicroglossidae)derived from these mitogenomic data could provide substantiation for the relationships of(Dicroglossidae(Ranidae,(Mantellidae,Rhacophoridae))),and support the presence of a monophyletic group in four ***,*** and *** were found to cluster on the same branch,indicating that they were more closely related as a *** group may in turn form sister groups with *** and ***,*** is located on the ba

关键词： mitochondrial genome Phylogeny Ranoidea Rhacophoridae Zhangixalus chenfui Z.omeimontis

Identification of novel antisense long non-coding rna APMAP-AS that modulates porcine adipogenic differentiation and inflammatory responses

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Journal of Integrative Agriculture 2023年第8期22卷 2483-2499页

作者： ZHANG Lin-zhen HE Li WANG Ning AN Jia-hua ZHANG Gen CHAI Jin WU Yu-jie DAI Chang-jiu LI Xiao-han LIAN Ting LI Ming-zhou JIN Long Farm Animal Genetic Resources Exploration and Innovation key laboratory of sichuan province Sichuan Agricultural UniversityChengdu 611130P.R.China College of Grassland Science and Technology Sichuan Agricultural UniversityChengdu 611130P.R.China

Long non-coding rnas(lncrnas)are emerging as powerful regulators of adipocyte differentiation,fat metabolism and gene ***,the functional roles and mechanisms of lncrnas in these processes remain ***,we identified a novel antisense transcript,named APMAP-AS,transcribed from adipocyte membrane-associated protein(APMAP)in the pig ***-AS and APMAP were highly expressed in retroperitoneal adipose of obese pigs,compared with that in control *** a bone mesenchymal stem cells(BMSCs)adipogenic differentiation model,we found that APMAP-AS positively regulated adipogenic ***-AS had the potential to form an rna–rna duplex with APMAP,and increased the stability of APMAP ***,APMAP-AS promoted lipid metabolism and inhibited the expression of inflammatory *** findings of a natural antisense transcript for a regulatory gene associated with lipid synthesis might further our understanding of lncrnas in driving adaptive adipose tissue remodeling and preserving metabolic health.

关键词： lncrna adipogenesis lipid metabolism inflammation rna-rna duplex

Targeting epigenetic regulators to overcome drug resistance in cancers

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Signal Transduction and Targeted Therapy 2023年第3期8卷 1070-1093页

作者： Nan Wang Ting Ma Bin Yu Institute of drug discovery&Development School of Pharmaceutical SciencesZhengzhou UniversityZhengzhou 450001China

drug resistance is mainly responsible for cancer recurrence and poor *** regulation is a heritable change in gene expressions independent of nucleotide sequence *** the common epigenetic regulation mechanisms,DNA methylation,histone modification,and non-coding rna regulation have been well *** evidence has shown that aberrant epigenetic regulations contribute to tumor ***,targeting epigenetic regulators represents an effective strategy to reverse drug *** this review,we mainly summarize the roles of epigenetic regulation in tumor *** addition,as the essential factors for epigenetic modifications,histone demethylases mediate the histone or genomic DNA ***,we comprehensively describe the functions of the histone demethylase family including the lysine-specific demethylase family,the Jumonji C-domain-containing demethylase family,and the histone arginine demethylase family,and fully discuss their regulatory mechanisms related to cancer drug *** addition,therapeutic strategies,including small-molecule inhibitors and small interfering rna targeting histone demethylases to overcome drug resistance,are also described.

关键词： epigenetic drug overcome

A tRF oligomerizes Nucleolin to stabilize metastasis-favoring transcripts

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Science China(Life Sciences) 2023年第3期66卷 646-648页

作者： Jiawei Guo Yong Peng laboratory of Molecular Oncology Frontiers Science Center for Disease-related Molecular Network State Key Laboratory of Biotherapy and Cancer Center West China Hospital Sichuan University

Apart from bringing amino acids to ribosomes for protein biogenesis,transfer rna(t rna)can be cleaved into small non-coding rnas,named as t RFs or ts *** small rna fragments were firstly thought as random degradation products of t rnas until the induction of certain t RFs were observed in specific stress conditions(Li et al.,2008).

关键词： metastasis bringing