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Pesquisa : D13.695.578.550 [Categoria DeCS]
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[PMID]:28779690
[Au] Autor:Basu P; Suresh Kumar G
[Ad] Endereço:Organic and Medicinal Chemistry Division, CSIR-Indian Institute of Chemical Biology, Kolkata 700 032, India.
[Ti] Título:Small molecule-RNA recognition: Binding of the benzophenanthridine alkaloids sanguinarine and chelerythrine to single stranded polyribonucleotides.
[So] Source:J Photochem Photobiol B;174:173-181, 2017 Sep.
[Is] ISSN:1873-2682
[Cp] País de publicação:Switzerland
[La] Idioma:eng
[Ab] Resumo:Single stranded RNAs are biologically potent as they participate in various key cellular processes. The binding efficacy of two potent anticancer alkaloids, sanguinarine (here after SANG) and chelerythrine (here after CHEL), with single-stranded ribonucleic acids poly(rI), poly(rG), and poly(rC) were studied using spectroscopic and thermodynamic tools. Results reveal that both SANG and CHEL binds well with single stranded RNAs with affinity in the order poly(rI)>poly(rG)>poly(rC). CHEL showed slightly higher affinity compared to SANG with all the single stranded RNAs. Both SANG and CHEL showed association affinity of the lower 10 order with poly(rI), higher 10 order binding with poly(rG) and lower 10 order with poly(rC). The binding mode was partial intercalation due to the staking interaction between the bases and the alkaloids. The complexation of both the SANG and CHEL to the RNAs were mainly enthalpy driven and also favoured by entropy changes. Perturbation was observed in the RNA conformation due to binding of the alkaloids. In this present study we have deciphered the fundamental structural and calorimetric aspects of the interaction of the natural benzophenanthridine alkaloids with single stranded RNAs and these results may help to develop new generation alkaloid based therapeutics targeting single stranded RNAs.
[Mh] Termos MeSH primário: Benzofenantridinas/química
Isoquinolinas/química
Isoquinolinas/metabolismo
Polirribonucleotídeos/metabolismo
RNA/metabolismo
[Mh] Termos MeSH secundário: Benzofenantridinas/metabolismo
Polirribonucleotídeos/química
RNA/química
Análise Espectral
Termodinâmica
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Benzophenanthridines); 0 (Isoquinolines); 0 (Polyribonucleotides); 63231-63-0 (RNA); AV9VK043SS (sanguinarine); E3B045W6X0 (chelerythrine)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171012
[Lr] Data última revisão:
171012
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170806
[St] Status:MEDLINE


  2 / 818 MEDLINE  
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[PMID]:27959512
[Au] Autor:Brown KA; Sharifi S; Hussain R; Donaldson L; Bayfield MA; Wilson DJ
[Ad] Endereço:Department of Chemistry, York University , Toronto, ON M3J 1P3, Canada.
[Ti] Título:Distinct Dynamic Modes Enable the Engagement of Dissimilar Ligands in a Promiscuous Atypical RNA Recognition Motif.
[So] Source:Biochemistry;55(51):7141-7150, 2016 Dec 27.
[Is] ISSN:1520-4995
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Conformational dynamics play a critical role in ligand binding, often conferring divergent activities and specificities even in species with highly similar ground-state structures. Here, we employ time-resolved electrospray ionization hydrogen-deuterium exchange (TRESI-HDX) to characterize the changes in dynamics that accompany oligonucleotide binding in the atypical RNA recognition motif (RRM2) in the C-terminal domain (CTD) of human La protein. Using this approach, which is uniquely capable of probing changes in the structure and dynamics of weakly ordered regions of proteins, we reveal that binding of RRM2 to a model 23-mer single-stranded RNA and binding of RRM2 to structured IRES domain IV of the hepatitis C viral (HCV) RNA are driven by fundamentally different dynamic processes. In particular, binding of the single-stranded RNA induces helical "unwinding" in a region of the CTD previously hypothesized to play an important role in La and La-related protein-associated RNA remodeling, while the same region becomes less dynamic upon engagement with the double-stranded HCV RNA. Binding of double-stranded RNA also involves less penetration into the RRM2 binding pocket and more engagement with the unstructured C-terminus of the La CTD. The complementarity between TRESI-HDX and Δδ nuclear magnetic resonance measurements for ligand binding analysis is also explored.
[Mh] Termos MeSH primário: Autoantígenos/química
Motivo de Reconhecimento de RNA
RNA de Cadeia Dupla/química
RNA/química
Ribonucleoproteínas/química
[Mh] Termos MeSH secundário: Autoantígenos/genética
Autoantígenos/metabolismo
Sequência de Bases
Sítios de Ligação/genética
Medição da Troca de Deutério/métodos
Hepatite C/genética
Seres Humanos
Ligantes
Espectroscopia de Ressonância Magnética
Espectrometria de Massas/métodos
Modelos Moleculares
Mutação
Conformação de Ácido Nucleico
Polirribonucleotídeos/química
Polirribonucleotídeos/genética
Polirribonucleotídeos/metabolismo
Ligação Proteica
Conformação Proteica
Domínios Proteicos
RNA/genética
RNA/metabolismo
RNA de Cadeia Dupla/genética
RNA de Cadeia Dupla/metabolismo
RNA Viral/química
RNA Viral/genética
RNA Viral/metabolismo
Ribonucleoproteínas/genética
Ribonucleoproteínas/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Autoantigens); 0 (Ligands); 0 (Polyribonucleotides); 0 (RNA, Double-Stranded); 0 (RNA, Viral); 0 (Ribonucleoproteins); 0 (SS-B antigen); 63231-63-0 (RNA)
[Em] Mês de entrada:1705
[Cu] Atualização por classe:170530
[Lr] Data última revisão:
170530
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161214
[St] Status:MEDLINE
[do] DOI:10.1021/acs.biochem.6b00995


  3 / 818 MEDLINE  
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[PMID]:27865382
[Au] Autor:Schwartz YS; Belogorodtsev SN; Filimonov PN; Cherednichenko AG; Pustylnikov SV; Krasnov VA
[Ad] Endereço:Novosibirsk Tuberculosis Research Institute, Okhotskaya 81a, Novosibirsk, 630040, Russia; Research Institute for Internal and Preventive Medicine, Borisa Bogatkova 175/1, Novosibirsk, 630089, Russia. Electronic address: YShSchwartz@mail.ru.
[Ti] Título:BCG infection in mice is promoted by naïve mesenchymal stromal cells (MSC) and suppressed by poly(A:U)-conditioned MSC.
[So] Source:Tuberculosis (Edinb);101:130-136, 2016 Dec.
[Is] ISSN:1873-281X
[Cp] País de publicação:Scotland
[La] Idioma:eng
[Ab] Resumo:Mesenchymal stromal cells (MSC) transplantation is an actively studied therapeutic approach used in regenerative medicine and in the field of control of immunoinflammatory response. Conditioning of MSC in culture can form their predominantly pro- or anti-inflammatory phenotypes. We demonstrated that poly(A:U)-conditioning of bone marrow-derived mouse MSC induced predominantly pro-inflammatory phenotype. The effects of administration of naïve MSC (nMSC) or conditioned MSC (cMSC) on the course of mycobacterial infection were studied. BALB/c mice infected i.p. with 5 × 10 M. bovis BCG were successively injected i.v. with 0.75 × 10 of nMSC or cMSC in 11 and 12.5 weeks after infection and sacrificed at the week 14. Histological and bacteriological examination of BCG-infected animals revealed low bacterial loads in liver, lungs and spleen; the bacterial load in spleen was higher than in other organs. Treatment with nMSC induced 3-fold increase of the number of bacteria in spleen granulomas, while cMSC decreased significantly the number of bacteria in BCG-positive granulomas. Analysis of preparations of organ homogenates by luminescent microscopy, MGIT cultures and CFU count on Lowenstein-Jensen medium revealed that nMSC promoted mycobacterial growth whereas cMSC suppressed mycobacterial growth significantly. We concluded that MSC therapy can be effective in mycobacterial infection, but only in a case of appropriate conditioning of the cells.
[Mh] Termos MeSH primário: Transplante de Células-Tronco Mesenquimais/métodos
Células Mesenquimais Estromais/imunologia
Mycobacterium bovis/crescimento & desenvolvimento
Tuberculose/prevenção & controle
[Mh] Termos MeSH secundário: Animais
Carga Bacteriana
Meios de Cultivo Condicionados
Citocinas/biossíntese
Interações Hospedeiro-Patógeno/imunologia
Imunofenotipagem
Mediadores da Inflamação/metabolismo
Masculino
Camundongos Endogâmicos BALB C
Mycobacterium bovis/isolamento & purificação
Polirribonucleotídeos/imunologia
Tuberculose/imunologia
Tuberculose/microbiologia
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Culture Media, Conditioned); 0 (Cytokines); 0 (Inflammation Mediators); 0 (Polyribonucleotides); 0 (poludan)
[Em] Mês de entrada:1710
[Cu] Atualização por classe:171031
[Lr] Data última revisão:
171031
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161121
[St] Status:MEDLINE


  4 / 818 MEDLINE  
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[PMID]:26777121
[Au] Autor:Barciszewska M; Sucha A; Balabanska S; Chmielewski MK
[Ad] Endereço:Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland.
[Ti] Título:Gel electrophoresis in a polyvinylalcohol coated fused silica capillary for purity assessment of modified and secondary-structured oligo- and polyribonucleotides.
[So] Source:Sci Rep;6:19437, 2016 Jan 18.
[Is] ISSN:2045-2322
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Application of a polyvinylalcohol-coated (PVA-coated) capillary in capillary gel electrophoresis (CGE) enables the selective separation of oligoribonucleotides and their modifications at high resolution. Quality assessment of shorter oligomers of small interfering RNA (siRNA) is of key importance for ribonucleic acid (RNA) technology which is increasingly being applied in medical applications. CGE is a technique of choice for calculation of chemically synthesized RNAs and their modifications which are frequently obtained as a mixture including shorter oligoribonucleotides. The use of CGE with a PVA-coated capillary to analyze siRNA mixtures presents an alternative to conventionally employed techniques. Here, we present study on identification of the length and purity of RNA mixture ingredients by using PVA-coated capillaries. Also, we demonstrate the use of PVA-coated capillaries to identify and separate phosphorylated siRNAs and secondary structures (e.g. siRNA duplexes).
[Mh] Termos MeSH primário: Eletroforese Capilar
Polirribonucleotídeos/química
Álcool de Polivinil
Dióxido de Silício
[Mh] Termos MeSH secundário: Cromatografia Líquida de Alta Pressão
Eletroforese Capilar/métodos
Conformação de Ácido Nucleico
Fosforilação
Poli A/química
Poli U/química
Álcool de Polivinil/química
RNA/química
Dióxido de Silício/química
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Polyribonucleotides); 24937-83-5 (Poly A); 27416-86-0 (Poly U); 63231-63-0 (RNA); 7631-86-9 (Silicon Dioxide); 9002-89-5 (Polyvinyl Alcohol)
[Em] Mês de entrada:1612
[Cu] Atualização por classe:161230
[Lr] Data última revisão:
161230
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:160119
[St] Status:MEDLINE
[do] DOI:10.1038/srep19437


  5 / 818 MEDLINE  
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[PMID]:26340535
[Au] Autor:Donigan KA; Cerritelli SM; McDonald JP; Vaisman A; Crouch RJ; Woodgate R
[Ad] Endereço:Laboratory of Genomic Integrity, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892-3371, USA.
[Ti] Título:Unlocking the steric gate of DNA polymerase η leads to increased genomic instability in Saccharomyces cerevisiae.
[So] Source:DNA Repair (Amst);35:1-12, 2015 Nov.
[Is] ISSN:1568-7856
[Cp] País de publicação:Netherlands
[La] Idioma:eng
[Ab] Resumo:DNA polymerase η (pol η) is best characterized for its ability to perform accurate and efficient translesion DNA synthesis (TLS) through cyclobutane pyrimidine dimers (CPDs). To ensure accurate bypass the polymerase is not only required to select the correct base, but also discriminate between NTPs and dNTPs. Most DNA polymerases have a conserved "steric gate" residue which functions to prevent incorporation of NMPs during DNA synthesis. Here, we demonstrate that the Phe35 residue of Saccharomyces cerevisiae pol η functions as a steric gate to limit the use of ribonucleotides during polymerization both in vitro and in vivo. Unlike the related pol ι enzyme, wild-type pol η does not readily incorporate NMPs in vitro. In contrast, a pol η F35A mutant incorporates NMPs on both damaged and undamaged DNA in vitro with a high degree of base selectivity. An S.cerevisiae strain expressing pol η F35A (rad30-F35A) that is also deficient for nucleotide excision repair (rad1Δ) and the TLS polymerase, pol ζ (rev3Δ), is extremely sensitive to UV-light. The sensitivity is due, in part, to RNase H2 activity, as an isogenic rnh201Δ strain is roughly 50-fold more UV-resistant than its RNH201(+) counterpart. Interestingly the rad1Δ rev3Δ rad30-F35A rnh201Δ strain exhibits a significant increase in the extent of spontaneous mutagenesis with a spectrum dominated by 1bp deletions at runs of template Ts. We hypothesize that the increased mutagenesis is due to rA incorporation at these sites and that the short poly rA tract is subsequently repaired in an error-prone manner by a novel repair pathway that is specifically targeted to polyribonucleotide tracks. These data indicate that under certain conditions, pol η can compete with the cell's replicases and gain access to undamaged genomic DNA. Such observations are consistent with a role for pol η in replicating common fragile sites (CFS) in human cells.
[Mh] Termos MeSH primário: Dano ao DNA/genética
Reparo do DNA/genética
DNA Polimerase Dirigida por DNA/química
Instabilidade Genômica
Proteínas de Saccharomyces cerevisiae/química
Saccharomyces cerevisiae/genética
[Mh] Termos MeSH secundário: Alanina/química
Alanina/genética
Substituição de Aminoácidos
Sequência de Bases
Sequência Conservada
Replicação do DNA
DNA Fúngico/química
DNA Fúngico/genética
DNA Polimerase Dirigida por DNA/genética
Dados de Sequência Molecular
Mutagênese
Mutação
Fenilalanina/química
Fenilalanina/genética
Polirribonucleotídeos/metabolismo
Ribonucleotídeos/metabolismo
Proteínas de Saccharomyces cerevisiae/genética
Raios Ultravioleta
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, N.I.H., INTRAMURAL
[Nm] Nome de substância:
0 (DNA, Fungal); 0 (Polyribonucleotides); 0 (Ribonucleotides); 0 (Saccharomyces cerevisiae Proteins); 47E5O17Y3R (Phenylalanine); EC 2.7.7.- (DNA replicase); EC 2.7.7.7 (DNA-Directed DNA Polymerase); EC 2.7.7.7 (Rad30 protein); OF5P57N2ZX (Alanine)
[Em] Mês de entrada:1606
[Cu] Atualização por classe:170220
[Lr] Data última revisão:
170220
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:150905
[St] Status:MEDLINE


  6 / 818 MEDLINE  
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[PMID]:26113370
[Au] Autor:Poulsen JB; Kjær KH; Justesen J; Martensen PM
[Ad] Endereço:Department of Molecular Biology and Genetics, Aarhus University, C.F. Møllers Allé 3, DK-8000, Aarhus C, Denmark. JESP@ssi.dk.
[Ti] Título:Enzyme assays for synthesis and degradation of 2-5As and other 2'-5' oligonucleotides.
[So] Source:BMC Biochem;16:15, 2015 Jun 26.
[Is] ISSN:1471-2091
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: The 5'-triphosphorylated, 2'-5'-linked oligoadenylate polyribonucleotides (2-5As) are central to the interferon-induced antiviral 2-5A system. The 2-5As bind and activate the RNase L, an endoRNase degrading viral and cellular RNA leading to inhibition of viral replication. The 2-5A system is tightly controlled by synthesis and degradation of 2-5As. Whereas synthesis is mediated by the 2'-5' oligoadenylate synthetase family of enzymes, degradation seems to be orchestrated by multiple enzyme nucleases including phosphodiesterase 12, the ectonucleotide pyrophosphatase/phosphodiesterase 1 and the A-kinase anchoring protein 7. RESULTS: Here we present assay tools for identification and characterization of the enzymes regulating cellular 2-5A levels. A procedure is described for the production of 2'-5' oligoadenylates, which are then used as substrates for development and demonstration of enzyme assays measuring synthetase and nuclease activities, respectively. The synthetase assays produce only a single reaction product allowing for very precise kinetic assessment of the enzymes. We present an assay using dATP and the A(pA)3 tetramer core as substrates, which requires prior isolation of A(pA)3. A synthetase assay using either of the dNTPs individually together with NAD(+) as substrates is also presented. The nuclease reactions make use of the isolated 2'-5' oligoadenylates in producing a mixture of shorter reaction products, which are resolved by ion-exchange chromatography to determine the enzyme activities. A purified human 2'-5' oligoadenylate synthetase and a purified human phosphodiesterase 12 along with crude extracts expressing those proteins, are used to demonstrate the assays. CONCLUSIONS: This paper comprises an assay toolbox for identification and characterization of the synthetases and nucleases regulating cellular 2-5A levels. Assays are presented for both enzyme families. The assays can also be used to address a broader cellular role of the OAS enzymes, based on the multiple substrate specificity intrinsic to these proteins.
[Mh] Termos MeSH primário: Nucleotídeos de Adenina/biossíntese
Nucleotídeos de Adenina/metabolismo
Ensaios Enzimáticos
Oligorribonucleotídeos/biossíntese
Oligorribonucleotídeos/metabolismo
Polirribonucleotídeos/biossíntese
Polirribonucleotídeos/metabolismo
[Mh] Termos MeSH secundário: 2',5'-Oligoadenilato Sintetase/metabolismo
Exorribonucleases/metabolismo
Células HeLa
Seres Humanos
NAD/metabolismo
Especificidade por Substrato
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Adenine Nucleotides); 0 (Oligoribonucleotides); 0 (Polyribonucleotides); 0U46U6E8UK (NAD); 61172-40-5 (2',5'-oligoadenylate); EC 2.7.7.- (OAS1 protein, human); EC 2.7.7.84 (2',5'-Oligoadenylate Synthetase); EC 3.1.- (Exoribonucleases); EC 3.1.13.- (PDE12 protein, human)
[Em] Mês de entrada:1601
[Cu] Atualização por classe:161125
[Lr] Data última revisão:
161125
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:150627
[St] Status:MEDLINE
[do] DOI:10.1186/s12858-015-0043-8


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[PMID]:26073991
[Au] Autor:Haque L; Pradhan AB; Bhuiya S; Das S
[Ad] Endereço:Department of Chemistry, Jadavpur University, Raja S. C. Mullick Road, Jadavpur, Kolkata 700 032, India. sumandas10@yahoo.com lucy.haque@gmail.com ankurpradhan727@gmail.com s.bhuiya12@gmail.com.
[Ti] Título:Exploring the comparative binding aspects of benzophenanthridine plant alkaloid chelerythrine with RNA triple and double helices: a spectroscopic and calorimetric approach.
[So] Source:Phys Chem Chem Phys;17(26):17202-13, 2015 Jul 14.
[Is] ISSN:1463-9084
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:A comparative study on the interaction of a benzophenanthridine alkaloid chelerythrine (CHL) with RNA triplex poly(U).poly(A)*poly(U) (hereafter U.A*U, .(dot) and *(asterisk) represent Watson-Crick and Hoogsteen base pairing respectively) and its parent duplex poly(A).poly(U) (A.U) was carried out by using a combination of various spectroscopic, viscometric and calorimetric techniques. The interaction was characterized by hypochromic and bathochromic effects in the absorption spectrum, the increase of thermal melting temperature, enhancement in solution viscosity, and perturbation in the circular dichroic spectrum. The binding constant calculated by using spectrophotometric data was in the order of 10(5) for both forms of RNA, but it was greater for triplex RNA (30.2 × 10(5) M(-1)) than duplex RNA (3.6 × 10(5) M(-1)). Isothermal titration calorimetric data are in good agreement with the spectrophotometric data. The data indicated stronger binding of CHL to the triplex structure of RNA compared to the native duplex structure. Thermal melting studies indicated greater stabilization of the Hoogsteen base paired third strand of the RNA triplex compared to its Watson-Crick strands. The mode of binding of CHL to both U.A*U and A.U was intercalation as revealed from fluorescence quenching, viscosity measurements and sensitization of the fluorescence experiment. Thermodynamic data obtained from isothermal calorimetric measurements revealed that association was favoured by both a negative enthalpy change and a positive entropy change. Taken together, our results suggest that chelerythrine binds and stabilizes the RNA triplex more strongly than its respective parent duplex. The results presented here may be useful for formulating effective antigene strategies involving benzophenanthridine alkaloids and the RNA triplex.
[Mh] Termos MeSH primário: Benzofenantridinas/química
Calorimetria
Polirribonucleotídeos/química
RNA/química
[Mh] Termos MeSH secundário: Sítios de Ligação
Dicroísmo Circular
Transferência Ressonante de Energia de Fluorescência
Estrutura Molecular
Espectrometria de Fluorescência
Espectrofotometria Ultravioleta
[Pt] Tipo de publicação:COMPARATIVE STUDY; JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Benzophenanthridines); 0 (Polyribonucleotides); 24936-34-3 (poly(U).poly(A).poly(U)); 63231-63-0 (RNA)
[Em] Mês de entrada:1603
[Cu] Atualização por classe:150625
[Lr] Data última revisão:
150625
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:150616
[St] Status:MEDLINE
[do] DOI:10.1039/c5cp01737h


  8 / 818 MEDLINE  
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[PMID]:25930744
[Au] Autor:Kondelin J; Tuupanen S; Gylfe AE; Aavikko M; Renkonen-Sinisalo L; Järvinen H; Böhm J; Mecklin JP; Andersen CL; Vahteristo P; Pitkänen E; Aaltonen LA
[Ad] Endereço:Medicum/Department of Medical and Clinical Genetics, University of Helsinki, 00014, Helsinki, Finland, johanna.kondelin@helsinki.fi.
[Ti] Título:3'-UTR poly(T/U) repeat of EWSR1 is altered in microsatellite unstable colorectal cancer with nearly perfect sensitivity.
[So] Source:Fam Cancer;14(3):449-53, 2015 Sep.
[Is] ISSN:1573-7292
[Cp] País de publicação:Netherlands
[La] Idioma:eng
[Ab] Resumo:Approximately 15% of colorectal cancers exhibit instability of short nucleotide repeat regions, microsatellites. These tumors display a unique clinicopathologic profile and the microsatellite instability status is increasingly used to guide clinical management as it is known to predict better prognosis as well as resistance to certain chemotherapeutics. A panel of five repeats determined by the National Cancer Institute, the Bethesda panel, is currently the standard for determining the microsatellite instability status in colorectal cancer. Recently, a quasimonomorphic mononucleotide repeat 16T/U at the 3' untranslated region of the Ewing sarcoma breakpoint region 1 gene was reported to show perfect sensitivity and specificity in detecting mismatch repair deficient colorectal, endometrial, and gastric cancers in two independent populations. To confirm this finding, we replicated the analysis in 213 microsatellite unstable colorectal cancers from two independent populations, 148 microsatellite stable colorectal cancers, and the respective normal samples by PCR and fragment analysis. The repeat showed nearly perfect sensitivity for microsatellite unstable colorectal cancer as it was altered in 212 of the 213 microsatellite unstable (99.5%) and none of the microsatellite stable colorectal tumors. This repeat thus represents the first potential single marker for detecting microsatellite instability.
[Mh] Termos MeSH primário: Regiões 3´ não Traduzidas
Proteínas de Ligação a Calmodulina/genética
Neoplasias Colorretais/genética
Instabilidade de Microssatélites
Proteínas de Ligação a RNA/genética
[Mh] Termos MeSH secundário: Dinamarca
Finlândia
Seres Humanos
Polirribonucleotídeos/genética
Proteína EWS de Ligação a RNA
Sequências Repetitivas de Ácido Nucleico
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (3' Untranslated Regions); 0 (Calmodulin-Binding Proteins); 0 (EWSR1 protein, human); 0 (Polyribonucleotides); 0 (RNA-Binding Protein EWS); 0 (RNA-Binding Proteins)
[Em] Mês de entrada:1606
[Cu] Atualização por classe:171116
[Lr] Data última revisão:
171116
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:150502
[St] Status:MEDLINE
[do] DOI:10.1007/s10689-015-9804-1


  9 / 818 MEDLINE  
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[PMID]:25791588
[Au] Autor:Damm K; Bach S; Müller KM; Klug G; Burenina OY; Kubareva EA; Grünweller A; Hartmann RK
[Ad] Endereço:Institut für Pharmazeutische Chemie, Philipps-Universität Marburg, Marbacher Weg 6, 35037, Marburg, Germany.
[Ti] Título:Impact of RNA isolation protocols on RNA detection by Northern blotting.
[So] Source:Methods Mol Biol;1296:29-38, 2015.
[Is] ISSN:1940-6029
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:We prepared total RNA from the Gram-positive soil bacterium Bacillus subtilis by different RNA extraction procedures to compare their suitability for Northern blot detection of tiny RNAs (~14-mers) or RNAs of intermediate size (100-200 nt) in terms of signal quality, intensity, and reproducibility. Our analysis included two hot phenol methods and two TRIzol extraction procedures. We found that signal intensity/detection sensitivity makes the key difference. Total RNAs prepared by the hot phenol method comprise the length spectrum from tRNAs to large ribosomal RNAs. Larger RNAs are less abundant in TRIzol preparations which instead enrich for RNAs of tRNA size and smaller. Thus, hot phenol methods are the choice for the detection of intermediate-sized and longer RNAs, whereas TRIzol extraction procedures are more suited for the detection of tiny RNAs.
[Mh] Termos MeSH primário: Bacillus subtilis/química
Northern Blotting/métodos
RNA Bacteriano/isolamento & purificação
[Mh] Termos MeSH secundário: Northern Blotting/normas
Técnicas de Cultura de Células
Oligonucleotídeos/isolamento & purificação
Fenol
Polirribonucleotídeos/isolamento & purificação
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Oligonucleotides); 0 (Polyribonucleotides); 0 (RNA, Bacterial); 339NCG44TV (Phenol)
[Em] Mês de entrada:1512
[Cu] Atualização por classe:150320
[Lr] Data última revisão:
150320
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:150321
[St] Status:MEDLINE
[do] DOI:10.1007/978-1-4939-2547-6_4


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[PMID]:25313017
[Au] Autor:Zhang H; Liu X; He X; Liu Y; Tan L
[Ad] Endereço:College of Chemistry, Xiangtan University, Xiangtan 411105, China.
[Ti] Título:Experimental and density functional theory (DFT) studies on the interactions of Ru(II) polypyridyl complexes with the RAN triplex poly(U)Ë™poly(A)*poly(U).
[So] Source:Metallomics;6(11):2148-56, 2014 Nov.
[Is] ISSN:1756-591X
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:There is renewed interest in investigating triple helices because these novel structures have been implicated as a possible means of controlling cellular processes by endogenous or exogenous mechanisms. Due to the Hoogsteen base pairing, triple helices are, however, thermodynamically less stable than the corresponding duplexes. The poor stability of triple helices limits their practical applications under physiological conditions. In contrast to DNA triple helices, small molecules stabilizing RNA triple helices at present are less well established. Furthermore, most of these studies are limited to organic compounds and, to a far lesser extent, to metal complexes. In this work, two Ru(II) complexes, [Ru(bpy)2(btip)](2+) (Ru1) and [Ru(phen)2(btip)](2+) (Ru2), have been synthesized and characterized. The binding properties of the two metal complexes with the triple RNA poly(U)˙poly(A)*poly(U) were studied by various biophysical and density functional theory methods. The main results obtained here suggest that the slight binding difference in Ru1 and Ru2 may be attributed to the planarity of the intercalative ligand and the LUMO level of Ru(II) complexes. This study further advances our knowledge on the triplex RNA-binding by metal complexes, particularly Ru(II) complexes.
[Mh] Termos MeSH primário: Modelos Moleculares
Polirribonucleotídeos/química
Polirribonucleotídeos/metabolismo
Rutênio/química
Rutênio/metabolismo
[Mh] Termos MeSH secundário: Piridinas
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Polyribonucleotides); 0 (Pyridines); 24936-34-3 (poly(U).poly(A).poly(U)); 7UI0TKC3U5 (Ruthenium)
[Em] Mês de entrada:1507
[Cu] Atualização por classe:141022
[Lr] Data última revisão:
141022
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:141015
[St] Status:MEDLINE
[do] DOI:10.1039/c4mt00175c



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