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Showing 1 to 12 of 16 entries
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Discovery and design of DNA and RNA ligase inhibitors in infectious microorganisms.

Expert opinion on drug discovery

Swift RV, Amaro RE.
PMID: 20354588
Expert Opin Drug Discov. 2009 Dec 01;4(12):1281-1294. doi: 10.1517/17460440903373617.

BACKGROUND: Members of the nucleotidyltransferase superfamily known as DNA and RNA ligases carry out the enzymatic process of polynucleotide ligation. These guardians of genomic integrity share a three-step ligation mechanism, as well as common core structural elements. Both DNA...

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Swift RV, Amaro RE. Discovery and design of DNA and RNA ligase inhibitors in infectious microorganisms. Expert Opin Drug Discov. 2009;4(12):1281-1294doi: 10.1517/17460440903373617.
Swift, R. V., & Amaro, R. E. (2009). Discovery and design of DNA and RNA ligase inhibitors in infectious microorganisms. Expert opinion on drug discovery, 4(12), 1281-1294. https://doi.org/10.1517/17460440903373617
Swift, Robert V, and Amaro, Rommie E. "Discovery and design of DNA and RNA ligase inhibitors in infectious microorganisms." Expert opinion on drug discovery vol. 4,12 (2009): 1281-1294. doi: https://doi.org/10.1517/17460440903373617
Swift RV, Amaro RE. Discovery and design of DNA and RNA ligase inhibitors in infectious microorganisms. Expert Opin Drug Discov. 2009 Dec 01;4(12):1281-1294. doi: 10.1517/17460440903373617. PMID: 20354588; PMCID: PMC2846787.
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Development of DNA Biosensors Based on DNAzymes and Nucleases.

Critical reviews in analytical chemistry

Yang H, Peng Y, Xu M, Xu S, Zhou Y.
PMID: 34225516
Crit Rev Anal Chem. 2021 Jul 06;1-16. doi: 10.1080/10408347.2021.1944046. Epub 2021 Jul 06.

DNA biosensors play important roles in environmental, medical, industrial and agricultural analysis. Many DNA biosensors have been designed based on the enzyme catalytic reaction. Because of the importance of enzymes in biosensors, we present a review on this topic....

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Yang H, Peng Y, Xu M, et al. Development of DNA Biosensors Based on DNAzymes and Nucleases. Crit Rev Anal Chem. 2021;1-16doi: 10.1080/10408347.2021.1944046.
Yang, H., Peng, Y., Xu, M., Xu, S., & Zhou, Y. (2021). Development of DNA Biosensors Based on DNAzymes and Nucleases. Critical reviews in analytical chemistry, 1-16. https://doi.org/10.1080/10408347.2021.1944046
Yang, Hualin, et al. "Development of DNA Biosensors Based on DNAzymes and Nucleases." Critical reviews in analytical chemistry vol. (2021): 1-16. doi: https://doi.org/10.1080/10408347.2021.1944046
Yang H, Peng Y, Xu M, Xu S, Zhou Y. Development of DNA Biosensors Based on DNAzymes and Nucleases. Crit Rev Anal Chem. 2021 Jul 06;1-16. doi: 10.1080/10408347.2021.1944046. Epub 2021 Jul 06. PMID: 34225516.
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Detecting Genes with Ligases.

Methods (San Diego, Calif.)

Landegren U, Samiotaki M, Nilsson M, Malmgren H, Kwiatkowski M.
PMID: 9245346
Methods. 1996 Feb;9(1):84-90. doi: 10.1006/meth.1996.0011.

The combination of synthetic oligonucleotide probes and DNA ligases is central to several recently developed genetic assays. Among the advantages of ligase-mediated gene detection is that ligation of probe pairs provides highly specific detection of unique DNA sequences in...

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Landegren U, Samiotaki M, Nilsson M, et al. Detecting Genes with Ligases. Methods. 1996;9(1):84-90doi: 10.1006/meth.1996.0011.
Landegren, U., Samiotaki, M., Nilsson, M., Malmgren, H., & Kwiatkowski, M. (1996). Detecting Genes with Ligases. Methods (San Diego, Calif.), 9(1), 84-90. https://doi.org/10.1006/meth.1996.0011
Landegren, et al. "Detecting Genes with Ligases." Methods (San Diego, Calif.) vol. 9,1 (1996): 84-90. doi: https://doi.org/10.1006/meth.1996.0011
Landegren U, Samiotaki M, Nilsson M, Malmgren H, Kwiatkowski M. Detecting Genes with Ligases. Methods. 1996 Feb;9(1):84-90. doi: 10.1006/meth.1996.0011. PMID: 9245346.
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Ligation of DNA with t(4) DNA ligase.

Methods in molecular biology (Clifton, N.J.)

Gaastra W, Hansen K.
PMID: 21374196
Methods Mol Biol. 1985;2:225-30. doi: 10.1385/0-89603-064-4:225.

Since they are involved in such important processes as DNA replication, DNA repair, and DNA recombination, DNA ligases can be found in all living cells. Two prokaryotic DNA ligases have become indispensible tools in the fields of in vitro...

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Gaastra W, Hansen K. Ligation of DNA with t(4) DNA ligase. Methods Mol Biol. 1985;2:225-30doi: 10.1385/0-89603-064-4:225.
Gaastra, W., & Hansen, K. (1985). Ligation of DNA with t(4) DNA ligase. Methods in molecular biology (Clifton, N.J.), 2225-30. https://doi.org/10.1385/0-89603-064-4:225
Gaastra, W, and Hansen, K. "Ligation of DNA with t(4) DNA ligase." Methods in molecular biology (Clifton, N.J.) vol. 2 (1985): 225-30. doi: https://doi.org/10.1385/0-89603-064-4:225
Gaastra W, Hansen K. Ligation of DNA with t(4) DNA ligase. Methods Mol Biol. 1985;2:225-30. doi: 10.1385/0-89603-064-4:225. PMID: 21374196.
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DNA ligases as therapeutic targets.

Translational cancer research

Tomkinson AE, Howes TR, Wiest NE.
PMID: 24224145
Transl Cancer Res. 2013 Jun;2(3).

During DNA replication, DNA joining events link Okazaki fragments on the lagging strand. In addition, they are required to repair DNA single- and double-strand breaks and to complete repair events initiated by the excision of mismatched and damaged bases....

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Tomkinson AE, Howes TR, Wiest NE. DNA ligases as therapeutic targets. Transl Cancer Res. 2013;2(3)
Tomkinson, A. E., Howes, T. R., & Wiest, N. E. (2013). DNA ligases as therapeutic targets. Translational cancer research, 2(3), .
Tomkinson, Alan E, et al. "DNA ligases as therapeutic targets." Translational cancer research vol. 2,3 (2013).
Tomkinson AE, Howes TR, Wiest NE. DNA ligases as therapeutic targets. Transl Cancer Res. 2013 Jun;2(3). PMID: 24224145; PMCID: PMC3819426.
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Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase.

Structure (London, England : 1993)

Sverzhinsky A, Tomkinson AE, Pascal JM.
PMID: 34838188
Structure. 2021 Nov 22; doi: 10.1016/j.str.2021.11.002. Epub 2021 Nov 22.

DNA ligases act in the final step of many DNA repair pathways and are commonly regulated by the DNA sliding clamp proliferating cell nuclear antigen (PCNA), but there are limited insights into the physical basis for this regulation. Here,...

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Sverzhinsky A, Tomkinson AE, Pascal JM. Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase. Structure. 2021;doi: 10.1016/j.str.2021.11.002.
Sverzhinsky, A., Tomkinson, A. E., & Pascal, J. M. (2021). Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase. Structure (London, England : 1993), . https://doi.org/10.1016/j.str.2021.11.002
Sverzhinsky, Aleksandr, et al. "Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase." Structure (London, England : 1993) vol. (2021). doi: https://doi.org/10.1016/j.str.2021.11.002
Sverzhinsky A, Tomkinson AE, Pascal JM. Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase. Structure. 2021 Nov 22; doi: 10.1016/j.str.2021.11.002. Epub 2021 Nov 22. PMID: 34838188.
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Biochemical and Structural Characterisation of DNA Ligases from Bacteria and Archaea.

Bioscience reports

Pergolizzi G, Wagner GK, Bowater RP.
PMID: 27582505
Biosci Rep. 2016 Oct 06;36(5):00391. doi: 10.1042/BSR20160003.

DNA ligases are enzymes that seal breaks in the backbones of DNA, leading to them being essential for the survival of all organisms. DNA ligases have been studied from many different types of cells and organisms and shown to...

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Pergolizzi G, Wagner GK, Bowater RP. Biochemical and Structural Characterisation of DNA Ligases from Bacteria and Archaea. Biosci Rep. 2016;36(5):00391doi: 10.1042/BSR20160003.
Pergolizzi, G., Wagner, G. K., & Bowater, R. P. (2016). Biochemical and Structural Characterisation of DNA Ligases from Bacteria and Archaea. Bioscience reports, 36(5), 00391. https://doi.org/10.1042/BSR20160003
Pergolizzi, Giulia, et al. "Biochemical and Structural Characterisation of DNA Ligases from Bacteria and Archaea." Bioscience reports vol. 36,5 (2016): 00391. doi: https://doi.org/10.1042/BSR20160003
Pergolizzi G, Wagner GK, Bowater RP. Biochemical and Structural Characterisation of DNA Ligases from Bacteria and Archaea. Biosci Rep. 2016 Oct 06;36(5):00391. doi: 10.1042/BSR20160003. PMID: 27582505; PMCID: PMC5052709.
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Downregulation of DNA ligases in trophoblasts contributes to recurrent pregnancy loss through inducing DNA damages.

Placenta

Li PF, Xiang YG, Zhang D, Lu N, Dou Q, Tan L.
PMID: 33601221
Placenta. 2021 Mar;106:7-14. doi: 10.1016/j.placenta.2021.02.001. Epub 2021 Feb 07.

INTRODUCTION: As key components of DNA repair pathways, DNA ligases catalyze the formation of phosphodiester bonds between DNA single strands, which function as a "glue" to seal the DNA breaks. DNA ligases play important roles in almost all the...

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Li PF, Xiang YG, Zhang D, et al. Downregulation of DNA ligases in trophoblasts contributes to recurrent pregnancy loss through inducing DNA damages. Placenta. 2021;106:7-14doi: 10.1016/j.placenta.2021.02.001.
Li, P. F., Xiang, Y. G., Zhang, D., Lu, N., Dou, Q., & Tan, L. (2021). Downregulation of DNA ligases in trophoblasts contributes to recurrent pregnancy loss through inducing DNA damages. Placenta, 1067-14. https://doi.org/10.1016/j.placenta.2021.02.001
Li, Peng-Fen, et al. "Downregulation of DNA ligases in trophoblasts contributes to recurrent pregnancy loss through inducing DNA damages." Placenta vol. 106 (2021): 7-14. doi: https://doi.org/10.1016/j.placenta.2021.02.001
Li PF, Xiang YG, Zhang D, Lu N, Dou Q, Tan L. Downregulation of DNA ligases in trophoblasts contributes to recurrent pregnancy loss through inducing DNA damages. Placenta. 2021 Mar;106:7-14. doi: 10.1016/j.placenta.2021.02.001. Epub 2021 Feb 07. PMID: 33601221.
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Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DNA.

Acta naturae

Vinogradova OA, Pyshnyi DV.
PMID: 22649627
Acta Naturae. 2010 Apr;2(1):36-53.

The analysis of DNA nucleotide polymorphisms is one of the main goals of DNA diagnostics. DNA-dependent enzymes (DNA polymerases and DNA ligases) are widely used to enhance the sensitivity and reliability of systems intended for the detection of point...

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Vinogradova OA, Pyshnyi DV. Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DNA. Acta Naturae. 2010;2(1):36-53
Vinogradova, O. A., & Pyshnyi, D. V. (2010). Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DNA. Acta naturae, 2(1), 36-53.
Vinogradova, O A, and Pyshnyi, D V. "Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DNA." Acta naturae vol. 2,1 (2010): 36-53.
Vinogradova OA, Pyshnyi DV. Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DNA. Acta Naturae. 2010 Apr;2(1):36-53. PMID: 22649627; PMCID: PMC3347538.
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Alternative Okazaki Fragment Ligation Pathway by DNA Ligase III.

Genes

Arakawa H, Iliakis G.
PMID: 26110316
Genes (Basel). 2015 Jun 23;6(2):385-98. doi: 10.3390/genes6020385.

Higher eukaryotes have three types of DNA ligases: DNA ligase 1 (Lig1), DNA ligase 3 (Lig3) and DNA ligase 4 (Lig4). While Lig1 and Lig4 are present in all eukaryotes from yeast to human, Lig3 appears sporadically in evolution...

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Arakawa H, Iliakis G. Alternative Okazaki Fragment Ligation Pathway by DNA Ligase III. Genes (Basel). 2015;6(2):385-98doi: 10.3390/genes6020385.
Arakawa, H., & Iliakis, G. (2015). Alternative Okazaki Fragment Ligation Pathway by DNA Ligase III. Genes, 6(2), 385-98. https://doi.org/10.3390/genes6020385
Arakawa, Hiroshi, and Iliakis, George. "Alternative Okazaki Fragment Ligation Pathway by DNA Ligase III." Genes vol. 6,2 (2015): 385-98. doi: https://doi.org/10.3390/genes6020385
Arakawa H, Iliakis G. Alternative Okazaki Fragment Ligation Pathway by DNA Ligase III. Genes (Basel). 2015 Jun 23;6(2):385-98. doi: 10.3390/genes6020385. PMID: 26110316; PMCID: PMC4488670.
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Expression of DNA ligase genes by ram spermatid nuclei and RNA in amphibian eggs.

Roux's archives of developmental biology : the official organ of the EDBO

David JC, Loir M, Lefresne J, Thiebaud P, Signoret J.
PMID: 28305254
Rouxs Arch Dev Biol. 1986 Apr;195(3):186-192. doi: 10.1007/BF02439437.

During animal development and gametogenesis two DNA ligases are found and successively expressed. In this study the two DNA ligases present in the axolotl egg and the two ligases present during ram sperm cell maturation were distinguished by biochemical...

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David JC, Loir M, Lefresne J, et al. Expression of DNA ligase genes by ram spermatid nuclei and RNA in amphibian eggs. Rouxs Arch Dev Biol. 1986;195(3):186-192doi: 10.1007/BF02439437.
David, J. C., Loir, M., Lefresne, J., Thiebaud, P., & Signoret, J. (1986). Expression of DNA ligase genes by ram spermatid nuclei and RNA in amphibian eggs. Roux's archives of developmental biology : the official organ of the EDBO, 195(3), 186-192. https://doi.org/10.1007/BF02439437
David, J C, et al. "Expression of DNA ligase genes by ram spermatid nuclei and RNA in amphibian eggs." Roux's archives of developmental biology : the official organ of the EDBO vol. 195,3 (1986): 186-192. doi: https://doi.org/10.1007/BF02439437
David JC, Loir M, Lefresne J, Thiebaud P, Signoret J. Expression of DNA ligase genes by ram spermatid nuclei and RNA in amphibian eggs. Rouxs Arch Dev Biol. 1986 Apr;195(3):186-192. doi: 10.1007/BF02439437. PMID: 28305254.
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Proliferating cell nuclear antigen restores the enzymatic activity of a DNA ligase I deficient in DNA binding.

FEBS open bio

Trasviña-Arenas CH, Cardona-Felix CS, Azuara-Liceaga E, Díaz-Quezada C, Brieba LG.
PMID: 28469979
FEBS Open Bio. 2017 Mar 16;7(5):659-674. doi: 10.1002/2211-5463.12209. eCollection 2017 May.

Proliferating cell nuclear antigen (PCNA) coordinates multienzymatic reactions by interacting with a variety of protein partners. Family I DNA ligases are multidomain proteins involved in sealing of DNA nicks during Okazaki fragment maturation and DNA repair. The interaction of...

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Trasviña-Arenas CH, Cardona-Felix CS, Azuara-Liceaga E, et al. Proliferating cell nuclear antigen restores the enzymatic activity of a DNA ligase I deficient in DNA binding. FEBS Open Bio. 2017;7(5):659-674doi: 10.1002/2211-5463.12209.
Trasviña-Arenas, C. H., Cardona-Felix, C. S., Azuara-Liceaga, E., Díaz-Quezada, C., & Brieba, L. G. (2017). Proliferating cell nuclear antigen restores the enzymatic activity of a DNA ligase I deficient in DNA binding. FEBS open bio, 7(5), 659-674. https://doi.org/10.1002/2211-5463.12209
Trasviña-Arenas, Carlos H, et al. "Proliferating cell nuclear antigen restores the enzymatic activity of a DNA ligase I deficient in DNA binding." FEBS open bio vol. 7,5 (2017): 659-674. doi: https://doi.org/10.1002/2211-5463.12209
Trasviña-Arenas CH, Cardona-Felix CS, Azuara-Liceaga E, Díaz-Quezada C, Brieba LG. Proliferating cell nuclear antigen restores the enzymatic activity of a DNA ligase I deficient in DNA binding. FEBS Open Bio. 2017 Mar 16;7(5):659-674. doi: 10.1002/2211-5463.12209. eCollection 2017 May. PMID: 28469979; PMCID: PMC5407892.
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