Dieter Buyst, Vicky Gheerardijn, J. Begin, A. Madder, José C. Martins
{"title":"Towards the de novo design of DNA based catalytic sites using a combined NMR and in silico approach","authors":"Dieter Buyst, Vicky Gheerardijn, J. Begin, A. Madder, José C. Martins","doi":"10.1135/CSS201414151","DOIUrl":"https://doi.org/10.1135/CSS201414151","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"151-154"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63712840","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
H. Kashida, Ayako Kurihara, Tomohiro Kato, H. Asanuma
{"title":"Orientation-dependent FRET between the intercalated donor and acceptor fluorophores","authors":"H. Kashida, Ayako Kurihara, Tomohiro Kato, H. Asanuma","doi":"10.1135/CSS201414186","DOIUrl":"https://doi.org/10.1135/CSS201414186","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"186-189"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713187","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Further improvements in disaccharide synthesis: synthesis of 2’-O-α-D-ribofuranosyladenosine and its derivatives","authors":"M. Drenichev, V. Oslovsky, S. Mikhailov","doi":"10.1135/CSS201414255","DOIUrl":"https://doi.org/10.1135/CSS201414255","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"55 1","pages":"255-256"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713319","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
E. Procházková, H. Hřebabecký, Radim Nencka, M. Dračínský
{"title":"Enzymatic decomposition of a locked nucleoside phosphoramidate monitored by 31 P NMR spectroscopy","authors":"E. Procházková, H. Hřebabecký, Radim Nencka, M. Dračínský","doi":"10.1135/CSS201414356","DOIUrl":"https://doi.org/10.1135/CSS201414356","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"356-357"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713404","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
A. Ono, I. Okamoto, Hideo Urata, Hidetake Torigoe, Hisao Saneyoshia, J. Kondo, Yoshiyuki Tanaka
{"title":"Syntheses and characterizations of DNA duplexes having metal ion mediated base pairs","authors":"A. Ono, I. Okamoto, Hideo Urata, Hidetake Torigoe, Hisao Saneyoshia, J. Kondo, Yoshiyuki Tanaka","doi":"10.1135/CSS201414014","DOIUrl":"https://doi.org/10.1135/CSS201414014","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"14-19"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63712363","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
I am going to discuss the latest results related to the function and distribution of the new nucleobases 5-hydroxymethylcytosine (hmC), 5-formylcytosine (fC), 5-carboxycytosine (caC) and 5-hydroxymethyluracil. These nucleobases seem to play an important role in epigenetic reprogramming of stem cells and some of these bases are also detected at relatively high levels in brain tissues. I will present new synthetic routes that enable preparation of these compounds and of the corresponding phosphoramidites using modern metal organic chemistry. Finally I will discuss how chemistry leads to new insights into the biology of stem cell development processes. In particular mass spectroscopy in combination with the availability of isotopically labeled material allows investigation of the distribution of these novel bases in various tissues and during stem cell development. The recently discovered base formylcytosine for example, is present at relatively high levels in stem cells and its distribution varies during development in a wave like fashion. I am going to describe the distribution of carboxylcytosine in somatic tissues and in stem cells and will provide new quantitative data derived from a detailed mass spectrometric analysis. In order to elucidate the function of the nucleobases we devised a new isotope tracing experiment that enables us to unravel the biochemistry of the bases with high precision and accuracy. I will discuss the synthesis of double [N]-labeled hmC, fC and caC and the preparation of DNA containing these isotopologes. The DNA strands are subsequently added to stem cell nuclear extracts and the formation of the novel nucleobases is followed by high sensitive mass spectrometry.
{"title":"DNA bases beyond Watson and Crick","authors":"T. Carell","doi":"10.1135/css201414175","DOIUrl":"https://doi.org/10.1135/css201414175","url":null,"abstract":"I am going to discuss the latest results related to the function and distribution of the new nucleobases 5-hydroxymethylcytosine (hmC), 5-formylcytosine (fC), 5-carboxycytosine (caC) and 5-hydroxymethyluracil. These nucleobases seem to play an important role in epigenetic reprogramming of stem cells and some of these bases are also detected at relatively high levels in brain tissues. I will present new synthetic routes that enable preparation of these compounds and of the corresponding phosphoramidites using modern metal organic chemistry. Finally I will discuss how chemistry leads to new insights into the biology of stem cell development processes. In particular mass spectroscopy in combination with the availability of isotopically labeled material allows investigation of the distribution of these novel bases in various tissues and during stem cell development. The recently discovered base formylcytosine for example, is present at relatively high levels in stem cells and its distribution varies during development in a wave like fashion. I am going to describe the distribution of carboxylcytosine in somatic tissues and in stem cells and will provide new quantitative data derived from a detailed mass spectrometric analysis. In order to elucidate the function of the nucleobases we devised a new isotope tracing experiment that enables us to unravel the biochemistry of the bases with high precision and accuracy. I will discuss the synthesis of double [N]-labeled hmC, fC and caC and the preparation of DNA containing these isotopologes. The DNA strands are subsequently added to stem cell nuclear extracts and the formation of the novel nucleobases is followed by high sensitive mass spectrometry.","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"175-175"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713076","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Thomas A. Waldbach, F. Bieber, B. Schaefer, T. Billert, M. Gruen
{"title":"Fluorescent nucleotides: a powerful toolbox for labeling of biological macromolecules","authors":"Thomas A. Waldbach, F. Bieber, B. Schaefer, T. Billert, M. Gruen","doi":"10.1135/CSS201414180","DOIUrl":"https://doi.org/10.1135/CSS201414180","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"180-182"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713135","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
P. Orság, Hana Pivoňková, Jan Riedl, Michal Hocek, M. Fojta
{"title":"Utilisation of enzymatic labelling with 4-aminophtalimide and 4-hydroxybenzylideneimidazolinone fluorescent derivates for monitoring of DNA-protein interaction","authors":"P. Orság, Hana Pivoňková, Jan Riedl, Michal Hocek, M. Fojta","doi":"10.1135/CSS201414340","DOIUrl":"https://doi.org/10.1135/CSS201414340","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"340-341"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713328","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
N. Dyatkina, Guangyi Wang, V. Rajwanshi, Hua Tan, Jin Hong, Qingling Zhang, J. Deval, J. Symons, L. Blatt, L. Beigelman
{"title":"5’- C -Alkylated analogs of gemcitabine: antiviral and anticancer properties","authors":"N. Dyatkina, Guangyi Wang, V. Rajwanshi, Hua Tan, Jin Hong, Qingling Zhang, J. Deval, J. Symons, L. Blatt, L. Beigelman","doi":"10.1135/CSS201414259","DOIUrl":"https://doi.org/10.1135/CSS201414259","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"259-261"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713365","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Structural basis of the binding of Actinomycin D to CGG triplet repeats","authors":"Y. Lo, W. Tseng, C. Chuang, M. Hou","doi":"10.1135/CSS201414278","DOIUrl":"https://doi.org/10.1135/CSS201414278","url":null,"abstract":"","PeriodicalId":10674,"journal":{"name":"Collection of Czechoslovak Chemical Communications","volume":"14 1","pages":"278-280"},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63713420","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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