4.0 Article

Homologues of epigenetic pyrimidines: 5-alkyl-, 5-hydroxyalkyl and 5-acyluracil and -cytosine nucleotides: synthesis, enzymatic incorporation into DNA and effect on transcription with bacterial RNA polymerase

Related references

Note: Only part of the references are listed.
Article Chemistry, Multidisciplinary

Glucosylated 5-Hydroxymethylpyrimidines as Epigenetic DNA Bases Regulating Transcription and Restriction Cleavage

Aswathi Chakrapani et al.

Summary: This study investigates the effects of glucosylation on DNA containing modified bases and its impact on transcription activity in bacteriophages or kinetoplastid parasites. The results show that glucosylation fully protects DNA from restriction endonuclease cleavage and while glucosylated 5hmU inhibits transcription, glucosylated 5hmC allows similar levels of transcription as natural DNA. Therefore, enzymatic glucosylation of 5hmC-containing DNA can be used to modulate transcription activity.

CHEMISTRY-A EUROPEAN JOURNAL (2022)

Article Biochemistry & Molecular Biology

Pathways of thymidine hypermodification

Yan-Jiun Lee et al.

Summary: The DNA of bacterial viruses contains chemically complex modifications to thymidine that protect them from cellular defenses, with these modifications derived from enzymatically installed amino acids on 5-hydroxymethyluridine. Various enzymes further sculpt these appended amino acids, resulting in a reservoir of chemical diversity in DNA hypermodifications.

NUCLEIC ACIDS RESEARCH (2022)

Article Chemistry, Multidisciplinary

Analysis of an Active Deformylation Mechanism of 5-Formyl-deoxycytidine (fdC) in Stem Cells

Alexander Schoen et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2020)

Review Biochemistry & Molecular Biology

Natural, modified DNA bases

Matthew K. Bilyard et al.

CURRENT OPINION IN CHEMICAL BIOLOGY (2020)

Review Chemistry, Multidisciplinary

Non-canonical Bases in the Genome: The Regulatory Information Layer in DNA

Thomas Carell et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2018)

Review Multidisciplinary Sciences

Dynamic DNA methylation: In the right place at the right time

Chongyuan Luo et al.

SCIENCE (2018)

Review Chemistry, Multidisciplinary

Mapping and elucidating the function of modified bases in DNA

Eun-Ang Raiber et al.

NATURE REVIEWS CHEMISTRY (2017)

Article Biotechnology & Applied Microbiology

Genome-wide mapping of 5-hydroxymethyluracil in the eukaryote parasite Leishmania

Fumiko Kawasaki et al.

GENOME BIOLOGY (2017)

Article Chemistry, Multidisciplinary

5-Formylcytosine Could Be a Semipermanent Base in Specific Genome Sites

Meng Su et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2016)

Review Chemistry, Multidisciplinary

Biosynthesis and Function of Modified Bases in Bacteria and Their Viruses

Peter Weigele et al.

CHEMICAL REVIEWS (2016)

Review Biotechnology & Applied Microbiology

Enigmatic 5-hydroxymethyluracil: Oxidatively modified base, epigenetic mark or both?

Ryszard Olinski et al.

MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH (2016)

Article Biochemistry & Molecular Biology

Influence of major-groove chemical modifications of DNA on transcription by bacterial RNA polymerases

Veronika Raindlova et al.

NUCLEIC ACIDS RESEARCH (2016)

Review Biochemistry & Molecular Biology

Nucleic Acid Modifications in Regulation of Gene Expression

Kai Chen et al.

CELL CHEMICAL BIOLOGY (2016)

Review Chemistry, Multidisciplinary

TET Family Proteins: Oxidation Activity, Interacting Molecules, and Functions in Diseases

Xingyu Lu et al.

CHEMICAL REVIEWS (2015)

Article Multidisciplinary Sciences

Structural insight into substrate preference for TET- mediated oxidation

Lulu Hu et al.

NATURE (2015)

Article Biochemistry & Molecular Biology

5-Formylcytosine can be a stable DNA modification in mammals

Martin Bachman et al.

NATURE CHEMICAL BIOLOGY (2015)

Article Biochemistry & Molecular Biology

5-Formylcytosine alters the structure of the DNA double helix

Eun-Ang Raiber et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2015)

Article Chemistry, Organic

Synthesis of novel derivatives of 5-hydroxymethylcytosine and 5-formylcytosine as tools for epigenetics

Anna Chentsova et al.

BEILSTEIN JOURNAL OF ORGANIC CHEMISTRY (2014)

Article Biochemistry & Molecular Biology

Tet oxidizes thymine to 5-hydroxymethyluracil in mouse embryonic stem cell DNA

Toni Pfaffeneder et al.

NATURE CHEMICAL BIOLOGY (2014)

Article Chemistry, Multidisciplinary

Deamination, Oxidation, and C-C Bond Cleavage Reactivity of 5-Hydroxymethylcytosine, 5-Formylcytosine, and 5-Carboxycytosine

Stefan Schiesser et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2013)

Review Chemistry, Multidisciplinary

5-Hydroxymethylcytosine, the Sixth Base of the Genome

Martin Muenzel et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2011)

Article Biochemistry & Molecular Biology

Cleavage of Functionalized DNA Containing 5-Modified Pyrimidines by Type II Restriction Endonucleases

Hana Macickova-Cahova et al.

CHEMBIOCHEM (2011)

Review Genetics & Heredity

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

Julie A. Law et al.

NATURE REVIEWS GENETICS (2010)

Article Biochemistry & Molecular Biology

5-formyluracil-induced perturbations of DNA function

DK Rogstad et al.

BIOCHEMISTRY (2004)