Literature DB >> 29099140

Mapping platinum adducts on yeast ribosomal RNA using high-throughput sequencing.

Kory Plakos1, Victoria J DeRose.   

Abstract

Methods to map small-molecule binding sites on cellular RNAs are important for understanding interactions with both endogenous and exogenous compounds. Pt(ii) reagents are well-known DNA and RNA crosslinking agents, but sequence-specific and genome-wide identification of Pt targets following in-cell treatment is challenging. Here we describe application of high-throughput 'Pt-Seq' to identify Pt-rRNA adducts following treatment of S. cerevisiae with cisplatin.

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Year:  2017        PMID： 29099140      PMCID： PMC5729026          DOI： 10.1039/c7cc06708a

Source DB:  PubMed          Journal:  Chem Commun (Camb)        ISSN： 1359-7345            Impact factor:   6.222


  30 in total

1.  Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis.

Authors:  Matthew J Smola; Greggory M Rice; Steven Busan; Nathan A Siegfried; Kevin M Weeks
Journal:  Nat Protoc       Date:  2015-10-01       Impact factor: 13.491

2.  A new role for cisplatin: probing ribosomal RNA structure.

Authors:  Keshab Rijal; Christine S Chow
Journal:  Chem Commun (Camb)       Date:  2008-11-10       Impact factor: 6.222

Review 3.  Binding of kinetically inert metal ions to RNA: the case of platinum(II).

Authors:  Erich G Chapman; Alethia A Hostetter; Maire F Osborn; Amanda L Miller; Victoria J DeRose
Journal:  Met Ions Life Sci       Date:  2011

4.  StructureFold: genome-wide RNA secondary structure mapping and reconstruction in vivo.

Authors:  Yin Tang; Emil Bouvier; Chun Kit Kwok; Yiliang Ding; Anton Nekrutenko; Philip C Bevilacqua; Sarah M Assmann
Journal:  Bioinformatics       Date:  2015-04-16       Impact factor: 6.937

Review 5.  Interaction of ricin and Shiga toxins with ribosomes.

Authors:  Nilgun E Tumer; Xiao-Ping Li
Journal:  Curr Top Microbiol Immunol       Date:  2012       Impact factor: 4.291

6.  HTSeq--a Python framework to work with high-throughput sequencing data.

Authors:  Simon Anders; Paul Theodor Pyl; Wolfgang Huber
Journal:  Bioinformatics       Date:  2014-09-25       Impact factor: 6.937

7.  Genome-wide profiling of mouse RNA secondary structures reveals key features of the mammalian transcriptome.

Authors:  Danny Incarnato; Francesco Neri; Francesca Anselmi; Salvatore Oliviero
Journal:  Genome Biol       Date:  2014       Impact factor: 13.583

8.  Cisplatin Targeting of Bacterial Ribosomal RNA Hairpins.

Authors:  Gayani N P Dedduwa-Mudalige; Christine S Chow
Journal:  Int J Mol Sci       Date:  2015-09-07       Impact factor: 5.923

9.  Identification of nucleotides and amino acids that mediate the interaction between ribosomal protein L30 and the SECIS element.

Authors:  Abby L Bifano; Tarik Atassi; Tracey Ferrara; Donna M Driscoll
Journal:  BMC Mol Biol       Date:  2013-06-19       Impact factor: 2.946

10.  Insights into RNA binding by the anticancer drug cisplatin from the crystal structure of cisplatin-modified ribosome.

Authors:  Sergey V Melnikov; Dieter Söll; Thomas A Steitz; Yury S Polikanov
Journal:  Nucleic Acids Res       Date:  2016-04-13       Impact factor: 16.971
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  2 in total

1.  Human ribosomal G-quadruplexes regulate heme bioavailability.

Authors:  Santi Mestre-Fos; Chieri Ito; Courtney M Moore; Amit R Reddi; Loren Dean Williams
Journal:  J Biol Chem       Date:  2020-08-13       Impact factor: 5.157

2.  Amino acid-linked platinum(II) compounds: non-canonical nucleoside preferences and influence on glycosidic bond stabilities.

Authors:  Bett Kimutai; C C He; Andrew Roberts; Marcel L Jones; Xun Bao; Jun Jiang; Zhihua Yang; M T Rodgers; Christine S Chow
Journal:  J Biol Inorg Chem       Date:  2019-07-29       Impact factor: 3.358
  2 in total

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