Literature DB >> 20392138

Oligonucleotide-based tools for studying zebrafish development.

Ilya A Shestopalov1, James K Chen.   

Abstract

Synthetic and nonnatural oligonucleotides have been used extensively to interrogate gene function in zebrafish. In this review, we survey the capabilities and limitations of various oligonucleotide-based technologies for perturbing RNA function and tracking RNA expression. We also examine recent strategies for achieving spatiotemporal control of oligonucleotide function, particularly light-gated technologies that exploit the optical transparency of zebrafish embryos.

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Year:  2010        PMID: 20392138      PMCID: PMC2860060          DOI: 10.1089/zeb.2010.0650

Source DB:  PubMed          Journal:  Zebrafish        ISSN: 1545-8547            Impact factor:   1.985


  55 in total

1.  Double-stranded RNA induces specific developmental defects in zebrafish embryos.

Authors:  A Wargelius; S Ellingsen; A Fjose
Journal:  Biochem Biophys Res Commun       Date:  1999-09-16       Impact factor: 3.575

2.  Double in situ hybridization techniques in zebrafish.

Authors:  T Jowett
Journal:  Methods       Date:  2001-04       Impact factor: 3.608

3.  MicroRNA expression in zebrafish embryonic development.

Authors:  Erno Wienholds; Wigard P Kloosterman; Eric Miska; Ezequiel Alvarez-Saavedra; Eugene Berezikov; Ewart de Bruijn; H Robert Horvitz; Sakari Kauppinen; Ronald H A Plasterk
Journal:  Science       Date:  2005-05-26       Impact factor: 47.728

4.  High-resolution in situ hybridization to whole-mount zebrafish embryos.

Authors:  Christine Thisse; Bernard Thisse
Journal:  Nat Protoc       Date:  2008       Impact factor: 13.491

5.  Light-controlled gene silencing in zebrafish embryos.

Authors:  Ilya A Shestopalov; Surajit Sinha; James K Chen
Journal:  Nat Chem Biol       Date:  2007-08-23       Impact factor: 15.040

Review 6.  Controlling morpholino experiments: don't stop making antisense.

Authors:  Judith S Eisen; James C Smith
Journal:  Development       Date:  2008-04-09       Impact factor: 6.868

Review 7.  Chemical technologies for probing embryonic development.

Authors:  Ilya A Shestopalov; James K Chen
Journal:  Chem Soc Rev       Date:  2008-05-07       Impact factor: 54.564

8.  Photo-mediated gene activation using caged RNA/DNA in zebrafish embryos.

Authors:  H Ando; T Furuta; R Y Tsien; H Okamoto
Journal:  Nat Genet       Date:  2001-08       Impact factor: 38.330

9.  Transient establishment of anteroposterior polarity in the zebrafish pectoral fin bud in the absence of sonic hedgehog activity.

Authors:  C J Neumann; H Grandel; W Gaffield; S Schulte-Merker; C Nüsslein-Volhard
Journal:  Development       Date:  1999-11       Impact factor: 6.868

10.  Targeted inhibition of miRNA maturation with morpholinos reveals a role for miR-375 in pancreatic islet development.

Authors:  Wigard P Kloosterman; Anne K Lagendijk; René F Ketting; Jon D Moulton; Ronald H A Plasterk
Journal:  PLoS Biol       Date:  2007-08       Impact factor: 8.029

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  9 in total

Review 1.  New insights into signaling during myelination in zebrafish.

Authors:  Alya R Raphael; William S Talbot
Journal:  Curr Top Dev Biol       Date:  2011       Impact factor: 4.897

2.  Spatiotemporal control of embryonic gene expression using caged morpholinos.

Authors:  Ilya A Shestopalov; James K Chen
Journal:  Methods Cell Biol       Date:  2011       Impact factor: 1.441

3.  Small Molecule Control of Morpholino Antisense Oligonucleotide Function through Staudinger Reduction.

Authors:  Kristie Darrah; Joshua Wesalo; Bradley Lukasak; Michael Tsang; James K Chen; Alexander Deiters
Journal:  J Am Chem Soc       Date:  2021-10-27       Impact factor: 16.383

4.  Caged oligonucleotides for bidirectional photomodulation of let-7 miRNA in zebrafish embryos.

Authors:  Julianne C Griepenburg; Brittani K Ruble; Ivan J Dmochowski
Journal:  Bioorg Med Chem       Date:  2013-05-09       Impact factor: 3.641

5.  Turning gene function ON and OFF using sense and antisense photo-morpholinos in zebrafish.

Authors:  Alexandra Tallafuss; Dan Gibson; Paul Morcos; Yongfu Li; Steve Seredick; Judith Eisen; Philip Washbourne
Journal:  Development       Date:  2012-05       Impact factor: 6.868

Review 6.  Host-pathogen interactions made transparent with the zebrafish model.

Authors:  Annemarie H Meijer; Herman P Spaink
Journal:  Curr Drug Targets       Date:  2011-06       Impact factor: 3.465

7.  Nitroreductase-activatable morpholino oligonucleotides for in vivo gene silencing.

Authors:  Sayumi Yamazoe; Lindsey E McQuade; James K Chen
Journal:  ACS Chem Biol       Date:  2014-07-28       Impact factor: 5.100

Review 8.  The Development and Application of Opto-Chemical Tools in the Zebrafish.

Authors:  Zhiping Feng; Bertrand Ducos; Pierluigi Scerbo; Isabelle Aujard; Ludovic Jullien; David Bensimon
Journal:  Molecules       Date:  2022-09-22       Impact factor: 4.927

9.  Methods to Investigate miRNA Function: Focus on Platelet Reactivity.

Authors:  Alix Garcia; Sylvie Dunoyer-Geindre; Richard J Fish; Marguerite Neerman-Arbez; Jean-Luc Reny; Pierre Fontana
Journal:  Thromb Haemost       Date:  2020-10-29       Impact factor: 5.249

  9 in total

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